-- dump date 20140619_124427 -- class Genbank::misc_feature -- table misc_feature_note -- id note 557433000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 557433000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 557433000003 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 557433000004 Walker A motif; other site 557433000005 ATP binding site [chemical binding]; other site 557433000006 Walker B motif; other site 557433000007 arginine finger; other site 557433000008 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 557433000009 DnaA box-binding interface [nucleotide binding]; other site 557433000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 557433000011 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 557433000012 putative DNA binding surface [nucleotide binding]; other site 557433000013 dimer interface [polypeptide binding]; other site 557433000014 beta-clamp/clamp loader binding surface; other site 557433000015 beta-clamp/translesion DNA polymerase binding surface; other site 557433000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 557433000017 recombination protein F; Reviewed; Region: recF; PRK00064 557433000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 557433000019 Walker A/P-loop; other site 557433000020 ATP binding site [chemical binding]; other site 557433000021 Q-loop/lid; other site 557433000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433000023 ABC transporter signature motif; other site 557433000024 Walker B; other site 557433000025 D-loop; other site 557433000026 H-loop/switch region; other site 557433000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 557433000028 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 557433000029 Mg2+ binding site [ion binding]; other site 557433000030 G-X-G motif; other site 557433000031 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 557433000032 anchoring element; other site 557433000033 dimer interface [polypeptide binding]; other site 557433000034 ATP binding site [chemical binding]; other site 557433000035 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 557433000036 active site 557433000037 putative metal-binding site [ion binding]; other site 557433000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557433000039 DNA gyrase subunit A; Validated; Region: PRK05560 557433000040 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 557433000041 CAP-like domain; other site 557433000042 active site 557433000043 primary dimer interface [polypeptide binding]; other site 557433000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433000050 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 557433000051 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557433000052 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 557433000053 dimer interface [polypeptide binding]; other site 557433000054 ssDNA binding site [nucleotide binding]; other site 557433000055 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433000056 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 557433000057 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 557433000058 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 557433000059 DHH family; Region: DHH; pfam01368 557433000060 DHHA1 domain; Region: DHHA1; pfam02272 557433000061 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 557433000062 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 557433000063 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 557433000064 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557433000065 replicative DNA helicase; Provisional; Region: PRK05748 557433000066 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 557433000067 Walker A motif; other site 557433000068 ATP binding site [chemical binding]; other site 557433000069 Walker B motif; other site 557433000070 DNA binding loops [nucleotide binding] 557433000071 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 557433000072 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433000073 putative substrate translocation pore; other site 557433000074 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 557433000075 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 557433000076 non-specific DNA binding site [nucleotide binding]; other site 557433000077 salt bridge; other site 557433000078 sequence-specific DNA binding site [nucleotide binding]; other site 557433000079 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557433000080 MarR family; Region: MarR_2; pfam12802 557433000081 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557433000082 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557433000083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433000084 Walker A/P-loop; other site 557433000085 ATP binding site [chemical binding]; other site 557433000086 Q-loop/lid; other site 557433000087 ABC transporter signature motif; other site 557433000088 Walker B; other site 557433000089 D-loop; other site 557433000090 H-loop/switch region; other site 557433000091 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433000092 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 557433000093 active site 557433000094 phosphorylation site [posttranslational modification] 557433000095 intermolecular recognition site; other site 557433000096 dimerization interface [polypeptide binding]; other site 557433000097 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 557433000098 DNA binding site [nucleotide binding] 557433000099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 557433000100 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 557433000101 dimerization interface [polypeptide binding]; other site 557433000102 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 557433000103 putative active site [active] 557433000104 heme pocket [chemical binding]; other site 557433000105 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 557433000106 dimer interface [polypeptide binding]; other site 557433000107 phosphorylation site [posttranslational modification] 557433000108 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 557433000109 ATP binding site [chemical binding]; other site 557433000110 Mg2+ binding site [ion binding]; other site 557433000111 G-X-G motif; other site 557433000112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 557433000113 YycH protein; Region: YycH; pfam07435 557433000114 YycH protein; Region: YycI; pfam09648 557433000115 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 557433000116 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557433000117 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 557433000118 protein binding site [polypeptide binding]; other site 557433000119 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 557433000120 tetramer interfaces [polypeptide binding]; other site 557433000121 binuclear metal-binding site [ion binding]; other site 557433000122 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 557433000123 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 557433000124 zinc binding site [ion binding]; other site 557433000125 putative ligand binding site [chemical binding]; other site 557433000126 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 557433000127 Predicted flavoprotein [General function prediction only]; Region: COG0431 557433000128 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557433000129 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 557433000130 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557433000131 dimer interface [polypeptide binding]; other site 557433000132 active site 557433000133 metal binding site [ion binding]; metal-binding site 557433000134 Sugar transport protein; Region: Sugar_transport; pfam06800 557433000135 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 557433000136 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 557433000137 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557433000138 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 557433000139 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 557433000140 NAD(P) binding site [chemical binding]; other site 557433000141 catalytic residues [active] 557433000142 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557433000143 HlyD family secretion protein; Region: HlyD_3; pfam13437 557433000144 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557433000145 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557433000146 Walker A/P-loop; other site 557433000147 ATP binding site [chemical binding]; other site 557433000148 Q-loop/lid; other site 557433000149 ABC transporter signature motif; other site 557433000150 Walker B; other site 557433000151 D-loop; other site 557433000152 H-loop/switch region; other site 557433000153 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557433000154 FtsX-like permease family; Region: FtsX; pfam02687 557433000155 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 557433000156 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 557433000157 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557433000158 OsmC-like protein; Region: OsmC; pfam02566 557433000159 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557433000160 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557433000161 homodimer interface [polypeptide binding]; other site 557433000162 ligand binding site [chemical binding]; other site 557433000163 NAD binding site [chemical binding]; other site 557433000164 catalytic site [active] 557433000165 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557433000166 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 557433000167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433000168 homodimer interface [polypeptide binding]; other site 557433000169 catalytic residue [active] 557433000170 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 557433000171 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557433000172 Walker A motif; other site 557433000173 ATP binding site [chemical binding]; other site 557433000174 Walker B motif; other site 557433000175 arginine finger; other site 557433000176 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 557433000177 Walker A motif; other site 557433000178 ATP binding site [chemical binding]; other site 557433000179 Walker B motif; other site 557433000180 arginine finger; other site 557433000181 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557433000182 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 557433000183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433000184 Coenzyme A binding pocket [chemical binding]; other site 557433000185 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 557433000186 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 557433000187 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 557433000188 putative active site [active] 557433000189 catalytic site [active] 557433000190 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 557433000191 putative active site [active] 557433000192 catalytic site [active] 557433000193 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 557433000194 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 557433000195 Part of AAA domain; Region: AAA_19; pfam13245 557433000196 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 557433000197 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 557433000198 Family description; Region: UvrD_C_2; pfam13538 557433000199 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 557433000200 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433000201 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433000202 DNA binding site [nucleotide binding] 557433000203 domain linker motif; other site 557433000204 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 557433000205 putative dimerization interface [polypeptide binding]; other site 557433000206 putative ligand binding site [chemical binding]; other site 557433000207 putative acyltransferase; Provisional; Region: PRK05790 557433000208 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 557433000209 dimer interface [polypeptide binding]; other site 557433000210 active site 557433000211 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 557433000212 putative substrate translocation pore; other site 557433000213 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433000214 maltose phosphorylase; Provisional; Region: PRK13807 557433000215 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 557433000216 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 557433000217 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 557433000218 beta-phosphoglucomutase; Region: bPGM; TIGR01990 557433000219 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 557433000220 motif II; other site 557433000221 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557433000222 synthetase active site [active] 557433000223 NTP binding site [chemical binding]; other site 557433000224 metal binding site [ion binding]; metal-binding site 557433000225 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433000226 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 557433000227 active site 557433000228 phosphorylation site [posttranslational modification] 557433000229 intermolecular recognition site; other site 557433000230 dimerization interface [polypeptide binding]; other site 557433000231 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 557433000232 DNA binding site [nucleotide binding] 557433000233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557433000234 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 557433000235 dimer interface [polypeptide binding]; other site 557433000236 phosphorylation site [posttranslational modification] 557433000237 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 557433000238 ATP binding site [chemical binding]; other site 557433000239 Mg2+ binding site [ion binding]; other site 557433000240 G-X-G motif; other site 557433000241 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 557433000242 Cl- selectivity filter; other site 557433000243 Cl- binding residues [ion binding]; other site 557433000244 pore gating glutamate residue; other site 557433000245 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 557433000246 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 557433000247 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433000248 Peptidase C26; Region: Peptidase_C26; pfam07722 557433000249 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 557433000250 catalytic triad [active] 557433000251 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 557433000252 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433000253 active site 557433000254 catalytic tetrad [active] 557433000255 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 557433000256 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 557433000257 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 557433000258 putative active site [active] 557433000259 catalytic site [active] 557433000260 putative metal binding site [ion binding]; other site 557433000261 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 557433000262 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557433000263 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 557433000264 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433000265 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557433000266 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 557433000267 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 557433000268 active site 557433000269 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 557433000270 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 557433000271 GDP-binding site [chemical binding]; other site 557433000272 ACT binding site; other site 557433000273 IMP binding site; other site 557433000274 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 557433000275 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 557433000276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433000277 active site 557433000278 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557433000279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557433000280 Probable transposase; Region: OrfB_IS605; pfam01385 557433000281 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557433000282 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433000283 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 557433000284 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 557433000285 catalytic triad [active] 557433000286 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557433000287 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 557433000288 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 557433000289 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557433000290 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 557433000291 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 557433000292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557433000293 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 557433000294 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 557433000295 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 557433000296 Ca binding site [ion binding]; other site 557433000297 active site 557433000298 catalytic site [active] 557433000299 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 557433000300 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 557433000301 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433000302 putative substrate translocation pore; other site 557433000303 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 557433000304 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557433000305 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557433000306 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557433000307 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557433000308 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557433000309 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 557433000310 substrate binding site [chemical binding]; other site 557433000311 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557433000312 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 557433000313 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557433000314 catalytic site [active] 557433000315 subunit interface [polypeptide binding]; other site 557433000316 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 557433000317 putative substrate translocation pore; other site 557433000318 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433000319 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433000320 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433000321 DNA binding site [nucleotide binding] 557433000322 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 557433000323 dimerization interface [polypeptide binding]; other site 557433000324 ligand binding site [chemical binding]; other site 557433000325 TRAM domain; Region: TRAM; pfam01938 557433000326 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 557433000327 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 557433000328 S-adenosylmethionine binding site [chemical binding]; other site 557433000329 Predicted flavoprotein [General function prediction only]; Region: COG0431 557433000330 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557433000331 Predicted flavoprotein [General function prediction only]; Region: COG0431 557433000332 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557433000333 PAS domain; Region: PAS_10; pfam13596 557433000334 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 557433000335 ApbE family; Region: ApbE; pfam02424 557433000336 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 557433000337 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433000338 putative active site [active] 557433000339 putative NTP binding site [chemical binding]; other site 557433000340 putative nucleic acid binding site [nucleotide binding]; other site 557433000341 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433000342 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 557433000343 Rib/alpha-like repeat; Region: Rib; cl07159 557433000344 Rib/alpha-like repeat; Region: Rib; pfam08428 557433000345 seryl-tRNA synthetase; Provisional; Region: PRK05431 557433000346 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 557433000347 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 557433000348 dimer interface [polypeptide binding]; other site 557433000349 active site 557433000350 motif 1; other site 557433000351 motif 2; other site 557433000352 motif 3; other site 557433000353 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 557433000354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557433000355 substrate binding pocket [chemical binding]; other site 557433000356 membrane-bound complex binding site; other site 557433000357 hinge residues; other site 557433000358 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 557433000359 dimer interface [polypeptide binding]; other site 557433000360 conserved gate region; other site 557433000361 putative PBP binding loops; other site 557433000362 ABC-ATPase subunit interface; other site 557433000363 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557433000364 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557433000365 Walker A/P-loop; other site 557433000366 ATP binding site [chemical binding]; other site 557433000367 Q-loop/lid; other site 557433000368 ABC transporter signature motif; other site 557433000369 Walker B; other site 557433000370 D-loop; other site 557433000371 H-loop/switch region; other site 557433000372 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557433000373 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 557433000374 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 557433000375 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 557433000376 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 557433000377 active site 557433000378 tetramer interface [polypeptide binding]; other site 557433000379 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 557433000380 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557433000381 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557433000382 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 557433000383 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 557433000384 S-adenosylmethionine binding site [chemical binding]; other site 557433000385 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 557433000386 ParB-like nuclease domain; Region: ParBc; pfam02195 557433000387 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 557433000388 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 557433000389 P-loop; other site 557433000390 Magnesium ion binding site [ion binding]; other site 557433000391 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 557433000392 ParB-like nuclease domain; Region: ParB; smart00470 557433000393 KorB domain; Region: KorB; pfam08535 557433000394 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 557433000395 GTP-binding protein YchF; Reviewed; Region: PRK09601 557433000396 YchF GTPase; Region: YchF; cd01900 557433000397 G1 box; other site 557433000398 GTP/Mg2+ binding site [chemical binding]; other site 557433000399 Switch I region; other site 557433000400 G2 box; other site 557433000401 Switch II region; other site 557433000402 G3 box; other site 557433000403 G4 box; other site 557433000404 G5 box; other site 557433000405 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 557433000406 hypothetical protein; Validated; Region: PRK07668 557433000407 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 557433000408 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 557433000409 intersubunit interface [polypeptide binding]; other site 557433000410 active site 557433000411 catalytic residue [active] 557433000412 phosphopentomutase; Provisional; Region: PRK05362 557433000413 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 557433000414 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557433000415 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 557433000416 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557433000417 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 557433000418 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 557433000419 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 557433000420 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 557433000421 DNA binding residues [nucleotide binding] 557433000422 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 557433000423 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 557433000424 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 557433000425 active site 557433000426 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433000427 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 557433000428 active site 557433000429 phosphorylation site [posttranslational modification] 557433000430 intermolecular recognition site; other site 557433000431 dimerization interface [polypeptide binding]; other site 557433000432 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 557433000433 DNA binding site [nucleotide binding] 557433000434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557433000435 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 557433000436 dimer interface [polypeptide binding]; other site 557433000437 phosphorylation site [posttranslational modification] 557433000438 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 557433000439 ATP binding site [chemical binding]; other site 557433000440 Mg2+ binding site [ion binding]; other site 557433000441 G-X-G motif; other site 557433000442 AzlC protein; Region: AzlC; pfam03591 557433000443 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 557433000444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433000445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433000446 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 557433000447 dimerization interface [polypeptide binding]; other site 557433000448 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 557433000449 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557433000450 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557433000451 dihydroorotase; Validated; Region: pyrC; PRK09357 557433000452 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 557433000453 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 557433000454 active site 557433000455 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 557433000456 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 557433000457 heterodimer interface [polypeptide binding]; other site 557433000458 active site 557433000459 FMN binding site [chemical binding]; other site 557433000460 homodimer interface [polypeptide binding]; other site 557433000461 substrate binding site [chemical binding]; other site 557433000462 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 557433000463 active site 557433000464 dimer interface [polypeptide binding]; other site 557433000465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433000466 active site 557433000467 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 557433000468 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 557433000469 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 557433000470 S-adenosylmethionine binding site [chemical binding]; other site 557433000471 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557433000472 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557433000473 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 557433000474 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 557433000475 Potassium binding sites [ion binding]; other site 557433000476 Cesium cation binding sites [ion binding]; other site 557433000477 acetolactate synthase; Reviewed; Region: PRK08617 557433000478 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557433000479 PYR/PP interface [polypeptide binding]; other site 557433000480 dimer interface [polypeptide binding]; other site 557433000481 TPP binding site [chemical binding]; other site 557433000482 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557433000483 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 557433000484 TPP-binding site [chemical binding]; other site 557433000485 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 557433000486 AIR carboxylase; Region: AIRC; pfam00731 557433000487 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 557433000488 ATP-grasp domain; Region: ATP-grasp; pfam02222 557433000489 adenylosuccinate lyase; Provisional; Region: PRK07492 557433000490 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 557433000491 tetramer interface [polypeptide binding]; other site 557433000492 active site 557433000493 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 557433000494 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 557433000495 ATP binding site [chemical binding]; other site 557433000496 active site 557433000497 substrate binding site [chemical binding]; other site 557433000498 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 557433000499 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 557433000500 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 557433000501 putative active site [active] 557433000502 catalytic triad [active] 557433000503 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 557433000504 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 557433000505 dimerization interface [polypeptide binding]; other site 557433000506 ATP binding site [chemical binding]; other site 557433000507 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 557433000508 dimerization interface [polypeptide binding]; other site 557433000509 ATP binding site [chemical binding]; other site 557433000510 amidophosphoribosyltransferase; Provisional; Region: PRK07272 557433000511 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 557433000512 active site 557433000513 tetramer interface [polypeptide binding]; other site 557433000514 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433000515 active site 557433000516 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 557433000517 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 557433000518 dimerization interface [polypeptide binding]; other site 557433000519 putative ATP binding site [chemical binding]; other site 557433000520 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 557433000521 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 557433000522 active site 557433000523 substrate binding site [chemical binding]; other site 557433000524 cosubstrate binding site; other site 557433000525 catalytic site [active] 557433000526 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 557433000527 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 557433000528 purine monophosphate binding site [chemical binding]; other site 557433000529 dimer interface [polypeptide binding]; other site 557433000530 putative catalytic residues [active] 557433000531 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 557433000532 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 557433000533 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 557433000534 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 557433000535 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 557433000536 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 557433000537 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 557433000538 catalytic core [active] 557433000539 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 557433000540 Protein of unknown function (DUF975); Region: DUF975; cl10504 557433000541 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 557433000542 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557433000543 active site 557433000544 HIGH motif; other site 557433000545 dimer interface [polypeptide binding]; other site 557433000546 KMSKS motif; other site 557433000547 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 557433000548 RNA binding surface [nucleotide binding]; other site 557433000549 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557433000550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433000551 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557433000552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433000553 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557433000554 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557433000555 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557433000556 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557433000557 Integrase core domain; Region: rve; pfam00665 557433000558 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 557433000559 nudix motif; other site 557433000560 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 557433000561 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 557433000562 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 557433000563 active site 557433000564 Isochorismatase family; Region: Isochorismatase; pfam00857 557433000565 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 557433000566 catalytic triad [active] 557433000567 conserved cis-peptide bond; other site 557433000568 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 557433000569 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 557433000570 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557433000571 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 557433000572 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557433000573 substrate binding site [chemical binding]; other site 557433000574 ATP binding site [chemical binding]; other site 557433000575 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557433000576 Predicted transcriptional regulators [Transcription]; Region: COG1733 557433000577 metabolite-proton symporter; Region: 2A0106; TIGR00883 557433000578 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 557433000579 putative substrate translocation pore; other site 557433000580 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 557433000581 classical (c) SDRs; Region: SDR_c; cd05233 557433000582 NAD(P) binding site [chemical binding]; other site 557433000583 active site 557433000584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557433000585 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557433000586 NAD(P) binding site [chemical binding]; other site 557433000587 active site 557433000588 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557433000589 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 557433000590 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 557433000591 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557433000592 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 557433000593 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 557433000594 triosephosphate isomerase; Provisional; Region: PRK14565 557433000595 substrate binding site [chemical binding]; other site 557433000596 dimer interface [polypeptide binding]; other site 557433000597 catalytic triad [active] 557433000598 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 557433000599 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433000600 active site 557433000601 catalytic tetrad [active] 557433000602 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 557433000603 active site 557433000604 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 557433000605 PLD-like domain; Region: PLDc_2; pfam13091 557433000606 putative homodimer interface [polypeptide binding]; other site 557433000607 putative active site [active] 557433000608 catalytic site [active] 557433000609 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557433000610 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 557433000611 ATP binding site [chemical binding]; other site 557433000612 putative Mg++ binding site [ion binding]; other site 557433000613 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 557433000614 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 557433000615 nucleotide binding region [chemical binding]; other site 557433000616 ATP-binding site [chemical binding]; other site 557433000617 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 557433000618 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 557433000619 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433000620 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557433000621 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 557433000622 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 557433000623 active site 557433000624 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 557433000625 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557433000626 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557433000627 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 557433000628 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 557433000629 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 557433000630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557433000631 NAD(P) binding site [chemical binding]; other site 557433000632 active site 557433000633 Predicted transcriptional regulator [Transcription]; Region: COG1959 557433000634 Transcriptional regulator; Region: Rrf2; cl17282 557433000635 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 557433000636 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 557433000637 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 557433000638 dimer interface [polypeptide binding]; other site 557433000639 conserved gate region; other site 557433000640 ABC-ATPase subunit interface; other site 557433000641 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557433000642 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 557433000643 Walker A/P-loop; other site 557433000644 ATP binding site [chemical binding]; other site 557433000645 Q-loop/lid; other site 557433000646 ABC transporter signature motif; other site 557433000647 Walker B; other site 557433000648 D-loop; other site 557433000649 H-loop/switch region; other site 557433000650 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 557433000651 dimer interface [polypeptide binding]; other site 557433000652 conserved gate region; other site 557433000653 ABC-ATPase subunit interface; other site 557433000654 methionine sulfoxide reductase B; Provisional; Region: PRK00222 557433000655 SelR domain; Region: SelR; pfam01641 557433000656 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 557433000657 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 557433000658 Cl- selectivity filter; other site 557433000659 Cl- binding residues [ion binding]; other site 557433000660 pore gating glutamate residue; other site 557433000661 dimer interface [polypeptide binding]; other site 557433000662 H+/Cl- coupling transport residue; other site 557433000663 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 557433000664 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 557433000665 metal binding site [ion binding]; metal-binding site 557433000666 dimer interface [polypeptide binding]; other site 557433000667 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 557433000668 ABC-ATPase subunit interface; other site 557433000669 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 557433000670 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 557433000671 Walker A/P-loop; other site 557433000672 ATP binding site [chemical binding]; other site 557433000673 Q-loop/lid; other site 557433000674 ABC transporter signature motif; other site 557433000675 Walker B; other site 557433000676 D-loop; other site 557433000677 H-loop/switch region; other site 557433000678 NIL domain; Region: NIL; pfam09383 557433000679 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557433000680 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557433000681 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557433000682 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433000683 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 557433000684 NAD binding site [chemical binding]; other site 557433000685 dimer interface [polypeptide binding]; other site 557433000686 substrate binding site [chemical binding]; other site 557433000687 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 557433000688 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433000689 putative substrate translocation pore; other site 557433000690 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 557433000691 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557433000692 minor groove reading motif; other site 557433000693 helix-hairpin-helix signature motif; other site 557433000694 substrate binding pocket [chemical binding]; other site 557433000695 active site 557433000696 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 557433000697 amino acid transporter; Region: 2A0306; TIGR00909 557433000698 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 557433000699 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 557433000700 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 557433000701 inhibitor-cofactor binding pocket; inhibition site 557433000702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433000703 catalytic residue [active] 557433000704 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557433000705 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 557433000706 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 557433000707 Part of AAA domain; Region: AAA_19; pfam13245 557433000708 Family description; Region: UvrD_C_2; pfam13538 557433000709 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 557433000710 active site 557433000711 multimer interface [polypeptide binding]; other site 557433000712 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557433000713 DNA methylase; Region: N6_N4_Mtase; cl17433 557433000714 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 557433000715 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 557433000716 active site 557433000717 HIGH motif; other site 557433000718 dimer interface [polypeptide binding]; other site 557433000719 KMSKS motif; other site 557433000720 exopolyphosphatase; Region: exo_poly_only; TIGR03706 557433000721 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557433000722 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 557433000723 homodimer interface [polypeptide binding]; other site 557433000724 catalytic residues [active] 557433000725 NAD binding site [chemical binding]; other site 557433000726 substrate binding pocket [chemical binding]; other site 557433000727 flexible flap; other site 557433000728 NAD-dependent deacetylase; Provisional; Region: PRK00481 557433000729 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 557433000730 Protein of unknown function DUF72; Region: DUF72; pfam01904 557433000731 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 557433000732 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 557433000733 HIGH motif; other site 557433000734 active site 557433000735 KMSKS motif; other site 557433000736 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 557433000737 tRNA binding surface [nucleotide binding]; other site 557433000738 anticodon binding site; other site 557433000739 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 557433000740 dimer interface [polypeptide binding]; other site 557433000741 putative tRNA-binding site [nucleotide binding]; other site 557433000742 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557433000743 active site 557433000744 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 557433000745 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 557433000746 putative active site [active] 557433000747 putative metal binding site [ion binding]; other site 557433000748 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 557433000749 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 557433000750 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 557433000751 S-adenosylmethionine binding site [chemical binding]; other site 557433000752 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 557433000753 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 557433000754 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557433000755 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 557433000756 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 557433000757 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 557433000758 metal binding site [ion binding]; metal-binding site 557433000759 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557433000760 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557433000761 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557433000762 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 557433000763 pur operon repressor; Provisional; Region: PRK09213 557433000764 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 557433000765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433000766 active site 557433000767 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 557433000768 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 557433000769 Substrate binding site; other site 557433000770 Mg++ binding site; other site 557433000771 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 557433000772 active site 557433000773 substrate binding site [chemical binding]; other site 557433000774 CoA binding site [chemical binding]; other site 557433000775 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557433000776 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557433000777 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433000778 active site 557433000779 sugar phosphate phosphatase; Provisional; Region: PRK10513 557433000780 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 557433000781 active site 557433000782 motif I; other site 557433000783 motif II; other site 557433000784 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557433000785 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 557433000786 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557433000787 Zn2+ binding site [ion binding]; other site 557433000788 Mg2+ binding site [ion binding]; other site 557433000789 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 557433000790 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433000791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557433000792 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557433000793 Probable transposase; Region: OrfB_IS605; pfam01385 557433000794 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557433000795 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 557433000796 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 557433000797 CTP synthetase; Validated; Region: pyrG; PRK05380 557433000798 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 557433000799 Catalytic site [active] 557433000800 active site 557433000801 UTP binding site [chemical binding]; other site 557433000802 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 557433000803 active site 557433000804 putative oxyanion hole; other site 557433000805 catalytic triad [active] 557433000806 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 557433000807 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433000808 putative active site [active] 557433000809 putative NTP binding site [chemical binding]; other site 557433000810 putative nucleic acid binding site [nucleotide binding]; other site 557433000811 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433000812 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557433000813 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 557433000814 hinge; other site 557433000815 active site 557433000816 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 557433000817 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 557433000818 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557433000819 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 557433000820 active site 557433000821 catalytic site [active] 557433000822 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 557433000823 triosephosphate isomerase; Provisional; Region: PRK14565 557433000824 substrate binding site [chemical binding]; other site 557433000825 dimer interface [polypeptide binding]; other site 557433000826 catalytic triad [active] 557433000827 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 557433000828 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 557433000829 intersubunit interface [polypeptide binding]; other site 557433000830 active site 557433000831 zinc binding site [ion binding]; other site 557433000832 Na+ binding site [ion binding]; other site 557433000833 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 557433000834 catalytic core [active] 557433000835 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 557433000836 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 557433000837 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557433000838 active site 557433000839 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 557433000840 heat shock protein HtpX; Provisional; Region: PRK04897 557433000841 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 557433000842 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557433000843 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557433000844 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557433000845 helicase 45; Provisional; Region: PTZ00424 557433000846 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 557433000847 ATP binding site [chemical binding]; other site 557433000848 Mg++ binding site [ion binding]; other site 557433000849 motif III; other site 557433000850 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 557433000851 nucleotide binding region [chemical binding]; other site 557433000852 ATP-binding site [chemical binding]; other site 557433000853 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557433000854 Helix-turn-helix domain; Region: HTH_38; pfam13936 557433000855 Integrase core domain; Region: rve; pfam00665 557433000856 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 557433000857 Glutaminase; Region: Glutaminase; cl00907 557433000858 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433000859 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 557433000860 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433000861 putative active site [active] 557433000862 putative NTP binding site [chemical binding]; other site 557433000863 putative nucleic acid binding site [nucleotide binding]; other site 557433000864 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433000865 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 557433000866 DltD N-terminal region; Region: DltD_N; pfam04915 557433000867 DltD central region; Region: DltD_M; pfam04918 557433000868 DltD C-terminal region; Region: DltD_C; pfam04914 557433000869 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 557433000870 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 557433000871 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 557433000872 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 557433000873 acyl-activating enzyme (AAE) consensus motif; other site 557433000874 AMP binding site [chemical binding]; other site 557433000875 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 557433000876 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 557433000877 alanine racemase; Reviewed; Region: alr; PRK00053 557433000878 active site 557433000879 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557433000880 dimer interface [polypeptide binding]; other site 557433000881 substrate binding site [chemical binding]; other site 557433000882 catalytic residues [active] 557433000883 PemK-like protein; Region: PemK; pfam02452 557433000884 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 557433000885 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 557433000886 Na binding site [ion binding]; other site 557433000887 cytosine deaminase; Provisional; Region: PRK09230 557433000888 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 557433000889 active site 557433000890 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557433000891 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 557433000892 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 557433000893 putative active site [active] 557433000894 catalytic residue [active] 557433000895 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 557433000896 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 557433000897 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 557433000898 ATP binding site [chemical binding]; other site 557433000899 putative Mg++ binding site [ion binding]; other site 557433000900 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 557433000901 nucleotide binding region [chemical binding]; other site 557433000902 ATP-binding site [chemical binding]; other site 557433000903 TRCF domain; Region: TRCF; pfam03461 557433000904 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 557433000905 RNA binding surface [nucleotide binding]; other site 557433000906 hypothetical protein; Provisional; Region: PRK08582 557433000907 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 557433000908 RNA binding site [nucleotide binding]; other site 557433000909 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 557433000910 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 557433000911 Ligand Binding Site [chemical binding]; other site 557433000912 TilS substrate C-terminal domain; Region: TilS_C; smart00977 557433000913 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433000914 active site 557433000915 FtsH Extracellular; Region: FtsH_ext; pfam06480 557433000916 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 557433000917 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 557433000918 Walker A motif; other site 557433000919 ATP binding site [chemical binding]; other site 557433000920 Walker B motif; other site 557433000921 arginine finger; other site 557433000922 Peptidase family M41; Region: Peptidase_M41; pfam01434 557433000923 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 557433000924 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 557433000925 dimerization interface [polypeptide binding]; other site 557433000926 domain crossover interface; other site 557433000927 redox-dependent activation switch; other site 557433000928 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 557433000929 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 557433000930 FMN binding site [chemical binding]; other site 557433000931 active site 557433000932 catalytic residues [active] 557433000933 substrate binding site [chemical binding]; other site 557433000934 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 557433000935 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 557433000936 dimer interface [polypeptide binding]; other site 557433000937 putative anticodon binding site; other site 557433000938 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 557433000939 motif 1; other site 557433000940 active site 557433000941 motif 2; other site 557433000942 motif 3; other site 557433000943 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557433000944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433000945 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557433000946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433000947 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557433000948 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557433000949 Bacterial lipoprotein; Region: DUF3642; pfam12182 557433000950 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 557433000951 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 557433000952 POT family; Region: PTR2; cl17359 557433000953 putative phosphoesterase; Region: acc_ester; TIGR03729 557433000954 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557433000955 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433000956 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 557433000957 putative substrate translocation pore; other site 557433000958 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 557433000959 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 557433000960 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 557433000961 TrkA-C domain; Region: TrkA_C; pfam02080 557433000962 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 557433000963 aspartate racemase; Region: asp_race; TIGR00035 557433000964 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 557433000965 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557433000966 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557433000967 DNA-binding site [nucleotide binding]; DNA binding site 557433000968 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 557433000969 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 557433000970 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 557433000971 active site 557433000972 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 557433000973 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 557433000974 homodimer interface [polypeptide binding]; other site 557433000975 NAD binding pocket [chemical binding]; other site 557433000976 ATP binding pocket [chemical binding]; other site 557433000977 Mg binding site [ion binding]; other site 557433000978 active-site loop [active] 557433000979 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 557433000980 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 557433000981 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 557433000982 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 557433000983 RNA binding site [nucleotide binding]; other site 557433000984 hypothetical protein; Provisional; Region: PRK04351 557433000985 SprT homologues; Region: SprT; cl01182 557433000986 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 557433000987 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 557433000988 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 557433000989 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 557433000990 Predicted integral membrane protein [Function unknown]; Region: COG5617 557433000991 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 557433000992 catalytic core [active] 557433000993 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557433000994 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557433000995 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 557433000996 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 557433000997 homodimer interface [polypeptide binding]; other site 557433000998 substrate-cofactor binding pocket; other site 557433000999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433001000 catalytic residue [active] 557433001001 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557433001002 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 557433001003 dimer interface [polypeptide binding]; other site 557433001004 conserved gate region; other site 557433001005 putative PBP binding loops; other site 557433001006 ABC-ATPase subunit interface; other site 557433001007 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557433001008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433001009 Walker A/P-loop; other site 557433001010 ATP binding site [chemical binding]; other site 557433001011 Q-loop/lid; other site 557433001012 ABC transporter signature motif; other site 557433001013 Walker B; other site 557433001014 D-loop; other site 557433001015 H-loop/switch region; other site 557433001016 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 557433001017 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 557433001018 substrate binding pocket [chemical binding]; other site 557433001019 membrane-bound complex binding site; other site 557433001020 hinge residues; other site 557433001021 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 557433001022 trimer interface [polypeptide binding]; other site 557433001023 active site 557433001024 G bulge; other site 557433001025 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 557433001026 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433001027 active site 557433001028 dimer interface [polypeptide binding]; other site 557433001029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433001030 Coenzyme A binding pocket [chemical binding]; other site 557433001031 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557433001032 trimer interface [polypeptide binding]; other site 557433001033 active site 557433001034 DNA repair protein RadA; Provisional; Region: PRK11823 557433001035 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 557433001036 Walker A motif/ATP binding site; other site 557433001037 ATP binding site [chemical binding]; other site 557433001038 Walker B motif; other site 557433001039 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557433001040 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 557433001041 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 557433001042 putative active site [active] 557433001043 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 557433001044 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557433001045 active site 557433001046 HIGH motif; other site 557433001047 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557433001048 KMSKS motif; other site 557433001049 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557433001050 tRNA binding surface [nucleotide binding]; other site 557433001051 anticodon binding site; other site 557433001052 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 557433001053 active site 557433001054 metal binding site [ion binding]; metal-binding site 557433001055 dimerization interface [polypeptide binding]; other site 557433001056 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 557433001057 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 557433001058 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557433001059 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 557433001060 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 557433001061 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 557433001062 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 557433001063 putative homodimer interface [polypeptide binding]; other site 557433001064 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 557433001065 heterodimer interface [polypeptide binding]; other site 557433001066 homodimer interface [polypeptide binding]; other site 557433001067 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 557433001068 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 557433001069 23S rRNA interface [nucleotide binding]; other site 557433001070 L7/L12 interface [polypeptide binding]; other site 557433001071 putative thiostrepton binding site; other site 557433001072 L25 interface [polypeptide binding]; other site 557433001073 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 557433001074 mRNA/rRNA interface [nucleotide binding]; other site 557433001075 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557433001076 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 557433001077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433001078 homodimer interface [polypeptide binding]; other site 557433001079 catalytic residue [active] 557433001080 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557433001081 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 557433001082 DXD motif; other site 557433001083 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 557433001084 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 557433001085 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 557433001086 active site 557433001087 homodimer interface [polypeptide binding]; other site 557433001088 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 557433001089 23S rRNA interface [nucleotide binding]; other site 557433001090 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 557433001091 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 557433001092 peripheral dimer interface [polypeptide binding]; other site 557433001093 core dimer interface [polypeptide binding]; other site 557433001094 L10 interface [polypeptide binding]; other site 557433001095 L11 interface [polypeptide binding]; other site 557433001096 putative EF-Tu interaction site [polypeptide binding]; other site 557433001097 putative EF-G interaction site [polypeptide binding]; other site 557433001098 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 557433001099 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 557433001100 Predicted transcriptional regulators [Transcription]; Region: COG1695 557433001101 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 557433001102 Predicted membrane protein [Function unknown]; Region: COG4709 557433001103 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 557433001104 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 557433001105 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 557433001106 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 557433001107 putative catalytic cysteine [active] 557433001108 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 557433001109 putative active site [active] 557433001110 metal binding site [ion binding]; metal-binding site 557433001111 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 557433001112 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 557433001113 dimer interface [polypeptide binding]; other site 557433001114 putative radical transfer pathway; other site 557433001115 diiron center [ion binding]; other site 557433001116 tyrosyl radical; other site 557433001117 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 557433001118 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 557433001119 Class I ribonucleotide reductase; Region: RNR_I; cd01679 557433001120 active site 557433001121 dimer interface [polypeptide binding]; other site 557433001122 catalytic residues [active] 557433001123 effector binding site; other site 557433001124 R2 peptide binding site; other site 557433001125 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 557433001126 catalytic residues [active] 557433001127 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 557433001128 nucleoside/Zn binding site; other site 557433001129 dimer interface [polypeptide binding]; other site 557433001130 catalytic motif [active] 557433001131 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 557433001132 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 557433001133 Walker A motif; other site 557433001134 ATP binding site [chemical binding]; other site 557433001135 Walker B motif; other site 557433001136 arginine finger; other site 557433001137 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 557433001138 hypothetical protein; Validated; Region: PRK00153 557433001139 recombination protein RecR; Reviewed; Region: recR; PRK00076 557433001140 RecR protein; Region: RecR; pfam02132 557433001141 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 557433001142 putative active site [active] 557433001143 putative metal-binding site [ion binding]; other site 557433001144 tetramer interface [polypeptide binding]; other site 557433001145 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 557433001146 thymidylate kinase; Validated; Region: tmk; PRK00698 557433001147 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 557433001148 TMP-binding site; other site 557433001149 ATP-binding site [chemical binding]; other site 557433001150 Protein of unknown function (DUF970); Region: DUF970; pfam06153 557433001151 DNA polymerase III subunit delta'; Validated; Region: PRK08058 557433001152 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 557433001153 Walker A motif; other site 557433001154 ATP binding site [chemical binding]; other site 557433001155 Walker B motif; other site 557433001156 arginine finger; other site 557433001157 Protein of unknown function (DUF972); Region: DUF972; pfam06156 557433001158 Predicted methyltransferases [General function prediction only]; Region: COG0313 557433001159 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 557433001160 putative SAM binding site [chemical binding]; other site 557433001161 putative homodimer interface [polypeptide binding]; other site 557433001162 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 557433001163 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 557433001164 active site 557433001165 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 557433001166 active site 2 [active] 557433001167 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 557433001168 polyphosphate kinase; Provisional; Region: PRK05443 557433001169 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 557433001170 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 557433001171 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 557433001172 putative domain interface [polypeptide binding]; other site 557433001173 putative active site [active] 557433001174 catalytic site [active] 557433001175 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 557433001176 putative domain interface [polypeptide binding]; other site 557433001177 putative active site [active] 557433001178 catalytic site [active] 557433001179 exopolyphosphatase; Region: exo_poly_only; TIGR03706 557433001180 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557433001181 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 557433001182 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 557433001183 NAD binding site [chemical binding]; other site 557433001184 homodimer interface [polypeptide binding]; other site 557433001185 active site 557433001186 substrate binding site [chemical binding]; other site 557433001187 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557433001188 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433001189 putative transposase OrfB; Reviewed; Region: PHA02517 557433001190 HTH-like domain; Region: HTH_21; pfam13276 557433001191 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557433001192 Glycoprotease family; Region: Peptidase_M22; pfam00814 557433001193 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 557433001194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433001195 Coenzyme A binding pocket [chemical binding]; other site 557433001196 UGMP family protein; Validated; Region: PRK09604 557433001197 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557433001198 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 557433001199 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557433001200 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 557433001201 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 557433001202 putative catalytic cysteine [active] 557433001203 gamma-glutamyl kinase; Provisional; Region: PRK05429 557433001204 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 557433001205 nucleotide binding site [chemical binding]; other site 557433001206 homotetrameric interface [polypeptide binding]; other site 557433001207 putative phosphate binding site [ion binding]; other site 557433001208 putative allosteric binding site; other site 557433001209 Predicted amidohydrolase [General function prediction only]; Region: COG0388 557433001210 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 557433001211 putative active site [active] 557433001212 catalytic triad [active] 557433001213 putative dimer interface [polypeptide binding]; other site 557433001214 transaminase; Reviewed; Region: PRK08068 557433001215 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 557433001216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433001217 homodimer interface [polypeptide binding]; other site 557433001218 catalytic residue [active] 557433001219 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 557433001220 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557433001221 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557433001222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557433001223 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557433001224 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 557433001225 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557433001226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433001227 Walker A/P-loop; other site 557433001228 ATP binding site [chemical binding]; other site 557433001229 Q-loop/lid; other site 557433001230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557433001231 ABC transporter signature motif; other site 557433001232 Walker B; other site 557433001233 D-loop; other site 557433001234 ABC transporter; Region: ABC_tran_2; pfam12848 557433001235 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557433001236 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 557433001237 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 557433001238 CoA binding domain; Region: CoA_binding; pfam02629 557433001239 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 557433001240 oligomerisation interface [polypeptide binding]; other site 557433001241 mobile loop; other site 557433001242 roof hairpin; other site 557433001243 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557433001244 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 557433001245 ring oligomerisation interface [polypeptide binding]; other site 557433001246 ATP/Mg binding site [chemical binding]; other site 557433001247 stacking interactions; other site 557433001248 hinge regions; other site 557433001249 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 557433001250 putative deacylase active site [active] 557433001251 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557433001252 Amino acid permease; Region: AA_permease_2; pfam13520 557433001253 K+ potassium transporter; Region: K_trans; cl15781 557433001254 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557433001255 MarR family; Region: MarR_2; pfam12802 557433001256 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 557433001257 putative substrate translocation pore; other site 557433001258 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433001259 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 557433001260 Uncharacterized conserved protein [Function unknown]; Region: COG1739 557433001261 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 557433001262 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 557433001263 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 557433001264 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 557433001265 ATP binding site [chemical binding]; other site 557433001266 putative Mg++ binding site [ion binding]; other site 557433001267 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 557433001268 nucleotide binding region [chemical binding]; other site 557433001269 ATP-binding site [chemical binding]; other site 557433001270 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 557433001271 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433001272 active site 557433001273 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 557433001274 30S subunit binding site; other site 557433001275 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12906 557433001276 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 557433001277 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 557433001278 nucleotide binding region [chemical binding]; other site 557433001279 ATP-binding site [chemical binding]; other site 557433001280 peptide chain release factor 2; Provisional; Region: PRK05589 557433001281 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557433001282 RF-1 domain; Region: RF-1; pfam00472 557433001283 PspC domain; Region: PspC; pfam04024 557433001284 Membrane protein of unknown function; Region: DUF360; pfam04020 557433001285 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 557433001286 HPr kinase/phosphorylase; Provisional; Region: PRK05428 557433001287 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 557433001288 Hpr binding site; other site 557433001289 active site 557433001290 homohexamer subunit interaction site [polypeptide binding]; other site 557433001291 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 557433001292 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 557433001293 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557433001294 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 557433001295 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557433001296 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 557433001297 active site 557433001298 tetramer interface; other site 557433001299 Uncharacterized conserved protein [Function unknown]; Region: COG1556 557433001300 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 557433001301 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 557433001302 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 557433001303 Cysteine-rich domain; Region: CCG; pfam02754 557433001304 Cysteine-rich domain; Region: CCG; pfam02754 557433001305 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 557433001306 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557433001307 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433001308 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 557433001309 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 557433001310 metal binding site [ion binding]; metal-binding site 557433001311 dimer interface [polypeptide binding]; other site 557433001312 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557433001313 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 557433001314 substrate binding pocket [chemical binding]; other site 557433001315 membrane-bound complex binding site; other site 557433001316 hinge residues; other site 557433001317 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 557433001318 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 557433001319 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 557433001320 active site 557433001321 substrate binding site [chemical binding]; other site 557433001322 metal binding site [ion binding]; metal-binding site 557433001323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557433001324 Zn2+ binding site [ion binding]; other site 557433001325 Mg2+ binding site [ion binding]; other site 557433001326 excinuclease ABC subunit B; Provisional; Region: PRK05298 557433001327 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 557433001328 ATP binding site [chemical binding]; other site 557433001329 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 557433001330 nucleotide binding region [chemical binding]; other site 557433001331 ATP-binding site [chemical binding]; other site 557433001332 Ultra-violet resistance protein B; Region: UvrB; pfam12344 557433001333 UvrB/uvrC motif; Region: UVR; pfam02151 557433001334 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 557433001335 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557433001336 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557433001337 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 557433001338 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 557433001339 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 557433001340 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 557433001341 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 557433001342 phosphate binding site [ion binding]; other site 557433001343 putative substrate binding pocket [chemical binding]; other site 557433001344 dimer interface [polypeptide binding]; other site 557433001345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 557433001346 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 557433001347 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 557433001348 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557433001349 oligomer interface [polypeptide binding]; other site 557433001350 active site residues [active] 557433001351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557433001352 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557433001353 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 557433001354 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557433001355 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 557433001356 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557433001357 Phosphoglycerate kinase; Region: PGK; pfam00162 557433001358 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 557433001359 substrate binding site [chemical binding]; other site 557433001360 hinge regions; other site 557433001361 ADP binding site [chemical binding]; other site 557433001362 catalytic site [active] 557433001363 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 557433001364 triosephosphate isomerase; Provisional; Region: PRK14565 557433001365 substrate binding site [chemical binding]; other site 557433001366 dimer interface [polypeptide binding]; other site 557433001367 catalytic triad [active] 557433001368 enolase; Provisional; Region: eno; PRK00077 557433001369 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 557433001370 dimer interface [polypeptide binding]; other site 557433001371 metal binding site [ion binding]; metal-binding site 557433001372 substrate binding pocket [chemical binding]; other site 557433001373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557433001374 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557433001375 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 557433001376 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557433001377 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 557433001378 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 557433001379 Cl- selectivity filter; other site 557433001380 Cl- binding residues [ion binding]; other site 557433001381 pore gating glutamate residue; other site 557433001382 dimer interface [polypeptide binding]; other site 557433001383 H+/Cl- coupling transport residue; other site 557433001384 TrkA-C domain; Region: TrkA_C; pfam02080 557433001385 Esterase/lipase [General function prediction only]; Region: COG1647 557433001386 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557433001387 ribonuclease R; Region: RNase_R; TIGR02063 557433001388 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 557433001389 RNB domain; Region: RNB; pfam00773 557433001390 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 557433001391 RNA binding site [nucleotide binding]; other site 557433001392 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 557433001393 SmpB-tmRNA interface; other site 557433001394 Tubby C 2; Region: Tub_2; cl02043 557433001395 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 557433001396 ligand binding site [chemical binding]; other site 557433001397 active site 557433001398 UGI interface [polypeptide binding]; other site 557433001399 catalytic site [active] 557433001400 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 557433001401 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 557433001402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557433001403 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433001404 Coenzyme A binding pocket [chemical binding]; other site 557433001405 PAS domain; Region: PAS_10; pfam13596 557433001406 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 557433001407 active site 557433001408 catalytic site [active] 557433001409 substrate binding site [chemical binding]; other site 557433001410 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 557433001411 FAD binding domain; Region: FAD_binding_4; pfam01565 557433001412 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 557433001413 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557433001414 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 557433001415 substrate binding site [chemical binding]; other site 557433001416 dimer interface [polypeptide binding]; other site 557433001417 ATP binding site [chemical binding]; other site 557433001418 D-ribose pyranase; Provisional; Region: PRK11797 557433001419 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 557433001420 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 557433001421 putative substrate translocation pore; other site 557433001422 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 557433001423 Uncharacterized conserved protein [Function unknown]; Region: COG1624 557433001424 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 557433001425 YbbR-like protein; Region: YbbR; pfam07949 557433001426 YbbR-like protein; Region: YbbR; pfam07949 557433001427 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 557433001428 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 557433001429 active site 557433001430 substrate binding site [chemical binding]; other site 557433001431 metal binding site [ion binding]; metal-binding site 557433001432 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 557433001433 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 557433001434 glutaminase active site [active] 557433001435 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 557433001436 dimer interface [polypeptide binding]; other site 557433001437 active site 557433001438 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 557433001439 dimer interface [polypeptide binding]; other site 557433001440 active site 557433001441 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557433001442 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 557433001443 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 557433001444 catalytic triad [active] 557433001445 catalytic triad [active] 557433001446 oxyanion hole [active] 557433001447 MarR family; Region: MarR_2; pfam12802 557433001448 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 557433001449 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 557433001450 active site 557433001451 motif I; other site 557433001452 motif II; other site 557433001453 cell division suppressor protein YneA; Provisional; Region: PRK14125 557433001454 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433001455 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433001456 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 557433001457 active site 557433001458 phosphorylation site [posttranslational modification] 557433001459 intermolecular recognition site; other site 557433001460 dimerization interface [polypeptide binding]; other site 557433001461 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 557433001462 DNA binding site [nucleotide binding] 557433001463 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557433001464 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 557433001465 dimerization interface [polypeptide binding]; other site 557433001466 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 557433001467 dimer interface [polypeptide binding]; other site 557433001468 phosphorylation site [posttranslational modification] 557433001469 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 557433001470 ATP binding site [chemical binding]; other site 557433001471 Mg2+ binding site [ion binding]; other site 557433001472 G-X-G motif; other site 557433001473 Sugar transport protein; Region: Sugar_transport; pfam06800 557433001474 maltose O-acetyltransferase; Provisional; Region: PRK10092 557433001475 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 557433001476 active site 557433001477 substrate binding site [chemical binding]; other site 557433001478 trimer interface [polypeptide binding]; other site 557433001479 CoA binding site [chemical binding]; other site 557433001480 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 557433001481 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 557433001482 active site 557433001483 dimer interface [polypeptide binding]; other site 557433001484 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 557433001485 dimer interface [polypeptide binding]; other site 557433001486 active site 557433001487 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433001488 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 557433001489 Response regulator receiver domain; Region: Response_reg; pfam00072 557433001490 active site 557433001491 phosphorylation site [posttranslational modification] 557433001492 intermolecular recognition site; other site 557433001493 dimerization interface [polypeptide binding]; other site 557433001494 YcbB domain; Region: YcbB; pfam08664 557433001495 ornithine carbamoyltransferase; Provisional; Region: PRK04284 557433001496 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557433001497 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557433001498 carbamate kinase; Reviewed; Region: PRK12686 557433001499 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 557433001500 putative substrate binding site [chemical binding]; other site 557433001501 nucleotide binding site [chemical binding]; other site 557433001502 nucleotide binding site [chemical binding]; other site 557433001503 homodimer interface [polypeptide binding]; other site 557433001504 EamA-like transporter family; Region: EamA; pfam00892 557433001505 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 557433001506 EamA-like transporter family; Region: EamA; pfam00892 557433001507 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 557433001508 active site 557433001509 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 557433001510 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 557433001511 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 557433001512 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557433001513 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557433001514 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 557433001515 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433001516 Beta-lactamase; Region: Beta-lactamase; pfam00144 557433001517 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557433001518 arginine deiminase; Provisional; Region: PRK01388 557433001519 Arginine repressor [Transcription]; Region: ArgR; COG1438 557433001520 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 557433001521 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 557433001522 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557433001523 histidine-histamine antiporter; Region: his_histam_anti; TIGR04298 557433001524 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557433001525 catalytic triad [active] 557433001526 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 557433001527 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557433001528 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 557433001529 thymidine kinase; Provisional; Region: PRK04296 557433001530 peptide chain release factor 1; Validated; Region: prfA; PRK00591 557433001531 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557433001532 RF-1 domain; Region: RF-1; pfam00472 557433001533 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 557433001534 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 557433001535 S-adenosylmethionine binding site [chemical binding]; other site 557433001536 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 557433001537 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 557433001538 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557433001539 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 557433001540 dimer interface [polypeptide binding]; other site 557433001541 active site 557433001542 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557433001543 folate binding site [chemical binding]; other site 557433001544 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433001545 active site 557433001546 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557433001547 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557433001548 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557433001549 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557433001550 YibE/F-like protein; Region: YibE_F; pfam07907 557433001551 YibE/F-like protein; Region: YibE_F; pfam07907 557433001552 uracil transporter; Provisional; Region: PRK10720 557433001553 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 557433001554 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 557433001555 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 557433001556 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557433001557 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 557433001558 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 557433001559 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 557433001560 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 557433001561 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557433001562 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 557433001563 beta subunit interaction interface [polypeptide binding]; other site 557433001564 Walker A motif; other site 557433001565 ATP binding site [chemical binding]; other site 557433001566 Walker B motif; other site 557433001567 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557433001568 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 557433001569 core domain interface [polypeptide binding]; other site 557433001570 delta subunit interface [polypeptide binding]; other site 557433001571 epsilon subunit interface [polypeptide binding]; other site 557433001572 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 557433001573 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557433001574 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 557433001575 alpha subunit interaction interface [polypeptide binding]; other site 557433001576 Walker A motif; other site 557433001577 ATP binding site [chemical binding]; other site 557433001578 Walker B motif; other site 557433001579 inhibitor binding site; inhibition site 557433001580 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557433001581 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 557433001582 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 557433001583 gamma subunit interface [polypeptide binding]; other site 557433001584 epsilon subunit interface [polypeptide binding]; other site 557433001585 LBP interface [polypeptide binding]; other site 557433001586 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557433001587 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 557433001588 hinge; other site 557433001589 active site 557433001590 rod shape-determining protein MreB; Provisional; Region: PRK13930 557433001591 MreB and similar proteins; Region: MreB_like; cd10225 557433001592 nucleotide binding site [chemical binding]; other site 557433001593 Mg binding site [ion binding]; other site 557433001594 putative protofilament interaction site [polypeptide binding]; other site 557433001595 RodZ interaction site [polypeptide binding]; other site 557433001596 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 557433001597 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 557433001598 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 557433001599 lipoyl attachment site [posttranslational modification]; other site 557433001600 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557433001601 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 557433001602 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557433001603 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 557433001604 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557433001605 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 557433001606 non-specific DNA binding site [nucleotide binding]; other site 557433001607 salt bridge; other site 557433001608 sequence-specific DNA binding site [nucleotide binding]; other site 557433001609 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 557433001610 binding surface 557433001611 TPR motif; other site 557433001612 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557433001613 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 557433001614 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 557433001615 putative substrate translocation pore; other site 557433001616 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 557433001617 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 557433001618 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 557433001619 putative N- and C-terminal domain interface [polypeptide binding]; other site 557433001620 putative active site [active] 557433001621 MgATP binding site [chemical binding]; other site 557433001622 catalytic site [active] 557433001623 metal binding site [ion binding]; metal-binding site 557433001624 putative carbohydrate binding site [chemical binding]; other site 557433001625 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 557433001626 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 557433001627 intersubunit interface [polypeptide binding]; other site 557433001628 active site 557433001629 Zn2+ binding site [ion binding]; other site 557433001630 L-arabinose isomerase; Provisional; Region: PRK02929 557433001631 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 557433001632 hexamer (dimer of trimers) interface [polypeptide binding]; other site 557433001633 substrate binding site [chemical binding]; other site 557433001634 trimer interface [polypeptide binding]; other site 557433001635 Mn binding site [ion binding]; other site 557433001636 maltose O-acetyltransferase; Provisional; Region: PRK10092 557433001637 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 557433001638 active site 557433001639 substrate binding site [chemical binding]; other site 557433001640 trimer interface [polypeptide binding]; other site 557433001641 CoA binding site [chemical binding]; other site 557433001642 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 557433001643 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433001644 active site 557433001645 catalytic tetrad [active] 557433001646 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557433001647 DNA-binding site [nucleotide binding]; DNA binding site 557433001648 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433001649 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 557433001650 putative dimerization interface [polypeptide binding]; other site 557433001651 putative ligand binding site [chemical binding]; other site 557433001652 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 557433001653 Ligand Binding Site [chemical binding]; other site 557433001654 recombination factor protein RarA; Reviewed; Region: PRK13342 557433001655 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 557433001656 Walker A motif; other site 557433001657 ATP binding site [chemical binding]; other site 557433001658 Walker B motif; other site 557433001659 arginine finger; other site 557433001660 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 557433001661 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 557433001662 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 557433001663 active site 557433001664 metal binding site [ion binding]; metal-binding site 557433001665 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557433001666 Predicted membrane protein [Function unknown]; Region: COG2364 557433001667 hypothetical protein; Validated; Region: PRK02101 557433001668 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 557433001669 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557433001670 PYR/PP interface [polypeptide binding]; other site 557433001671 dimer interface [polypeptide binding]; other site 557433001672 TPP binding site [chemical binding]; other site 557433001673 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557433001674 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 557433001675 TPP-binding site; other site 557433001676 dimer interface [polypeptide binding]; other site 557433001677 CoA-transferase family III; Region: CoA_transf_3; pfam02515 557433001678 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433001679 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 557433001680 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433001681 putative active site [active] 557433001682 putative NTP binding site [chemical binding]; other site 557433001683 putative nucleic acid binding site [nucleotide binding]; other site 557433001684 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433001685 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557433001686 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 557433001687 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 557433001688 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 557433001689 RNA binding surface [nucleotide binding]; other site 557433001690 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 557433001691 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 557433001692 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557433001693 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557433001694 catalytic residue [active] 557433001695 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 557433001696 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 557433001697 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 557433001698 Ligand Binding Site [chemical binding]; other site 557433001699 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 557433001700 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557433001701 active site 557433001702 HIGH motif; other site 557433001703 nucleotide binding site [chemical binding]; other site 557433001704 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557433001705 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557433001706 active site 557433001707 KMSKS motif; other site 557433001708 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 557433001709 tRNA binding surface [nucleotide binding]; other site 557433001710 anticodon binding site; other site 557433001711 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 557433001712 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 557433001713 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 557433001714 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 557433001715 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557433001716 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 557433001717 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557433001718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433001719 Walker A/P-loop; other site 557433001720 ATP binding site [chemical binding]; other site 557433001721 Q-loop/lid; other site 557433001722 ABC transporter signature motif; other site 557433001723 Walker B; other site 557433001724 D-loop; other site 557433001725 H-loop/switch region; other site 557433001726 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 557433001727 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557433001728 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 557433001729 Walker A/P-loop; other site 557433001730 ATP binding site [chemical binding]; other site 557433001731 Q-loop/lid; other site 557433001732 ABC transporter signature motif; other site 557433001733 Walker B; other site 557433001734 D-loop; other site 557433001735 H-loop/switch region; other site 557433001736 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557433001737 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433001738 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 557433001739 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557433001740 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557433001741 MPN+ (JAMM) motif; other site 557433001742 Zinc-binding site [ion binding]; other site 557433001743 rod shape-determining protein MreB; Provisional; Region: PRK13927 557433001744 MreB and similar proteins; Region: MreB_like; cd10225 557433001745 nucleotide binding site [chemical binding]; other site 557433001746 Mg binding site [ion binding]; other site 557433001747 putative protofilament interaction site [polypeptide binding]; other site 557433001748 RodZ interaction site [polypeptide binding]; other site 557433001749 rod shape-determining protein MreC; Provisional; Region: PRK13922 557433001750 rod shape-determining protein MreC; Region: MreC; pfam04085 557433001751 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 557433001752 dimer interface [polypeptide binding]; other site 557433001753 conserved gate region; other site 557433001754 putative PBP binding loops; other site 557433001755 ABC-ATPase subunit interface; other site 557433001756 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557433001757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433001758 Walker A/P-loop; other site 557433001759 ATP binding site [chemical binding]; other site 557433001760 Q-loop/lid; other site 557433001761 ABC transporter signature motif; other site 557433001762 Walker B; other site 557433001763 D-loop; other site 557433001764 H-loop/switch region; other site 557433001765 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557433001766 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 557433001767 substrate binding pocket [chemical binding]; other site 557433001768 membrane-bound complex binding site; other site 557433001769 hinge residues; other site 557433001770 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557433001771 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557433001772 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 557433001773 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557433001774 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557433001775 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 557433001776 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 557433001777 non-specific DNA binding site [nucleotide binding]; other site 557433001778 salt bridge; other site 557433001779 sequence-specific DNA binding site [nucleotide binding]; other site 557433001780 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557433001781 competence damage-inducible protein A; Provisional; Region: PRK00549 557433001782 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 557433001783 putative MPT binding site; other site 557433001784 Competence-damaged protein; Region: CinA; pfam02464 557433001785 recombinase A; Provisional; Region: recA; PRK09354 557433001786 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 557433001787 hexamer interface [polypeptide binding]; other site 557433001788 Walker A motif; other site 557433001789 ATP binding site [chemical binding]; other site 557433001790 Walker B motif; other site 557433001791 phosphodiesterase; Provisional; Region: PRK12704 557433001792 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557433001793 Zn2+ binding site [ion binding]; other site 557433001794 Mg2+ binding site [ion binding]; other site 557433001795 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 557433001796 MutS domain I; Region: MutS_I; pfam01624 557433001797 MutS domain II; Region: MutS_II; pfam05188 557433001798 MutS domain III; Region: MutS_III; pfam05192 557433001799 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 557433001800 Walker A/P-loop; other site 557433001801 ATP binding site [chemical binding]; other site 557433001802 Q-loop/lid; other site 557433001803 ABC transporter signature motif; other site 557433001804 Walker B; other site 557433001805 D-loop; other site 557433001806 H-loop/switch region; other site 557433001807 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 557433001808 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 557433001809 ATP binding site [chemical binding]; other site 557433001810 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 557433001811 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 557433001812 RuvA N terminal domain; Region: RuvA_N; pfam01330 557433001813 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 557433001814 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 557433001815 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 557433001816 Walker A motif; other site 557433001817 ATP binding site [chemical binding]; other site 557433001818 Walker B motif; other site 557433001819 arginine finger; other site 557433001820 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 557433001821 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 557433001822 Queuine tRNA-ribosyltransferase; Region: TGT; pfam01702 557433001823 Preprotein translocase subunit; Region: YajC; pfam02699 557433001824 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 557433001825 DHH family; Region: DHH; pfam01368 557433001826 DHHA1 domain; Region: DHHA1; pfam02272 557433001827 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 557433001828 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557433001829 ATP binding site [chemical binding]; other site 557433001830 Mg++ binding site [ion binding]; other site 557433001831 motif III; other site 557433001832 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 557433001833 nucleotide binding region [chemical binding]; other site 557433001834 ATP-binding site [chemical binding]; other site 557433001835 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 557433001836 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 557433001837 motif 1; other site 557433001838 active site 557433001839 motif 2; other site 557433001840 motif 3; other site 557433001841 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557433001842 hypothetical protein; Provisional; Region: PRK05473 557433001843 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 557433001844 hypothetical protein; Provisional; Region: PRK13678 557433001845 Colicin V production protein; Region: Colicin_V; pfam02674 557433001846 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 557433001847 MutS domain III; Region: MutS_III; pfam05192 557433001848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433001849 Walker A/P-loop; other site 557433001850 ATP binding site [chemical binding]; other site 557433001851 Q-loop/lid; other site 557433001852 ABC transporter signature motif; other site 557433001853 Walker B; other site 557433001854 D-loop; other site 557433001855 H-loop/switch region; other site 557433001856 Smr domain; Region: Smr; pfam01713 557433001857 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 557433001858 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557433001859 catalytic residues [active] 557433001860 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 557433001861 glutamate racemase; Provisional; Region: PRK00865 557433001862 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 557433001863 active site 557433001864 dimerization interface [polypeptide binding]; other site 557433001865 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 557433001866 active site 557433001867 metal binding site [ion binding]; metal-binding site 557433001868 homotetramer interface [polypeptide binding]; other site 557433001869 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 557433001870 FOG: CBS domain [General function prediction only]; Region: COG0517 557433001871 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 557433001872 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 557433001873 active site 557433001874 motif I; other site 557433001875 motif II; other site 557433001876 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557433001877 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 557433001878 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557433001879 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 557433001880 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557433001881 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557433001882 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 557433001883 active site 557433001884 catabolite control protein A; Region: ccpA; TIGR01481 557433001885 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433001886 DNA binding site [nucleotide binding] 557433001887 domain linker motif; other site 557433001888 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 557433001889 dimerization interface [polypeptide binding]; other site 557433001890 effector binding site; other site 557433001891 hypothetical protein; Validated; Region: PRK00110 557433001892 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 557433001893 Walker A motif; other site 557433001894 ATP binding site [chemical binding]; other site 557433001895 Walker B motif; other site 557433001896 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 557433001897 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557433001898 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 557433001899 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 557433001900 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 557433001901 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 557433001902 propionate/acetate kinase; Provisional; Region: PRK12379 557433001903 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 557433001904 putative active site [active] 557433001905 putative metal binding site [ion binding]; other site 557433001906 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 557433001907 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 557433001908 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 557433001909 active site 557433001910 motif I; other site 557433001911 motif II; other site 557433001912 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 557433001913 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 557433001914 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557433001915 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557433001916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557433001917 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557433001918 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 557433001919 ArsC family; Region: ArsC; pfam03960 557433001920 putative catalytic residues [active] 557433001921 thiol/disulfide switch; other site 557433001922 adaptor protein; Provisional; Region: PRK02315 557433001923 Competence protein CoiA-like family; Region: CoiA; cl11541 557433001924 Peptidase family C69; Region: Peptidase_C69; pfam03577 557433001925 Thioredoxin; Region: Thioredoxin_5; pfam13743 557433001926 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557433001927 synthetase active site [active] 557433001928 NTP binding site [chemical binding]; other site 557433001929 metal binding site [ion binding]; metal-binding site 557433001930 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 557433001931 ATP-NAD kinase; Region: NAD_kinase; pfam01513 557433001932 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557433001933 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557433001934 active site 557433001935 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557433001936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433001937 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557433001938 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557433001939 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433001940 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 557433001941 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 557433001942 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 557433001943 S-adenosylmethionine binding site [chemical binding]; other site 557433001944 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 557433001945 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 557433001946 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 557433001947 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 557433001948 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 557433001949 cell division protein MraZ; Reviewed; Region: PRK00326 557433001950 MraZ protein; Region: MraZ; pfam02381 557433001951 MraZ protein; Region: MraZ; pfam02381 557433001952 MraW methylase family; Region: Methyltransf_5; pfam01795 557433001953 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 557433001954 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 557433001955 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557433001956 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557433001957 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 557433001958 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 557433001959 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 557433001960 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 557433001961 Mg++ binding site [ion binding]; other site 557433001962 putative catalytic motif [active] 557433001963 putative substrate binding site [chemical binding]; other site 557433001964 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 557433001965 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 557433001966 S-adenosylmethionine binding site [chemical binding]; other site 557433001967 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557433001968 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557433001969 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 557433001970 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 557433001971 active site 557433001972 homodimer interface [polypeptide binding]; other site 557433001973 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 557433001974 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 557433001975 Cell division protein FtsQ; Region: FtsQ; pfam03799 557433001976 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 557433001977 Cell division protein FtsA; Region: FtsA; smart00842 557433001978 Cell division protein FtsA; Region: FtsA; pfam14450 557433001979 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 557433001980 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 557433001981 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 557433001982 nucleotide binding site [chemical binding]; other site 557433001983 SulA interaction site; other site 557433001984 Protein of unknown function (DUF552); Region: DUF552; pfam04472 557433001985 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 557433001986 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 557433001987 RNA binding surface [nucleotide binding]; other site 557433001988 DivIVA protein; Region: DivIVA; pfam05103 557433001989 DivIVA domain; Region: DivI1A_domain; TIGR03544 557433001990 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 557433001991 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557433001992 active site 557433001993 HIGH motif; other site 557433001994 nucleotide binding site [chemical binding]; other site 557433001995 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557433001996 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 557433001997 active site 557433001998 KMSKS motif; other site 557433001999 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 557433002000 tRNA binding surface [nucleotide binding]; other site 557433002001 anticodon binding site; other site 557433002002 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557433002003 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 557433002004 DNA-binding site [nucleotide binding]; DNA binding site 557433002005 RNA-binding motif; other site 557433002006 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 557433002007 dimer interface [polypeptide binding]; other site 557433002008 ADP-ribose binding site [chemical binding]; other site 557433002009 active site 557433002010 nudix motif; other site 557433002011 metal binding site [ion binding]; metal-binding site 557433002012 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 557433002013 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 557433002014 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557433002015 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 557433002016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557433002017 catalytic residue [active] 557433002018 Putative amino acid metabolism; Region: DUF1831; pfam08866 557433002019 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 557433002020 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 557433002021 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 557433002022 catalytic core [active] 557433002023 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557433002024 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 557433002025 binding surface 557433002026 TPR motif; other site 557433002027 TPR repeat; Region: TPR_11; pfam13414 557433002028 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 557433002029 binding surface 557433002030 TPR motif; other site 557433002031 Tetratricopeptide repeat; Region: TPR_16; pfam13432 557433002032 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 557433002033 AAA domain; Region: AAA_30; pfam13604 557433002034 Family description; Region: UvrD_C_2; pfam13538 557433002035 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557433002036 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557433002037 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433002038 active site 557433002039 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 557433002040 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557433002041 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557433002042 aspartate kinase; Reviewed; Region: PRK09034 557433002043 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 557433002044 putative catalytic residues [active] 557433002045 putative nucleotide binding site [chemical binding]; other site 557433002046 putative aspartate binding site [chemical binding]; other site 557433002047 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 557433002048 allosteric regulatory residue; other site 557433002049 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 557433002050 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557433002051 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 557433002052 active site 557433002053 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557433002054 substrate binding site [chemical binding]; other site 557433002055 catalytic residues [active] 557433002056 dimer interface [polypeptide binding]; other site 557433002057 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 557433002058 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 557433002059 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 557433002060 active site 557433002061 trimer interface [polypeptide binding]; other site 557433002062 substrate binding site [chemical binding]; other site 557433002063 CoA binding site [chemical binding]; other site 557433002064 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 557433002065 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 557433002066 metal binding site [ion binding]; metal-binding site 557433002067 putative dimer interface [polypeptide binding]; other site 557433002068 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557433002069 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 557433002070 dimer interface [polypeptide binding]; other site 557433002071 active site 557433002072 catalytic residue [active] 557433002073 dihydrodipicolinate reductase; Provisional; Region: PRK00048 557433002074 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 557433002075 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 557433002076 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557433002077 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 557433002078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433002079 homodimer interface [polypeptide binding]; other site 557433002080 catalytic residue [active] 557433002081 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 557433002082 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557433002083 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 557433002084 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 557433002085 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 557433002086 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557433002087 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 557433002088 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433002089 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433002090 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557433002091 NlpC/P60 family; Region: NLPC_P60; pfam00877 557433002092 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 557433002093 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 557433002094 Protein of unknown function (DUF1447); Region: DUF1447; pfam07288 557433002095 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 557433002096 active site 557433002097 catalytic residues [active] 557433002098 metal binding site [ion binding]; metal-binding site 557433002099 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 557433002100 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 557433002101 TPP-binding site [chemical binding]; other site 557433002102 heterodimer interface [polypeptide binding]; other site 557433002103 tetramer interface [polypeptide binding]; other site 557433002104 phosphorylation loop region [posttranslational modification] 557433002105 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 557433002106 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 557433002107 alpha subunit interface [polypeptide binding]; other site 557433002108 TPP binding site [chemical binding]; other site 557433002109 heterodimer interface [polypeptide binding]; other site 557433002110 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557433002111 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 557433002112 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 557433002113 E3 interaction surface; other site 557433002114 lipoyl attachment site [posttranslational modification]; other site 557433002115 e3 binding domain; Region: E3_binding; pfam02817 557433002116 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557433002117 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 557433002118 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557433002119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433002120 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557433002121 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 557433002122 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 557433002123 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557433002124 active site 557433002125 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 557433002126 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 557433002127 G1 box; other site 557433002128 putative GEF interaction site [polypeptide binding]; other site 557433002129 GTP/Mg2+ binding site [chemical binding]; other site 557433002130 Switch I region; other site 557433002131 G2 box; other site 557433002132 G3 box; other site 557433002133 Switch II region; other site 557433002134 G4 box; other site 557433002135 G5 box; other site 557433002136 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 557433002137 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 557433002138 cell division protein FtsW; Region: ftsW; TIGR02614 557433002139 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; pfam09902 557433002140 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 557433002141 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 557433002142 S-adenosylmethionine binding site [chemical binding]; other site 557433002143 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 557433002144 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 557433002145 active site 557433002146 (T/H)XGH motif; other site 557433002147 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 557433002148 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 557433002149 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557433002150 SLBB domain; Region: SLBB; pfam10531 557433002151 comEA protein; Region: comE; TIGR01259 557433002152 Helix-hairpin-helix motif; Region: HHH; pfam00633 557433002153 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 557433002154 catalytic motif [active] 557433002155 Zn binding site [ion binding]; other site 557433002156 Competence protein; Region: Competence; pfam03772 557433002157 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 557433002158 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557433002159 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 557433002160 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 557433002161 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 557433002162 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 557433002163 16S/18S rRNA binding site [nucleotide binding]; other site 557433002164 S13e-L30e interaction site [polypeptide binding]; other site 557433002165 25S rRNA binding site [nucleotide binding]; other site 557433002166 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 557433002167 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557433002168 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 557433002169 elongation factor Tu; Reviewed; Region: PRK00049 557433002170 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557433002171 G1 box; other site 557433002172 GEF interaction site [polypeptide binding]; other site 557433002173 GTP/Mg2+ binding site [chemical binding]; other site 557433002174 Switch I region; other site 557433002175 G2 box; other site 557433002176 G3 box; other site 557433002177 Switch II region; other site 557433002178 G4 box; other site 557433002179 G5 box; other site 557433002180 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 557433002181 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 557433002182 Antibiotic Binding Site [chemical binding]; other site 557433002183 trigger factor; Provisional; Region: tig; PRK01490 557433002184 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557433002185 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 557433002186 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 557433002187 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 557433002188 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 557433002189 Walker A motif; other site 557433002190 ATP binding site [chemical binding]; other site 557433002191 Walker B motif; other site 557433002192 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557433002193 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 557433002194 G1 box; other site 557433002195 GTP/Mg2+ binding site [chemical binding]; other site 557433002196 Switch I region; other site 557433002197 G2 box; other site 557433002198 G3 box; other site 557433002199 Switch II region; other site 557433002200 G4 box; other site 557433002201 G5 box; other site 557433002202 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 557433002203 putative metal binding site [ion binding]; other site 557433002204 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 557433002205 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 557433002206 GIY-YIG motif/motif A; other site 557433002207 active site 557433002208 catalytic site [active] 557433002209 putative DNA binding site [nucleotide binding]; other site 557433002210 metal binding site [ion binding]; metal-binding site 557433002211 UvrB/uvrC motif; Region: UVR; pfam02151 557433002212 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 557433002213 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 557433002214 DNA binding site [nucleotide binding] 557433002215 GTPase CgtA; Reviewed; Region: obgE; PRK12297 557433002216 GTP1/OBG; Region: GTP1_OBG; pfam01018 557433002217 Obg GTPase; Region: Obg; cd01898 557433002218 G1 box; other site 557433002219 GTP/Mg2+ binding site [chemical binding]; other site 557433002220 Switch I region; other site 557433002221 G2 box; other site 557433002222 G3 box; other site 557433002223 Switch II region; other site 557433002224 G4 box; other site 557433002225 G5 box; other site 557433002226 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 557433002227 ribonuclease Z; Region: RNase_Z; TIGR02651 557433002228 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557433002229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557433002230 NAD(P) binding site [chemical binding]; other site 557433002231 active site 557433002232 DHH family; Region: DHH; pfam01368 557433002233 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 557433002234 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 557433002235 Phage terminase, small subunit; Region: Terminase_4; pfam05119 557433002236 Phage Terminase; Region: Terminase_1; pfam03354 557433002237 Phage portal protein; Region: Phage_portal; pfam04860 557433002238 Phage-related protein [Function unknown]; Region: COG4695; cl01923 557433002239 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 557433002240 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557433002241 Phage capsid family; Region: Phage_capsid; pfam05065 557433002242 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 557433002243 oligomerization interface [polypeptide binding]; other site 557433002244 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 557433002245 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 557433002246 RNA/DNA hybrid binding site [nucleotide binding]; other site 557433002247 active site 557433002248 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 557433002249 "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 557433002250 dimer interface [polypeptide binding]; other site 557433002251 active site 557433002252 LexA repressor; Validated; Region: PRK00215 557433002253 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 557433002254 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 557433002255 Catalytic site [active] 557433002256 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 557433002257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 557433002258 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 557433002259 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557433002260 putative acyl-acceptor binding pocket; other site 557433002261 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 557433002262 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 557433002263 S-adenosylmethionine binding site [chemical binding]; other site 557433002264 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 557433002265 GIY-YIG motif/motif A; other site 557433002266 putative active site [active] 557433002267 putative metal binding site [ion binding]; other site 557433002268 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557433002269 D-lactate dehydrogenase; Validated; Region: PRK08605 557433002270 homodimer interface [polypeptide binding]; other site 557433002271 ligand binding site [chemical binding]; other site 557433002272 NAD binding site [chemical binding]; other site 557433002273 catalytic site [active] 557433002274 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 557433002275 rRNA interaction site [nucleotide binding]; other site 557433002276 S8 interaction site; other site 557433002277 putative laminin-1 binding site; other site 557433002278 elongation factor Ts; Provisional; Region: tsf; PRK09377 557433002279 UBA/TS-N domain; Region: UBA; pfam00627 557433002280 Elongation factor TS; Region: EF_TS; pfam00889 557433002281 Elongation factor TS; Region: EF_TS; pfam00889 557433002282 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 557433002283 putative nucleotide binding site [chemical binding]; other site 557433002284 uridine monophosphate binding site [chemical binding]; other site 557433002285 homohexameric interface [polypeptide binding]; other site 557433002286 ribosome recycling factor; Reviewed; Region: frr; PRK00083 557433002287 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 557433002288 hinge region; other site 557433002289 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 557433002290 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433002291 putative active site [active] 557433002292 putative NTP binding site [chemical binding]; other site 557433002293 putative nucleic acid binding site [nucleotide binding]; other site 557433002294 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433002295 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433002296 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 557433002297 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 557433002298 catalytic residue [active] 557433002299 putative FPP diphosphate binding site; other site 557433002300 putative FPP binding hydrophobic cleft; other site 557433002301 dimer interface [polypeptide binding]; other site 557433002302 putative IPP diphosphate binding site; other site 557433002303 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 557433002304 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 557433002305 RIP metalloprotease RseP; Region: TIGR00054 557433002306 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 557433002307 active site 557433002308 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 557433002309 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 557433002310 protein binding site [polypeptide binding]; other site 557433002311 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 557433002312 putative substrate binding region [chemical binding]; other site 557433002313 prolyl-tRNA synthetase; Provisional; Region: PRK09194 557433002314 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 557433002315 dimer interface [polypeptide binding]; other site 557433002316 motif 1; other site 557433002317 active site 557433002318 motif 2; other site 557433002319 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 557433002320 putative deacylase active site [active] 557433002321 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 557433002322 active site 557433002323 motif 3; other site 557433002324 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 557433002325 anticodon binding site; other site 557433002326 DNA polymerase III PolC; Validated; Region: polC; PRK00448 557433002327 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 557433002328 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 557433002329 generic binding surface II; other site 557433002330 generic binding surface I; other site 557433002331 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 557433002332 active site 557433002333 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557433002334 active site 557433002335 catalytic site [active] 557433002336 substrate binding site [chemical binding]; other site 557433002337 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 557433002338 ribosome maturation protein RimP; Reviewed; Region: PRK00092 557433002339 Sm and related proteins; Region: Sm_like; cl00259 557433002340 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 557433002341 putative oligomer interface [polypeptide binding]; other site 557433002342 putative RNA binding site [nucleotide binding]; other site 557433002343 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 557433002344 NusA N-terminal domain; Region: NusA_N; pfam08529 557433002345 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 557433002346 RNA binding site [nucleotide binding]; other site 557433002347 homodimer interface [polypeptide binding]; other site 557433002348 NusA-like KH domain; Region: KH_5; pfam13184 557433002349 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 557433002350 G-X-X-G motif; other site 557433002351 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 557433002352 putative RNA binding cleft [nucleotide binding]; other site 557433002353 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 557433002354 translation initiation factor IF-2; Validated; Region: infB; PRK05306 557433002355 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557433002356 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557433002357 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 557433002358 G1 box; other site 557433002359 putative GEF interaction site [polypeptide binding]; other site 557433002360 GTP/Mg2+ binding site [chemical binding]; other site 557433002361 Switch I region; other site 557433002362 G2 box; other site 557433002363 G3 box; other site 557433002364 Switch II region; other site 557433002365 G4 box; other site 557433002366 G5 box; other site 557433002367 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 557433002368 Translation-initiation factor 2; Region: IF-2; pfam11987 557433002369 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 557433002370 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 557433002371 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 557433002372 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 557433002373 RNA binding site [nucleotide binding]; other site 557433002374 active site 557433002375 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 557433002376 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 557433002377 active site 557433002378 Riboflavin kinase; Region: Flavokinase; smart00904 557433002379 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 557433002380 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 557433002381 GrpE; Region: GrpE; pfam01025 557433002382 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 557433002383 dimer interface [polypeptide binding]; other site 557433002384 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 557433002385 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 557433002386 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 557433002387 nucleotide binding site [chemical binding]; other site 557433002388 NEF interaction site [polypeptide binding]; other site 557433002389 SBD interface [polypeptide binding]; other site 557433002390 chaperone protein DnaJ; Provisional; Region: PRK14276 557433002391 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 557433002392 HSP70 interaction site [polypeptide binding]; other site 557433002393 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 557433002394 substrate binding site [polypeptide binding]; other site 557433002395 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 557433002396 Zn binding sites [ion binding]; other site 557433002397 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557433002398 dimer interface [polypeptide binding]; other site 557433002399 GTP-binding protein LepA; Provisional; Region: PRK05433 557433002400 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 557433002401 G1 box; other site 557433002402 putative GEF interaction site [polypeptide binding]; other site 557433002403 GTP/Mg2+ binding site [chemical binding]; other site 557433002404 Switch I region; other site 557433002405 G2 box; other site 557433002406 G3 box; other site 557433002407 Switch II region; other site 557433002408 G4 box; other site 557433002409 G5 box; other site 557433002410 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 557433002411 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 557433002412 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 557433002413 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 557433002414 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 557433002415 Int/Topo IB signature motif; other site 557433002416 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 557433002417 Peptidase family C69; Region: Peptidase_C69; pfam03577 557433002418 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 557433002419 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 557433002420 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557433002421 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433002422 NAD binding site [chemical binding]; other site 557433002423 dimer interface [polypeptide binding]; other site 557433002424 substrate binding site [chemical binding]; other site 557433002425 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 557433002426 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 557433002427 S-adenosylmethionine binding site [chemical binding]; other site 557433002428 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 557433002429 RNA methyltransferase, RsmE family; Region: TIGR00046 557433002430 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 557433002431 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557433002432 Zn2+ binding site [ion binding]; other site 557433002433 Mg2+ binding site [ion binding]; other site 557433002434 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557433002435 synthetase active site [active] 557433002436 NTP binding site [chemical binding]; other site 557433002437 metal binding site [ion binding]; metal-binding site 557433002438 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 557433002439 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557433002440 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 557433002441 putative active site [active] 557433002442 dimerization interface [polypeptide binding]; other site 557433002443 putative tRNAtyr binding site [nucleotide binding]; other site 557433002444 Phosphotransferase enzyme family; Region: APH; pfam01636 557433002445 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 557433002446 active site 557433002447 substrate binding site [chemical binding]; other site 557433002448 ATP binding site [chemical binding]; other site 557433002449 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 557433002450 substrate binding site [chemical binding]; other site 557433002451 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 557433002452 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 557433002453 dimer interface [polypeptide binding]; other site 557433002454 anticodon binding site; other site 557433002455 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 557433002456 homodimer interface [polypeptide binding]; other site 557433002457 motif 1; other site 557433002458 active site 557433002459 motif 2; other site 557433002460 GAD domain; Region: GAD; pfam02938 557433002461 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 557433002462 active site 557433002463 motif 3; other site 557433002464 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433002465 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557433002466 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557433002467 Walker A/P-loop; other site 557433002468 ATP binding site [chemical binding]; other site 557433002469 Q-loop/lid; other site 557433002470 ABC transporter signature motif; other site 557433002471 Walker B; other site 557433002472 D-loop; other site 557433002473 H-loop/switch region; other site 557433002474 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557433002475 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 557433002476 substrate binding pocket [chemical binding]; other site 557433002477 membrane-bound complex binding site; other site 557433002478 hinge residues; other site 557433002479 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557433002480 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 557433002481 dimer interface [polypeptide binding]; other site 557433002482 conserved gate region; other site 557433002483 putative PBP binding loops; other site 557433002484 ABC-ATPase subunit interface; other site 557433002485 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 557433002486 Yqey-like protein; Region: YqeY; pfam09424 557433002487 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 557433002488 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 557433002489 active site 557433002490 argininosuccinate synthase; Provisional; Region: PRK13820 557433002491 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 557433002492 ANP binding site [chemical binding]; other site 557433002493 Substrate Binding Site II [chemical binding]; other site 557433002494 Substrate Binding Site I [chemical binding]; other site 557433002495 argininosuccinate lyase; Provisional; Region: PRK00855 557433002496 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557433002497 active sites [active] 557433002498 tetramer interface [polypeptide binding]; other site 557433002499 BioY family; Region: BioY; pfam02632 557433002500 Biotin operon repressor [Transcription]; Region: BirA; COG1654 557433002501 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 557433002502 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 557433002503 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 557433002504 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 557433002505 PhoH-like protein; Region: PhoH; pfam02562 557433002506 metal-binding heat shock protein; Provisional; Region: PRK00016 557433002507 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 557433002508 GTPase Era; Reviewed; Region: era; PRK00089 557433002509 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 557433002510 G1 box; other site 557433002511 GTP/Mg2+ binding site [chemical binding]; other site 557433002512 Switch I region; other site 557433002513 G2 box; other site 557433002514 Switch II region; other site 557433002515 G3 box; other site 557433002516 G4 box; other site 557433002517 G5 box; other site 557433002518 Recombination protein O N terminal; Region: RecO_N; pfam11967 557433002519 DNA repair protein RecO; Region: reco; TIGR00613 557433002520 Recombination protein O C terminal; Region: RecO_C; pfam02565 557433002521 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 557433002522 dimer interface [polypeptide binding]; other site 557433002523 motif 1; other site 557433002524 active site 557433002525 motif 2; other site 557433002526 motif 3; other site 557433002527 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 557433002528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 557433002529 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 557433002530 DNA primase; Validated; Region: dnaG; PRK05667 557433002531 CHC2 zinc finger; Region: zf-CHC2; pfam01807 557433002532 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557433002533 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 557433002534 active site 557433002535 metal binding site [ion binding]; metal-binding site 557433002536 interdomain interaction site; other site 557433002537 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 557433002538 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 557433002539 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 557433002540 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557433002541 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557433002542 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557433002543 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 557433002544 DNA binding residues [nucleotide binding] 557433002545 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557433002546 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 557433002547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433002548 homodimer interface [polypeptide binding]; other site 557433002549 catalytic residue [active] 557433002550 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557433002551 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 557433002552 Family of unknown function (DUF633); Region: DUF633; pfam04816 557433002553 Uncharacterized conserved protein [Function unknown]; Region: COG0327 557433002554 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 557433002555 peptidase T; Region: peptidase-T; TIGR01882 557433002556 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 557433002557 metal binding site [ion binding]; metal-binding site 557433002558 dimer interface [polypeptide binding]; other site 557433002559 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 557433002560 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 557433002561 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 557433002562 active site 557433002563 PHP Thumb interface [polypeptide binding]; other site 557433002564 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 557433002565 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 557433002566 generic binding surface II; other site 557433002567 generic binding surface I; other site 557433002568 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 557433002569 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 557433002570 domain interfaces; other site 557433002571 active site 557433002572 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 557433002573 S1 domain; Region: S1_2; pfam13509 557433002574 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 557433002575 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 557433002576 active site 557433002577 DNA binding site [nucleotide binding] 557433002578 Int/Topo IB signature motif; other site 557433002579 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 557433002580 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 557433002581 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 557433002582 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 557433002583 RNA binding surface [nucleotide binding]; other site 557433002584 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 557433002585 active site 557433002586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 557433002587 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 557433002588 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 557433002589 ATP binding site [chemical binding]; other site 557433002590 putative Mg++ binding site [ion binding]; other site 557433002591 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 557433002592 nucleotide binding region [chemical binding]; other site 557433002593 ATP-binding site [chemical binding]; other site 557433002594 cytidylate kinase; Provisional; Region: cmk; PRK00023 557433002595 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 557433002596 CMP-binding site; other site 557433002597 The sites determining sugar specificity; other site 557433002598 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 557433002599 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 557433002600 RNA binding site [nucleotide binding]; other site 557433002601 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 557433002602 RNA binding site [nucleotide binding]; other site 557433002603 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 557433002604 RNA binding site [nucleotide binding]; other site 557433002605 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 557433002606 RNA binding site [nucleotide binding]; other site 557433002607 GTP-binding protein Der; Reviewed; Region: PRK00093 557433002608 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 557433002609 G1 box; other site 557433002610 GTP/Mg2+ binding site [chemical binding]; other site 557433002611 Switch I region; other site 557433002612 G2 box; other site 557433002613 Switch II region; other site 557433002614 G3 box; other site 557433002615 G4 box; other site 557433002616 G5 box; other site 557433002617 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 557433002618 G1 box; other site 557433002619 GTP/Mg2+ binding site [chemical binding]; other site 557433002620 Switch I region; other site 557433002621 G2 box; other site 557433002622 G3 box; other site 557433002623 Switch II region; other site 557433002624 G4 box; other site 557433002625 G5 box; other site 557433002626 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 557433002627 IHF dimer interface [polypeptide binding]; other site 557433002628 IHF - DNA interface [nucleotide binding]; other site 557433002629 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 557433002630 binding surface 557433002631 TPR motif; other site 557433002632 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 557433002633 TPR motif; other site 557433002634 binding surface 557433002635 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 557433002636 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 557433002637 TPR motif; other site 557433002638 binding surface 557433002639 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 557433002640 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 557433002641 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557433002642 active site 557433002643 NTP binding site [chemical binding]; other site 557433002644 metal binding triad [ion binding]; metal-binding site 557433002645 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557433002646 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 557433002647 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557433002648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433002649 Walker A/P-loop; other site 557433002650 ATP binding site [chemical binding]; other site 557433002651 Q-loop/lid; other site 557433002652 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557433002653 ABC transporter signature motif; other site 557433002654 Walker B; other site 557433002655 D-loop; other site 557433002656 ABC transporter; Region: ABC_tran_2; pfam12848 557433002657 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557433002658 thymidylate synthase; Region: thym_sym; TIGR03284 557433002659 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 557433002660 dimerization interface [polypeptide binding]; other site 557433002661 active site 557433002662 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 557433002663 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 557433002664 folate binding site [chemical binding]; other site 557433002665 NADP+ binding site [chemical binding]; other site 557433002666 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 557433002667 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 557433002668 EDD domain protein, DegV family; Region: DegV; TIGR00762 557433002669 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 557433002670 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 557433002671 active site 557433002672 catalytic triad [active] 557433002673 oxyanion hole [active] 557433002674 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 557433002675 hypothetical protein; Provisional; Region: PRK13672 557433002676 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 557433002677 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 557433002678 GTP/Mg2+ binding site [chemical binding]; other site 557433002679 G4 box; other site 557433002680 G5 box; other site 557433002681 G1 box; other site 557433002682 Switch I region; other site 557433002683 G2 box; other site 557433002684 G3 box; other site 557433002685 Switch II region; other site 557433002686 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 557433002687 RNA/DNA hybrid binding site [nucleotide binding]; other site 557433002688 active site 557433002689 DNA protecting protein DprA; Region: dprA; TIGR00732 557433002690 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 557433002691 DNA topoisomerase I; Validated; Region: PRK05582 557433002692 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 557433002693 active site 557433002694 interdomain interaction site; other site 557433002695 putative metal-binding site [ion binding]; other site 557433002696 nucleotide binding site [chemical binding]; other site 557433002697 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 557433002698 domain I; other site 557433002699 DNA binding groove [nucleotide binding] 557433002700 phosphate binding site [ion binding]; other site 557433002701 domain II; other site 557433002702 domain III; other site 557433002703 nucleotide binding site [chemical binding]; other site 557433002704 catalytic site [active] 557433002705 domain IV; other site 557433002706 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557433002707 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557433002708 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 557433002709 active site 557433002710 catalytic residues [active] 557433002711 membrane protein; Provisional; Region: PRK14392 557433002712 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 557433002713 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 557433002714 ATP binding site [chemical binding]; other site 557433002715 Mg2+ binding site [ion binding]; other site 557433002716 G-X-G motif; other site 557433002717 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 557433002718 anchoring element; other site 557433002719 dimer interface [polypeptide binding]; other site 557433002720 ATP binding site [chemical binding]; other site 557433002721 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 557433002722 active site 557433002723 putative metal-binding site [ion binding]; other site 557433002724 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557433002725 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 557433002726 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 557433002727 CAP-like domain; other site 557433002728 active site 557433002729 primary dimer interface [polypeptide binding]; other site 557433002730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557433002731 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 557433002732 nudix motif; other site 557433002733 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 557433002734 DHH family; Region: DHH; pfam01368 557433002735 DHHA2 domain; Region: DHHA2; pfam02833 557433002736 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557433002737 Integrase core domain; Region: rve; pfam00665 557433002738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 557433002739 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557433002740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433002741 Coenzyme A binding pocket [chemical binding]; other site 557433002742 Asp23 family; Region: Asp23; pfam03780 557433002743 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 557433002744 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 557433002745 N- and C-terminal domain interface [polypeptide binding]; other site 557433002746 active site 557433002747 catalytic site [active] 557433002748 metal binding site [ion binding]; metal-binding site 557433002749 carbohydrate binding site [chemical binding]; other site 557433002750 ATP binding site [chemical binding]; other site 557433002751 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433002752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433002753 DNA binding site [nucleotide binding] 557433002754 domain linker motif; other site 557433002755 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 557433002756 putative dimerization interface [polypeptide binding]; other site 557433002757 putative ligand binding site [chemical binding]; other site 557433002758 GntP family permease; Region: GntP_permease; pfam02447 557433002759 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557433002760 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 557433002761 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 557433002762 Presynaptic Site I dimer interface [polypeptide binding]; other site 557433002763 catalytic residues [active] 557433002764 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 557433002765 Synaptic Flat tetramer interface [polypeptide binding]; other site 557433002766 Synaptic Site I dimer interface [polypeptide binding]; other site 557433002767 DNA binding site [nucleotide binding] 557433002768 Recombinase; Region: Recombinase; pfam07508 557433002769 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 557433002770 Domain of unknown function (DUF955); Region: DUF955; pfam06114 557433002771 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557433002772 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 557433002773 non-specific DNA binding site [nucleotide binding]; other site 557433002774 salt bridge; other site 557433002775 sequence-specific DNA binding site [nucleotide binding]; other site 557433002776 Prophage antirepressor [Transcription]; Region: COG3617 557433002777 BRO family, N-terminal domain; Region: Bro-N; smart01040 557433002778 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 557433002779 RecT family; Region: RecT; pfam03837 557433002780 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 557433002781 Helix-turn-helix domain; Region: HTH_36; pfam13730 557433002782 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 557433002783 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 557433002784 Ligand Binding Site [chemical binding]; other site 557433002785 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 557433002786 ParB-like nuclease domain; Region: ParB; smart00470 557433002787 Phage terminase large subunit; Region: Terminase_3; cl12054 557433002788 Terminase-like family; Region: Terminase_6; pfam03237 557433002789 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 557433002790 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 557433002791 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 557433002792 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 557433002793 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 557433002794 Phage protein; Region: DUF3647; pfam12363 557433002795 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557433002796 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 557433002797 Phage-related protein [Function unknown]; Region: COG5412 557433002798 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 557433002799 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557433002800 catalytic residue [active] 557433002801 Phage tail protein; Region: Sipho_tail; pfam05709 557433002802 Prophage endopeptidase tail; Region: Prophage_tail; pfam06605 557433002803 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 557433002804 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557433002805 catalytic residue [active] 557433002806 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557433002807 Peptidase family M23; Region: Peptidase_M23; pfam01551 557433002808 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 557433002809 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557433002810 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 557433002811 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 557433002812 linker region; other site 557433002813 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 557433002814 active site 557433002815 catalytic triad [active] 557433002816 oxyanion hole [active] 557433002817 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 557433002818 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 557433002819 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 557433002820 amidase catalytic site [active] 557433002821 Zn binding residues [ion binding]; other site 557433002822 substrate binding site [chemical binding]; other site 557433002823 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 557433002824 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 557433002825 N- and C-terminal domain interface [polypeptide binding]; other site 557433002826 active site 557433002827 catalytic site [active] 557433002828 metal binding site [ion binding]; metal-binding site 557433002829 carbohydrate binding site [chemical binding]; other site 557433002830 ATP binding site [chemical binding]; other site 557433002831 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 557433002832 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433002833 Coenzyme A binding pocket [chemical binding]; other site 557433002834 amidase; Provisional; Region: PRK06529 557433002835 Amidase; Region: Amidase; cl11426 557433002836 Protein of unknown function (DUF805); Region: DUF805; pfam05656 557433002837 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557433002838 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557433002839 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557433002840 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 557433002841 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 557433002842 active site 557433002843 Int/Topo IB signature motif; other site 557433002844 DNA binding site [nucleotide binding] 557433002845 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557433002846 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557433002847 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 557433002848 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 557433002849 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 557433002850 ATP binding site [chemical binding]; other site 557433002851 putative Mg++ binding site [ion binding]; other site 557433002852 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 557433002853 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 557433002854 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 557433002855 homodimer interface [polypeptide binding]; other site 557433002856 putative active site [active] 557433002857 catalytic site [active] 557433002858 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 557433002859 active site 557433002860 tetramer interface [polypeptide binding]; other site 557433002861 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 557433002862 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 557433002863 catalytic motif [active] 557433002864 Zn binding site [ion binding]; other site 557433002865 RibD C-terminal domain; Region: RibD_C; cl17279 557433002866 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 557433002867 Lumazine binding domain; Region: Lum_binding; pfam00677 557433002868 Lumazine binding domain; Region: Lum_binding; pfam00677 557433002869 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 557433002870 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 557433002871 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 557433002872 dimerization interface [polypeptide binding]; other site 557433002873 active site 557433002874 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 557433002875 homopentamer interface [polypeptide binding]; other site 557433002876 active site 557433002877 Ion transport protein; Region: Ion_trans; pfam00520 557433002878 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 557433002879 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 557433002880 D-galactonate transporter; Region: 2A0114; TIGR00893 557433002881 putative substrate translocation pore; other site 557433002882 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 557433002883 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 557433002884 DNA binding residues [nucleotide binding] 557433002885 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 557433002886 CoenzymeA binding site [chemical binding]; other site 557433002887 subunit interaction site [polypeptide binding]; other site 557433002888 PHB binding site; other site 557433002889 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 557433002890 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 557433002891 substrate binding site [chemical binding]; other site 557433002892 oxyanion hole (OAH) forming residues; other site 557433002893 trimer interface [polypeptide binding]; other site 557433002894 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 557433002895 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 557433002896 acyl-activating enzyme (AAE) consensus motif; other site 557433002897 putative AMP binding site [chemical binding]; other site 557433002898 putative active site [active] 557433002899 putative CoA binding site [chemical binding]; other site 557433002900 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 557433002901 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 557433002902 G1 box; other site 557433002903 GTP/Mg2+ binding site [chemical binding]; other site 557433002904 Switch I region; other site 557433002905 G2 box; other site 557433002906 G3 box; other site 557433002907 Switch II region; other site 557433002908 G4 box; other site 557433002909 G5 box; other site 557433002910 Nucleoside recognition; Region: Gate; pfam07670 557433002911 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 557433002912 Nucleoside recognition; Region: Gate; pfam07670 557433002913 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 557433002914 ABC transporter; Region: ABC_tran; pfam00005 557433002915 Q-loop/lid; other site 557433002916 ABC transporter signature motif; other site 557433002917 Walker B; other site 557433002918 D-loop; other site 557433002919 H-loop/switch region; other site 557433002920 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 557433002921 FeS assembly protein SufD; Region: sufD; TIGR01981 557433002922 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557433002923 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 557433002924 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557433002925 catalytic residue [active] 557433002926 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 557433002927 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557433002928 trimerization site [polypeptide binding]; other site 557433002929 active site 557433002930 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 557433002931 FeS assembly protein SufB; Region: sufB; TIGR01980 557433002932 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 557433002933 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 557433002934 non-specific DNA binding site [nucleotide binding]; other site 557433002935 salt bridge; other site 557433002936 sequence-specific DNA binding site [nucleotide binding]; other site 557433002937 Response regulator receiver domain; Region: Response_reg; pfam00072 557433002938 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 557433002939 active site 557433002940 phosphorylation site [posttranslational modification] 557433002941 intermolecular recognition site; other site 557433002942 dimerization interface [polypeptide binding]; other site 557433002943 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 557433002944 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557433002945 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 557433002946 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 557433002947 active site 557433002948 motif I; other site 557433002949 motif II; other site 557433002950 Cytochrome C biogenesis protein; Region: CcmH; cl01179 557433002951 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 557433002952 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 557433002953 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 557433002954 S-adenosylmethionine binding site [chemical binding]; other site 557433002955 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 557433002956 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 557433002957 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557433002958 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 557433002959 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 557433002960 GAF domain; Region: GAF_3; pfam13492 557433002961 Histidine kinase; Region: His_kinase; pfam06580 557433002962 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 557433002963 ATP binding site [chemical binding]; other site 557433002964 Mg2+ binding site [ion binding]; other site 557433002965 G-X-G motif; other site 557433002966 two-component response regulator; Provisional; Region: PRK14084 557433002967 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 557433002968 active site 557433002969 phosphorylation site [posttranslational modification] 557433002970 intermolecular recognition site; other site 557433002971 dimerization interface [polypeptide binding]; other site 557433002972 LytTr DNA-binding domain; Region: LytTR; smart00850 557433002973 LrgA family; Region: LrgA; cl00608 557433002974 LrgB-like family; Region: LrgB; cl00596 557433002975 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 557433002976 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557433002977 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433002978 NAD binding site [chemical binding]; other site 557433002979 dimer interface [polypeptide binding]; other site 557433002980 substrate binding site [chemical binding]; other site 557433002981 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557433002982 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557433002983 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557433002984 nucleotide binding site [chemical binding]; other site 557433002985 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433002986 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433002987 DNA binding site [nucleotide binding] 557433002988 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 557433002989 putative dimerization interface [polypeptide binding]; other site 557433002990 putative ligand binding site [chemical binding]; other site 557433002991 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 557433002992 Melibiase; Region: Melibiase; pfam02065 557433002993 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 557433002994 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 557433002995 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 557433002996 homotetramer interface [polypeptide binding]; other site 557433002997 FMN binding site [chemical binding]; other site 557433002998 homodimer contacts [polypeptide binding]; other site 557433002999 putative active site [active] 557433003000 putative substrate binding site [chemical binding]; other site 557433003001 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 557433003002 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557433003003 diphosphomevalonate decarboxylase; Region: PLN02407 557433003004 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 557433003005 diphosphomevalonate decarboxylase; Region: PLN02407 557433003006 mevalonate kinase; Region: mevalon_kin; TIGR00549 557433003007 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557433003008 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 557433003009 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 557433003010 active site 557433003011 catalytic site [active] 557433003012 substrate binding site [chemical binding]; other site 557433003013 DEAD/DEAH box helicase; Region: DEAD; pfam00270 557433003014 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 557433003015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 557433003016 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 557433003017 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 557433003018 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557433003019 EamA-like transporter family; Region: EamA; pfam00892 557433003020 EamA-like transporter family; Region: EamA; pfam00892 557433003021 Transglycosylase; Region: Transgly; pfam00912 557433003022 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 557433003023 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557433003024 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 557433003025 hypothetical protein; Provisional; Region: PRK13660 557433003026 cell division protein GpsB; Provisional; Region: PRK14127 557433003027 DivIVA domain; Region: DivI1A_domain; TIGR03544 557433003028 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 557433003029 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 557433003030 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 557433003031 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 557433003032 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 557433003033 RNA/DNA hybrid binding site [nucleotide binding]; other site 557433003034 active site 557433003035 lipoprotein signal peptidase; Provisional; Region: PRK14797 557433003036 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557433003037 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 557433003038 RNA binding surface [nucleotide binding]; other site 557433003039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557433003040 active site 557433003041 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557433003042 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 557433003043 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557433003044 catalytic site [active] 557433003045 subunit interface [polypeptide binding]; other site 557433003046 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557433003047 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 557433003048 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557433003049 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557433003050 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 557433003051 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 557433003052 Domain of unknown function (DUF814); Region: DUF814; pfam05670 557433003053 EDD domain protein, DegV family; Region: DegV; TIGR00762 557433003054 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 557433003055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 557433003056 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 557433003057 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 557433003058 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 557433003059 Ligand binding site; other site 557433003060 metal-binding site 557433003061 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557433003062 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557433003063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433003064 Coenzyme A binding pocket [chemical binding]; other site 557433003065 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 557433003066 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433003067 putative active site [active] 557433003068 putative NTP binding site [chemical binding]; other site 557433003069 putative nucleic acid binding site [nucleotide binding]; other site 557433003070 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433003071 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 557433003072 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 557433003073 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 557433003074 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433003075 active site 557433003076 catalytic tetrad [active] 557433003077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433003078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433003079 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 557433003080 dimerization interface [polypeptide binding]; other site 557433003081 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557433003082 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 557433003083 Protein of unknown function (DUF441); Region: DUF441; pfam04284 557433003084 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557433003085 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 557433003086 putative substrate translocation pore; other site 557433003087 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 557433003088 Penicillinase repressor; Region: Pencillinase_R; pfam03965 557433003089 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557433003090 Domain of unknown function DUF21; Region: DUF21; pfam01595 557433003091 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 557433003092 Transporter associated domain; Region: CorC_HlyC; smart01091 557433003093 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 557433003094 ABC1 family; Region: ABC1; cl17513 557433003095 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 557433003096 Uncharacterized conserved protein [Function unknown]; Region: COG1434 557433003097 putative active site [active] 557433003098 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 557433003099 dimer interface [polypeptide binding]; other site 557433003100 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557433003101 metal binding site [ion binding]; metal-binding site 557433003102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433003103 Walker A/P-loop; other site 557433003104 ATP binding site [chemical binding]; other site 557433003105 Q-loop/lid; other site 557433003106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433003107 ABC transporter signature motif; other site 557433003108 Walker B; other site 557433003109 D-loop; other site 557433003110 H-loop/switch region; other site 557433003111 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433003112 AAA domain; Region: AAA_21; pfam13304 557433003113 Walker A/P-loop; other site 557433003114 ATP binding site [chemical binding]; other site 557433003115 Q-loop/lid; other site 557433003116 ABC transporter signature motif; other site 557433003117 Walker B; other site 557433003118 D-loop; other site 557433003119 H-loop/switch region; other site 557433003120 Uncharacterized conserved protein [Function unknown]; Region: COG0398 557433003121 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557433003122 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 557433003123 Uncharacterized conserved protein [Function unknown]; Region: COG3410 557433003124 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 557433003125 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 557433003126 TPP-binding site; other site 557433003127 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 557433003128 PYR/PP interface [polypeptide binding]; other site 557433003129 dimer interface [polypeptide binding]; other site 557433003130 TPP binding site [chemical binding]; other site 557433003131 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557433003132 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 557433003133 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557433003134 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 557433003135 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 557433003136 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 557433003137 putative active site [active] 557433003138 catalytic site [active] 557433003139 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 557433003140 Walker A motif; other site 557433003141 ATP binding site [chemical binding]; other site 557433003142 Walker B motif; other site 557433003143 arginine finger; other site 557433003144 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 557433003145 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433003146 putative active site [active] 557433003147 putative NTP binding site [chemical binding]; other site 557433003148 putative nucleic acid binding site [nucleotide binding]; other site 557433003149 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433003150 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 557433003151 Predicted membrane protein [Function unknown]; Region: COG2323 557433003152 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557433003153 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 557433003154 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 557433003155 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 557433003156 active site 557433003157 motif I; other site 557433003158 motif II; other site 557433003159 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557433003160 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433003161 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557433003162 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557433003163 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 557433003164 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 557433003165 catalytic residues [active] 557433003166 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06079 557433003167 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557433003168 NAD binding site [chemical binding]; other site 557433003169 homotetramer interface [polypeptide binding]; other site 557433003170 homodimer interface [polypeptide binding]; other site 557433003171 substrate binding site [chemical binding]; other site 557433003172 active site 557433003173 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 557433003174 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 557433003175 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557433003176 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557433003177 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557433003178 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557433003179 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 557433003180 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 557433003181 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 557433003182 carboxyltransferase (CT) interaction site; other site 557433003183 biotinylation site [posttranslational modification]; other site 557433003184 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 557433003185 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 557433003186 dimer interface [polypeptide binding]; other site 557433003187 active site 557433003188 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557433003189 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 557433003190 NAD(P) binding site [chemical binding]; other site 557433003191 homotetramer interface [polypeptide binding]; other site 557433003192 homodimer interface [polypeptide binding]; other site 557433003193 active site 557433003194 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 557433003195 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557433003196 acyl carrier protein; Provisional; Region: acpP; PRK00982 557433003197 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 557433003198 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 557433003199 dimer interface [polypeptide binding]; other site 557433003200 active site 557433003201 CoA binding pocket [chemical binding]; other site 557433003202 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557433003203 MarR family; Region: MarR_2; pfam12802 557433003204 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 557433003205 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 557433003206 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 557433003207 active site 557433003208 DNA binding site [nucleotide binding] 557433003209 Int/Topo IB signature motif; other site 557433003210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557433003211 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433003212 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 557433003213 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 557433003214 active site 557433003215 nucleophile elbow; other site 557433003216 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 557433003217 DNA binding site [nucleotide binding] 557433003218 Int/Topo IB signature motif; other site 557433003219 active site 557433003220 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557433003221 EamA-like transporter family; Region: EamA; pfam00892 557433003222 EamA-like transporter family; Region: EamA; pfam00892 557433003223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557433003224 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557433003225 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 557433003226 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 557433003227 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 557433003228 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 557433003229 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 557433003230 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 557433003231 [4Fe-4S] binding site [ion binding]; other site 557433003232 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 557433003233 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 557433003234 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 557433003235 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 557433003236 molybdopterin cofactor binding site; other site 557433003237 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 557433003238 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 557433003239 ATP binding site [chemical binding]; other site 557433003240 substrate interface [chemical binding]; other site 557433003241 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 557433003242 MPT binding site; other site 557433003243 trimer interface [polypeptide binding]; other site 557433003244 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 557433003245 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 557433003246 dimer interface [polypeptide binding]; other site 557433003247 putative functional site; other site 557433003248 putative MPT binding site; other site 557433003249 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 557433003250 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 557433003251 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 557433003252 GTP binding site; other site 557433003253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 557433003254 Histidine kinase; Region: HisKA_3; pfam07730 557433003255 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 557433003256 ATP binding site [chemical binding]; other site 557433003257 Mg2+ binding site [ion binding]; other site 557433003258 G-X-G motif; other site 557433003259 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 557433003260 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 557433003261 active site 557433003262 phosphorylation site [posttranslational modification] 557433003263 intermolecular recognition site; other site 557433003264 dimerization interface [polypeptide binding]; other site 557433003265 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 557433003266 DNA binding residues [nucleotide binding] 557433003267 dimerization interface [polypeptide binding]; other site 557433003268 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 557433003269 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 557433003270 putative substrate translocation pore; other site 557433003271 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 557433003272 MoaE interaction surface [polypeptide binding]; other site 557433003273 MoeB interaction surface [polypeptide binding]; other site 557433003274 thiocarboxylated glycine; other site 557433003275 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 557433003276 MoaE homodimer interface [polypeptide binding]; other site 557433003277 MoaD interaction [polypeptide binding]; other site 557433003278 active site residues [active] 557433003279 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557433003280 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 557433003281 ABC-ATPase subunit interface; other site 557433003282 dimer interface [polypeptide binding]; other site 557433003283 putative PBP binding regions; other site 557433003284 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 557433003285 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557433003286 Walker A/P-loop; other site 557433003287 ATP binding site [chemical binding]; other site 557433003288 Q-loop/lid; other site 557433003289 ABC transporter signature motif; other site 557433003290 Walker B; other site 557433003291 D-loop; other site 557433003292 H-loop/switch region; other site 557433003293 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 557433003294 putative ligand binding residues [chemical binding]; other site 557433003295 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 557433003296 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 557433003297 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433003298 putative active site [active] 557433003299 putative NTP binding site [chemical binding]; other site 557433003300 putative nucleic acid binding site [nucleotide binding]; other site 557433003301 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433003302 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 557433003303 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433003304 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557433003305 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 557433003306 ligand binding site [chemical binding]; other site 557433003307 flexible hinge region; other site 557433003308 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 557433003309 putative switch regulator; other site 557433003310 non-specific DNA interactions [nucleotide binding]; other site 557433003311 DNA binding site [nucleotide binding] 557433003312 sequence specific DNA binding site [nucleotide binding]; other site 557433003313 putative cAMP binding site [chemical binding]; other site 557433003314 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557433003315 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433003316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433003317 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557433003318 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557433003319 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 557433003320 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 557433003321 substrate binding site [chemical binding]; other site 557433003322 multimerization interface [polypeptide binding]; other site 557433003323 ATP binding site [chemical binding]; other site 557433003324 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 557433003325 dimer interface [polypeptide binding]; other site 557433003326 substrate binding site [chemical binding]; other site 557433003327 ATP binding site [chemical binding]; other site 557433003328 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 557433003329 thiamine phosphate binding site [chemical binding]; other site 557433003330 active site 557433003331 pyrophosphate binding site [ion binding]; other site 557433003332 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 557433003333 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 557433003334 putative ion selectivity filter; other site 557433003335 putative pore gating glutamate residue; other site 557433003336 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 557433003337 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 557433003338 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 557433003339 trimer interface [polypeptide binding]; other site 557433003340 active site 557433003341 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 557433003342 catalytic site [active] 557433003343 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 557433003344 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557433003345 active site 557433003346 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 557433003347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433003348 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 557433003349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 557433003350 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 557433003351 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 557433003352 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 557433003353 Bacterial lipoprotein; Region: DUF3642; pfam12182 557433003354 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 557433003355 catalytic core [active] 557433003356 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 557433003357 active site 557433003358 trimer interface [polypeptide binding]; other site 557433003359 allosteric site; other site 557433003360 active site lid [active] 557433003361 hexamer (dimer of trimers) interface [polypeptide binding]; other site 557433003362 Fic/DOC family; Region: Fic; pfam02661 557433003363 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 557433003364 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 557433003365 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 557433003366 putative active site [active] 557433003367 putative metal binding site [ion binding]; other site 557433003368 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 557433003369 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 557433003370 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 557433003371 Walker A/P-loop; other site 557433003372 ATP binding site [chemical binding]; other site 557433003373 Q-loop/lid; other site 557433003374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433003375 ABC transporter signature motif; other site 557433003376 Walker B; other site 557433003377 D-loop; other site 557433003378 H-loop/switch region; other site 557433003379 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557433003380 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557433003381 active site 557433003382 metal binding site [ion binding]; metal-binding site 557433003383 DNA binding site [nucleotide binding] 557433003384 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 557433003385 Bacterial SH3 domain; Region: SH3_5; pfam08460 557433003386 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 557433003387 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 557433003388 Rib/alpha-like repeat; Region: Rib; cl07159 557433003389 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 557433003390 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 557433003391 non-specific DNA binding site [nucleotide binding]; other site 557433003392 salt bridge; other site 557433003393 sequence-specific DNA binding site [nucleotide binding]; other site 557433003394 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557433003395 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 557433003396 non-specific DNA binding site [nucleotide binding]; other site 557433003397 salt bridge; other site 557433003398 sequence-specific DNA binding site [nucleotide binding]; other site 557433003399 S-methylmethionine transporter; Provisional; Region: PRK11387 557433003400 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 557433003401 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 557433003402 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557433003403 Integrase core domain; Region: rve; pfam00665 557433003404 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557433003405 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 557433003406 Walker A motif; other site 557433003407 ATP binding site [chemical binding]; other site 557433003408 Walker B motif; other site 557433003409 arginine finger; other site 557433003410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 557433003411 Integrase core domain; Region: rve; pfam00665 557433003412 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 557433003413 Part of AAA domain; Region: AAA_19; pfam13245 557433003414 AAA ATPase domain; Region: AAA_15; pfam13175 557433003415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433003416 Walker A/P-loop; other site 557433003417 ATP binding site [chemical binding]; other site 557433003418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433003419 ABC transporter signature motif; other site 557433003420 Walker B; other site 557433003421 D-loop; other site 557433003422 H-loop/switch region; other site 557433003423 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 557433003424 putative active site [active] 557433003425 putative metal-binding site [ion binding]; other site 557433003426 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 557433003427 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 557433003428 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 557433003429 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 557433003430 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 557433003431 NADP binding site [chemical binding]; other site 557433003432 active site 557433003433 putative substrate binding site [chemical binding]; other site 557433003434 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 557433003435 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 557433003436 NAD binding site [chemical binding]; other site 557433003437 substrate binding site [chemical binding]; other site 557433003438 homodimer interface [polypeptide binding]; other site 557433003439 active site 557433003440 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 557433003441 Predicted transcriptional regulators [Transcription]; Region: COG1733 557433003442 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557433003443 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557433003444 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557433003445 Probable transposase; Region: OrfB_IS605; pfam01385 557433003446 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557433003447 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433003448 Homeodomain-like domain; Region: HTH_23; pfam13384 557433003449 glycerol kinase; Provisional; Region: glpK; PRK00047 557433003450 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557433003451 N- and C-terminal domain interface [polypeptide binding]; other site 557433003452 active site 557433003453 MgATP binding site [chemical binding]; other site 557433003454 catalytic site [active] 557433003455 metal binding site [ion binding]; metal-binding site 557433003456 glycerol binding site [chemical binding]; other site 557433003457 homotetramer interface [polypeptide binding]; other site 557433003458 homodimer interface [polypeptide binding]; other site 557433003459 FBP binding site [chemical binding]; other site 557433003460 protein IIAGlc interface [polypeptide binding]; other site 557433003461 4-oxalocrotonate tautomerase; Provisional; Region: PRK02220 557433003462 active site 1 [active] 557433003463 dimer interface [polypeptide binding]; other site 557433003464 hexamer interface [polypeptide binding]; other site 557433003465 active site 2 [active] 557433003466 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557433003467 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 557433003468 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 557433003469 TrkA-N domain; Region: TrkA_N; pfam02254 557433003470 TrkA-C domain; Region: TrkA_C; pfam02080 557433003471 Peptidase family C69; Region: Peptidase_C69; pfam03577 557433003472 Transposase; Region: HTH_Tnp_1; cl17663 557433003473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557433003474 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433003475 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433003476 HTH-like domain; Region: HTH_21; pfam13276 557433003477 Integrase core domain; Region: rve; pfam00665 557433003478 Integrase core domain; Region: rve_3; cl15866 557433003479 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 557433003480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557433003481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433003482 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 557433003483 catalytic residue [active] 557433003484 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 557433003485 catalytic residues [active] 557433003486 peroxiredoxin; Region: AhpC; TIGR03137 557433003487 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 557433003488 dimer interface [polypeptide binding]; other site 557433003489 decamer (pentamer of dimers) interface [polypeptide binding]; other site 557433003490 catalytic triad [active] 557433003491 peroxidatic and resolving cysteines [active] 557433003492 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 557433003493 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 557433003494 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 557433003495 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 557433003496 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 557433003497 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557433003498 active site 557433003499 metal binding site [ion binding]; metal-binding site 557433003500 drug efflux system protein MdtG; Provisional; Region: PRK09874 557433003501 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 557433003502 putative substrate translocation pore; other site 557433003503 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 557433003504 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 557433003505 S-adenosylmethionine binding site [chemical binding]; other site 557433003506 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 557433003507 substrate binding site [chemical binding]; other site 557433003508 THF binding site; other site 557433003509 zinc-binding site [ion binding]; other site 557433003510 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 557433003511 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 557433003512 UbiA prenyltransferase family; Region: UbiA; pfam01040 557433003513 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557433003514 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557433003515 substrate binding pocket [chemical binding]; other site 557433003516 chain length determination region; other site 557433003517 substrate-Mg2+ binding site; other site 557433003518 catalytic residues [active] 557433003519 aspartate-rich region 1; other site 557433003520 active site lid residues [active] 557433003521 aspartate-rich region 2; other site 557433003522 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 557433003523 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 557433003524 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 557433003525 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 557433003526 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 557433003527 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 557433003528 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 557433003529 HPr interaction site; other site 557433003530 glycerol kinase (GK) interaction site [polypeptide binding]; other site 557433003531 active site 557433003532 phosphorylation site [posttranslational modification] 557433003533 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433003534 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433003535 DNA binding site [nucleotide binding] 557433003536 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 557433003537 putative dimerization interface [polypeptide binding]; other site 557433003538 putative ligand binding site [chemical binding]; other site 557433003539 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 557433003540 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433003541 putative active site [active] 557433003542 putative NTP binding site [chemical binding]; other site 557433003543 putative nucleic acid binding site [nucleotide binding]; other site 557433003544 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433003545 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 557433003546 active site 557433003547 putative catalytic site [active] 557433003548 DNA binding site [nucleotide binding] 557433003549 putative phosphate binding site [ion binding]; other site 557433003550 metal binding site A [ion binding]; metal-binding site 557433003551 AP binding site [nucleotide binding]; other site 557433003552 metal binding site B [ion binding]; metal-binding site 557433003553 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 557433003554 putative metal binding site [ion binding]; other site 557433003555 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433003556 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 557433003557 amidase catalytic site [active] 557433003558 Zn binding residues [ion binding]; other site 557433003559 substrate binding site [chemical binding]; other site 557433003560 Bacteriophage holin; Region: Phage_holin_1; cl02344 557433003561 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 557433003562 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 557433003563 active site 557433003564 catalytic triad [active] 557433003565 oxyanion hole [active] 557433003566 Kinesin-related; Region: Kinesin-related; pfam06548 557433003567 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 557433003568 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 557433003569 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 557433003570 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557433003571 NlpC/P60 family; Region: NLPC_P60; cl17555 557433003572 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 557433003573 Phage tail protein; Region: Sipho_tail; pfam05709 557433003574 tape measure domain; Region: tape_meas_nterm; TIGR02675 557433003575 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 557433003576 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557433003577 catalytic residue [active] 557433003578 Phage major tail protein; Region: Phage_tail; pfam04630 557433003579 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 557433003580 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 557433003581 oligomerization interface [polypeptide binding]; other site 557433003582 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 557433003583 Phage capsid family; Region: Phage_capsid; pfam05065 557433003584 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 557433003585 oligomer interface [polypeptide binding]; other site 557433003586 Clp protease; Region: CLP_protease; pfam00574 557433003587 active site residues [active] 557433003588 Phage portal protein; Region: Phage_portal; pfam04860 557433003589 Phage-related protein [Function unknown]; Region: COG4695 557433003590 Phage Terminase; Region: Terminase_1; pfam03354 557433003591 Phage terminase, small subunit; Region: Terminase_4; cl01525 557433003592 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 557433003593 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 557433003594 active site 557433003595 Protein of unknown function (DUF563); Region: DUF563; cl15705 557433003596 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433003597 Helix-turn-helix domain; Region: HTH_36; pfam13730 557433003598 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 557433003599 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 557433003600 RecT family; Region: RecT; pfam03837 557433003601 Prophage antirepressor [Transcription]; Region: COG3617 557433003602 BRO family, N-terminal domain; Region: Bro-N; smart01040 557433003603 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 557433003604 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 557433003605 non-specific DNA binding site [nucleotide binding]; other site 557433003606 salt bridge; other site 557433003607 sequence-specific DNA binding site [nucleotide binding]; other site 557433003608 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 557433003609 non-specific DNA binding site [nucleotide binding]; other site 557433003610 salt bridge; other site 557433003611 sequence-specific DNA binding site [nucleotide binding]; other site 557433003612 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 557433003613 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 557433003614 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 557433003615 active site 557433003616 DNA binding site [nucleotide binding] 557433003617 Int/Topo IB signature motif; other site 557433003618 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 557433003619 amino acid transporter; Region: 2A0306; TIGR00909 557433003620 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 557433003621 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 557433003622 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 557433003623 RimM N-terminal domain; Region: RimM; pfam01782 557433003624 PRC-barrel domain; Region: PRC; pfam05239 557433003625 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 557433003626 KH domain; Region: KH_4; pfam13083 557433003627 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 557433003628 signal recognition particle protein; Provisional; Region: PRK10867 557433003629 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 557433003630 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 557433003631 P loop; other site 557433003632 GTP binding site [chemical binding]; other site 557433003633 Signal peptide binding domain; Region: SRP_SPB; pfam02978 557433003634 putative DNA-binding protein; Validated; Region: PRK00118 557433003635 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 557433003636 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 557433003637 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 557433003638 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 557433003639 P loop; other site 557433003640 GTP binding site [chemical binding]; other site 557433003641 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557433003642 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557433003643 Walker A/P-loop; other site 557433003644 ATP binding site [chemical binding]; other site 557433003645 Q-loop/lid; other site 557433003646 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 557433003647 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 557433003648 ABC transporter signature motif; other site 557433003649 Walker B; other site 557433003650 D-loop; other site 557433003651 H-loop/switch region; other site 557433003652 ribonuclease III; Reviewed; Region: rnc; PRK00102 557433003653 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 557433003654 dimerization interface [polypeptide binding]; other site 557433003655 active site 557433003656 metal binding site [ion binding]; metal-binding site 557433003657 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 557433003658 dsRNA binding site [nucleotide binding]; other site 557433003659 acyl carrier protein; Provisional; Region: acpP; PRK00982 557433003660 putative phosphate acyltransferase; Provisional; Region: PRK05331 557433003661 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 557433003662 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 557433003663 generic binding surface II; other site 557433003664 ssDNA binding site; other site 557433003665 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 557433003666 ATP binding site [chemical binding]; other site 557433003667 putative Mg++ binding site [ion binding]; other site 557433003668 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 557433003669 nucleotide binding region [chemical binding]; other site 557433003670 ATP-binding site [chemical binding]; other site 557433003671 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 557433003672 DAK2 domain; Region: Dak2; pfam02734 557433003673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 557433003674 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 557433003675 Thiamine pyrophosphokinase; Region: TPK; cd07995 557433003676 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 557433003677 active site 557433003678 dimerization interface [polypeptide binding]; other site 557433003679 thiamine binding site [chemical binding]; other site 557433003680 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 557433003681 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 557433003682 substrate binding site [chemical binding]; other site 557433003683 hexamer interface [polypeptide binding]; other site 557433003684 metal binding site [ion binding]; metal-binding site 557433003685 GTPase RsgA; Reviewed; Region: PRK00098 557433003686 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 557433003687 RNA binding site [nucleotide binding]; other site 557433003688 homodimer interface [polypeptide binding]; other site 557433003689 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 557433003690 GTPase/Zn-binding domain interface [polypeptide binding]; other site 557433003691 GTP/Mg2+ binding site [chemical binding]; other site 557433003692 G4 box; other site 557433003693 G5 box; other site 557433003694 G1 box; other site 557433003695 Switch I region; other site 557433003696 G2 box; other site 557433003697 G3 box; other site 557433003698 Switch II region; other site 557433003699 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 557433003700 Catalytic domain of Protein Kinases; Region: PKc; cd00180 557433003701 active site 557433003702 ATP binding site [chemical binding]; other site 557433003703 substrate binding site [chemical binding]; other site 557433003704 activation loop (A-loop); other site 557433003705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 557433003706 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 557433003707 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 557433003708 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 557433003709 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 557433003710 active site 557433003711 16S rRNA methyltransferase B; Provisional; Region: PRK14902 557433003712 NusB family; Region: NusB; pfam01029 557433003713 putative RNA binding site [nucleotide binding]; other site 557433003714 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 557433003715 S-adenosylmethionine binding site [chemical binding]; other site 557433003716 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 557433003717 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 557433003718 putative active site [active] 557433003719 substrate binding site [chemical binding]; other site 557433003720 putative cosubstrate binding site; other site 557433003721 catalytic site [active] 557433003722 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 557433003723 substrate binding site [chemical binding]; other site 557433003724 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 557433003725 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 557433003726 ATP binding site [chemical binding]; other site 557433003727 putative Mg++ binding site [ion binding]; other site 557433003728 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 557433003729 nucleotide binding region [chemical binding]; other site 557433003730 ATP-binding site [chemical binding]; other site 557433003731 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 557433003732 Flavoprotein; Region: Flavoprotein; pfam02441 557433003733 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 557433003734 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 557433003735 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557433003736 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 557433003737 catalytic site [active] 557433003738 G-X2-G-X-G-K; other site 557433003739 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 557433003740 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557433003741 Walker A/P-loop; other site 557433003742 ATP binding site [chemical binding]; other site 557433003743 Q-loop/lid; other site 557433003744 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557433003745 ABC transporter signature motif; other site 557433003746 Walker B; other site 557433003747 D-loop; other site 557433003748 H-loop/switch region; other site 557433003749 Arginine repressor [Transcription]; Region: ArgR; COG1438 557433003750 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 557433003751 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 557433003752 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 557433003753 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 557433003754 RNA binding surface [nucleotide binding]; other site 557433003755 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 557433003756 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557433003757 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557433003758 substrate binding pocket [chemical binding]; other site 557433003759 chain length determination region; other site 557433003760 substrate-Mg2+ binding site; other site 557433003761 catalytic residues [active] 557433003762 aspartate-rich region 1; other site 557433003763 active site lid residues [active] 557433003764 aspartate-rich region 2; other site 557433003765 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 557433003766 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 557433003767 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 557433003768 generic binding surface II; other site 557433003769 generic binding surface I; other site 557433003770 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 557433003771 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 557433003772 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 557433003773 homodimer interface [polypeptide binding]; other site 557433003774 NADP binding site [chemical binding]; other site 557433003775 substrate binding site [chemical binding]; other site 557433003776 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 557433003777 putative RNA binding site [nucleotide binding]; other site 557433003778 Asp23 family; Region: Asp23; pfam03780 557433003779 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 557433003780 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 557433003781 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 557433003782 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 557433003783 active site 557433003784 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 557433003785 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557433003786 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 557433003787 Protein of unknown function (DUF464); Region: DUF464; pfam04327 557433003788 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 557433003789 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557433003790 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557433003791 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 557433003792 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 557433003793 methionine sulfoxide reductase A; Provisional; Region: PRK14054 557433003794 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 557433003795 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557433003796 aromatic amino acid aminotransferase; Validated; Region: PRK07309 557433003797 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 557433003798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433003799 homodimer interface [polypeptide binding]; other site 557433003800 catalytic residue [active] 557433003801 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 557433003802 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557433003803 active site 557433003804 HIGH motif; other site 557433003805 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557433003806 active site 557433003807 KMSKS motif; other site 557433003808 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 557433003809 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 557433003810 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557433003811 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557433003812 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 557433003813 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 557433003814 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 557433003815 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 557433003816 active site residue [active] 557433003817 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 557433003818 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557433003819 nucleotide binding site [chemical binding]; other site 557433003820 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 557433003821 Rhomboid family; Region: Rhomboid; pfam01694 557433003822 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 557433003823 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 557433003824 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 557433003825 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 557433003826 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557433003827 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557433003828 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 557433003829 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557433003830 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557433003831 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557433003832 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557433003833 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 557433003834 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 557433003835 Sugar specificity; other site 557433003836 Pyrimidine base specificity; other site 557433003837 ATP-binding site [chemical binding]; other site 557433003838 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557433003839 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433003840 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557433003841 NlpC/P60 family; Region: NLPC_P60; pfam00877 557433003842 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 557433003843 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 557433003844 putative tRNA-binding site [nucleotide binding]; other site 557433003845 B3/4 domain; Region: B3_4; pfam03483 557433003846 tRNA synthetase B5 domain; Region: B5; smart00874 557433003847 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 557433003848 dimer interface [polypeptide binding]; other site 557433003849 motif 1; other site 557433003850 motif 3; other site 557433003851 motif 2; other site 557433003852 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 557433003853 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 557433003854 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 557433003855 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 557433003856 dimer interface [polypeptide binding]; other site 557433003857 motif 1; other site 557433003858 active site 557433003859 motif 2; other site 557433003860 motif 3; other site 557433003861 Predicted transcriptional regulators [Transcription]; Region: COG1733 557433003862 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557433003863 HD domain; Region: HD; pfam01966 557433003864 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557433003865 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 557433003866 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557433003867 Acylphosphatase; Region: Acylphosphatase; pfam00708 557433003868 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 557433003869 OxaA-like protein precursor; Provisional; Region: PRK02463 557433003870 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 557433003871 active site 557433003872 catalytic residues [active] 557433003873 metal binding site [ion binding]; metal-binding site 557433003874 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 557433003875 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 557433003876 inner membrane transporter YjeM; Provisional; Region: PRK15238 557433003877 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 557433003878 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 557433003879 dimerization interface [polypeptide binding]; other site 557433003880 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 557433003881 dimer interface [polypeptide binding]; other site 557433003882 phosphorylation site [posttranslational modification] 557433003883 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 557433003884 ATP binding site [chemical binding]; other site 557433003885 Mg2+ binding site [ion binding]; other site 557433003886 G-X-G motif; other site 557433003887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433003888 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 557433003889 active site 557433003890 phosphorylation site [posttranslational modification] 557433003891 intermolecular recognition site; other site 557433003892 dimerization interface [polypeptide binding]; other site 557433003893 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 557433003894 DNA binding site [nucleotide binding] 557433003895 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 557433003896 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 557433003897 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 557433003898 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 557433003899 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 557433003900 S-adenosylmethionine binding site [chemical binding]; other site 557433003901 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 557433003902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557433003903 Zn2+ binding site [ion binding]; other site 557433003904 Mg2+ binding site [ion binding]; other site 557433003905 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 557433003906 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 557433003907 active site 557433003908 (T/H)XGH motif; other site 557433003909 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 557433003910 GTPase YqeH; Provisional; Region: PRK13796 557433003911 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 557433003912 GTP/Mg2+ binding site [chemical binding]; other site 557433003913 G4 box; other site 557433003914 G5 box; other site 557433003915 G1 box; other site 557433003916 Switch I region; other site 557433003917 G2 box; other site 557433003918 G3 box; other site 557433003919 Switch II region; other site 557433003920 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 557433003921 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 557433003922 active site 557433003923 motif I; other site 557433003924 motif II; other site 557433003925 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 557433003926 23S rRNA binding site [nucleotide binding]; other site 557433003927 L21 binding site [polypeptide binding]; other site 557433003928 L13 binding site [polypeptide binding]; other site 557433003929 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 557433003930 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 557433003931 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 557433003932 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 557433003933 primosomal protein DnaI; Reviewed; Region: PRK08939 557433003934 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 557433003935 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 557433003936 Walker A motif; other site 557433003937 ATP binding site [chemical binding]; other site 557433003938 Walker B motif; other site 557433003939 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 557433003940 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 557433003941 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 557433003942 ATP cone domain; Region: ATP-cone; pfam03477 557433003943 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 557433003944 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 557433003945 CoA-binding site [chemical binding]; other site 557433003946 ATP-binding [chemical binding]; other site 557433003947 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 557433003948 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 557433003949 DNA binding site [nucleotide binding] 557433003950 catalytic residue [active] 557433003951 H2TH interface [polypeptide binding]; other site 557433003952 putative catalytic residues [active] 557433003953 turnover-facilitating residue; other site 557433003954 intercalation triad [nucleotide binding]; other site 557433003955 8OG recognition residue [nucleotide binding]; other site 557433003956 putative reading head residues; other site 557433003957 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 557433003958 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557433003959 DNA polymerase I; Provisional; Region: PRK05755 557433003960 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 557433003961 active site 557433003962 metal binding site 1 [ion binding]; metal-binding site 557433003963 putative 5' ssDNA interaction site; other site 557433003964 metal binding site 3; metal-binding site 557433003965 metal binding site 2 [ion binding]; metal-binding site 557433003966 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 557433003967 putative DNA binding site [nucleotide binding]; other site 557433003968 putative metal binding site [ion binding]; other site 557433003969 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 557433003970 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 557433003971 active site 557433003972 DNA binding site [nucleotide binding] 557433003973 catalytic site [active] 557433003974 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 557433003975 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557433003976 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 557433003977 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 557433003978 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557433003979 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557433003980 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557433003981 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 557433003982 putative tRNA-binding site [nucleotide binding]; other site 557433003983 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 557433003984 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557433003985 catalytic residues [active] 557433003986 Predicted small secreted protein [Function unknown]; Region: COG5584 557433003987 glutaminase A; Region: Gln_ase; TIGR03814 557433003988 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 557433003989 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 557433003990 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433003991 active site 557433003992 catalytic tetrad [active] 557433003993 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 557433003994 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 557433003995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557433003996 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 557433003997 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433003998 putative active site [active] 557433003999 putative NTP binding site [chemical binding]; other site 557433004000 putative nucleic acid binding site [nucleotide binding]; other site 557433004001 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433004002 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 557433004003 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 557433004004 S-adenosylmethionine binding site [chemical binding]; other site 557433004005 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 557433004006 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557433004007 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 557433004008 Walker A/P-loop; other site 557433004009 ATP binding site [chemical binding]; other site 557433004010 Q-loop/lid; other site 557433004011 ABC transporter signature motif; other site 557433004012 Walker B; other site 557433004013 D-loop; other site 557433004014 H-loop/switch region; other site 557433004015 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 557433004016 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 557433004017 HIT family signature motif; other site 557433004018 catalytic residue [active] 557433004019 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 557433004020 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557433004021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433004022 AAA domain; Region: AAA_23; pfam13476 557433004023 Walker A/P-loop; other site 557433004024 ATP binding site [chemical binding]; other site 557433004025 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 557433004026 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 557433004027 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557433004028 active site 557433004029 metal binding site [ion binding]; metal-binding site 557433004030 DNA binding site [nucleotide binding] 557433004031 Protein of unknown function (DUF964); Region: DUF964; cl01483 557433004032 Transglycosylase; Region: Transgly; pfam00912 557433004033 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 557433004034 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557433004035 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 557433004036 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 557433004037 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 557433004038 active site 557433004039 HIGH motif; other site 557433004040 KMSK motif region; other site 557433004041 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 557433004042 tRNA binding surface [nucleotide binding]; other site 557433004043 anticodon binding site; other site 557433004044 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 557433004045 dimer interface [polypeptide binding]; other site 557433004046 substrate binding site [chemical binding]; other site 557433004047 ATP binding site [chemical binding]; other site 557433004048 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 557433004049 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557433004050 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433004051 NAD binding site [chemical binding]; other site 557433004052 dimer interface [polypeptide binding]; other site 557433004053 substrate binding site [chemical binding]; other site 557433004054 dihydropteroate synthase; Region: DHPS; TIGR01496 557433004055 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 557433004056 substrate binding pocket [chemical binding]; other site 557433004057 dimer interface [polypeptide binding]; other site 557433004058 inhibitor binding site; inhibition site 557433004059 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 557433004060 active site 557433004061 dimerization interface [polypeptide binding]; other site 557433004062 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 557433004063 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557433004064 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 557433004065 GTP cyclohydrolase I; Provisional; Region: PLN03044 557433004066 active site 557433004067 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 557433004068 catalytic center binding site [active] 557433004069 ATP binding site [chemical binding]; other site 557433004070 Dihydroneopterin aldolase; Region: FolB; pfam02152 557433004071 active site 557433004072 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 557433004073 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 557433004074 CAAX protease self-immunity; Region: Abi; pfam02517 557433004075 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557433004076 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 557433004077 substrate binding site [chemical binding]; other site 557433004078 dimer interface [polypeptide binding]; other site 557433004079 ATP binding site [chemical binding]; other site 557433004080 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433004081 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433004082 DNA binding site [nucleotide binding] 557433004083 domain linker motif; other site 557433004084 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 557433004085 dimerization interface [polypeptide binding]; other site 557433004086 ligand binding site [chemical binding]; other site 557433004087 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 557433004088 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 557433004089 Substrate-binding site [chemical binding]; other site 557433004090 Substrate specificity [chemical binding]; other site 557433004091 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557433004092 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 557433004093 Ligand Binding Site [chemical binding]; other site 557433004094 dipeptidase PepV; Reviewed; Region: PRK07318 557433004095 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 557433004096 active site 557433004097 metal binding site [ion binding]; metal-binding site 557433004098 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 557433004099 putative substrate binding site [chemical binding]; other site 557433004100 putative ATP binding site [chemical binding]; other site 557433004101 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557433004102 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 557433004103 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 557433004104 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 557433004105 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557433004106 HIGH motif; other site 557433004107 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557433004108 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557433004109 active site 557433004110 KMSKS motif; other site 557433004111 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 557433004112 tRNA binding surface [nucleotide binding]; other site 557433004113 S-adenosylmethionine synthetase; Validated; Region: PRK05250 557433004114 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 557433004115 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 557433004116 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 557433004117 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 557433004118 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 557433004119 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433004120 putative substrate translocation pore; other site 557433004121 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557433004122 metal binding site 2 [ion binding]; metal-binding site 557433004123 putative DNA binding helix; other site 557433004124 metal binding site 1 [ion binding]; metal-binding site 557433004125 dimer interface [polypeptide binding]; other site 557433004126 structural Zn2+ binding site [ion binding]; other site 557433004127 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 557433004128 VanZ like family; Region: VanZ; pfam04892 557433004129 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 557433004130 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 557433004131 DNA polymerase IV; Reviewed; Region: PRK03103 557433004132 Y-family of DNA polymerases; Region: PolY; cl12025 557433004133 active site 557433004134 DNA binding site [nucleotide binding] 557433004135 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 557433004136 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 557433004137 putative dimer interface [polypeptide binding]; other site 557433004138 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 557433004139 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433004140 active site 557433004141 catalytic tetrad [active] 557433004142 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 557433004143 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 557433004144 homodimer interface [polypeptide binding]; other site 557433004145 active site 557433004146 FMN binding site [chemical binding]; other site 557433004147 substrate binding site [chemical binding]; other site 557433004148 4Fe-4S binding domain; Region: Fer4; pfam00037 557433004149 4Fe-4S binding domain; Region: Fer4; pfam00037 557433004150 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 557433004151 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557433004152 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433004153 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 557433004154 active site 557433004155 putative catalytic site [active] 557433004156 DNA binding site [nucleotide binding] 557433004157 putative phosphate binding site [ion binding]; other site 557433004158 metal binding site A [ion binding]; metal-binding site 557433004159 AP binding site [nucleotide binding]; other site 557433004160 metal binding site B [ion binding]; metal-binding site 557433004161 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433004162 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 557433004163 active site 557433004164 metal-binding site [ion binding] 557433004165 nucleotide-binding site [chemical binding]; other site 557433004166 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433004167 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 557433004168 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 557433004169 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 557433004170 FeS/SAM binding site; other site 557433004171 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 557433004172 ATP cone domain; Region: ATP-cone; pfam03477 557433004173 Class III ribonucleotide reductase; Region: RNR_III; cd01675 557433004174 effector binding site; other site 557433004175 active site 557433004176 Zn binding site [ion binding]; other site 557433004177 glycine loop; other site 557433004178 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 557433004179 putative substrate translocation pore; other site 557433004180 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 557433004181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433004182 Coenzyme A binding pocket [chemical binding]; other site 557433004183 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 557433004184 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557433004185 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 557433004186 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557433004187 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 557433004188 putative ADP-binding pocket [chemical binding]; other site 557433004189 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 557433004190 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557433004191 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557433004192 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557433004193 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 557433004194 dimerization domain swap beta strand [polypeptide binding]; other site 557433004195 regulatory protein interface [polypeptide binding]; other site 557433004196 active site 557433004197 regulatory phosphorylation site [posttranslational modification]; other site 557433004198 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 557433004199 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557433004200 Walker A motif; other site 557433004201 ATP binding site [chemical binding]; other site 557433004202 Walker B motif; other site 557433004203 arginine finger; other site 557433004204 UvrB/uvrC motif; Region: UVR; pfam02151 557433004205 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 557433004206 Walker A motif; other site 557433004207 ATP binding site [chemical binding]; other site 557433004208 Walker B motif; other site 557433004209 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557433004210 Predicted membrane protein [Function unknown]; Region: COG4684 557433004211 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557433004212 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 557433004213 Bacterial SH3 domain; Region: SH3_3; cl17532 557433004214 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557433004215 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557433004216 Walker A/P-loop; other site 557433004217 ATP binding site [chemical binding]; other site 557433004218 Q-loop/lid; other site 557433004219 ABC transporter signature motif; other site 557433004220 Walker B; other site 557433004221 D-loop; other site 557433004222 H-loop/switch region; other site 557433004223 Predicted transcriptional regulators [Transcription]; Region: COG1725 557433004224 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557433004225 DNA-binding site [nucleotide binding]; DNA binding site 557433004226 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 557433004227 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 557433004228 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557433004229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557433004230 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433004231 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433004232 Helix-turn-helix domain; Region: HTH_38; pfam13936 557433004233 Winged helix-turn helix; Region: HTH_29; pfam13551 557433004234 Homeodomain-like domain; Region: HTH_32; pfam13565 557433004235 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 557433004236 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557433004237 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557433004238 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 557433004239 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 557433004240 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557433004241 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557433004242 active site 557433004243 catalytic site [active] 557433004244 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 557433004245 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 557433004246 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557433004247 NlpC/P60 family; Region: NLPC_P60; pfam00877 557433004248 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 557433004249 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433004250 putative active site [active] 557433004251 putative NTP binding site [chemical binding]; other site 557433004252 putative nucleic acid binding site [nucleotide binding]; other site 557433004253 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433004254 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433004255 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 557433004256 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 557433004257 G1 box; other site 557433004258 putative GEF interaction site [polypeptide binding]; other site 557433004259 GTP/Mg2+ binding site [chemical binding]; other site 557433004260 Switch I region; other site 557433004261 G2 box; other site 557433004262 G3 box; other site 557433004263 Switch II region; other site 557433004264 G4 box; other site 557433004265 G5 box; other site 557433004266 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 557433004267 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 557433004268 Predicted integral membrane protein [Function unknown]; Region: COG5617 557433004269 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557433004270 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557433004271 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 557433004272 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557433004273 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433004274 transposase/IS protein; Provisional; Region: PRK09183 557433004275 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 557433004276 Walker A motif; other site 557433004277 ATP binding site [chemical binding]; other site 557433004278 Walker B motif; other site 557433004279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 557433004280 Integrase core domain; Region: rve; pfam00665 557433004281 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557433004282 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 557433004283 active site 557433004284 Cyclin-dependent kinase regulatory subunit; Region: CKS; smart01084 557433004285 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 557433004286 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557433004287 NlpC/P60 family; Region: NLPC_P60; pfam00877 557433004288 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 557433004289 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 557433004290 amidase catalytic site [active] 557433004291 Zn binding residues [ion binding]; other site 557433004292 substrate binding site [chemical binding]; other site 557433004293 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433004294 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 557433004295 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557433004296 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 557433004297 Acyltransferase family; Region: Acyl_transf_3; pfam01757 557433004298 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 557433004299 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 557433004300 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 557433004301 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 557433004302 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557433004303 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 557433004304 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 557433004305 Chain length determinant protein; Region: Wzz; cl15801 557433004306 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 557433004307 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 557433004308 UDP-galactopyranose mutase; Region: GLF; pfam03275 557433004309 Bacterial sugar transferase; Region: Bac_transf; pfam02397 557433004310 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 557433004311 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 557433004312 Ligand binding site; other site 557433004313 Putative Catalytic site; other site 557433004314 DXD motif; other site 557433004315 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 557433004316 recombination regulator RecX; Provisional; Region: recX; PRK14135 557433004317 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 557433004318 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 557433004319 inner membrane transporter YjeM; Provisional; Region: PRK15238 557433004320 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557433004321 transaminase; Validated; Region: PRK07324 557433004322 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 557433004323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433004324 homodimer interface [polypeptide binding]; other site 557433004325 catalytic residue [active] 557433004326 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 557433004327 active site 557433004328 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557433004329 Predicted membrane protein [Function unknown]; Region: COG2246 557433004330 GtrA-like protein; Region: GtrA; pfam04138 557433004331 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 557433004332 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 557433004333 active site 557433004334 homodimer interface [polypeptide binding]; other site 557433004335 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557433004336 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 557433004337 ATP binding site [chemical binding]; other site 557433004338 putative Mg++ binding site [ion binding]; other site 557433004339 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 557433004340 nucleotide binding region [chemical binding]; other site 557433004341 ATP-binding site [chemical binding]; other site 557433004342 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557433004343 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557433004344 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 557433004345 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 557433004346 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 557433004347 NAD(P) binding site [chemical binding]; other site 557433004348 LDH/MDH dimer interface [polypeptide binding]; other site 557433004349 substrate binding site [chemical binding]; other site 557433004350 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 557433004351 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 557433004352 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433004353 Coenzyme A binding pocket [chemical binding]; other site 557433004354 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557433004355 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 557433004356 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 557433004357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433004358 Coenzyme A binding pocket [chemical binding]; other site 557433004359 LytTr DNA-binding domain; Region: LytTR; smart00850 557433004360 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 557433004361 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 557433004362 substrate binding site [chemical binding]; other site 557433004363 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 557433004364 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 557433004365 DNA binding site [nucleotide binding] 557433004366 active site 557433004367 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 557433004368 putative FMN binding site [chemical binding]; other site 557433004369 glycerol-3-phosphate dehydrogenase; Provisional; Region: PTZ00345 557433004370 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 557433004371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433004372 Coenzyme A binding pocket [chemical binding]; other site 557433004373 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 557433004374 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557433004375 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557433004376 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557433004377 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 557433004378 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 557433004379 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 557433004380 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 557433004381 ATP binding site [chemical binding]; other site 557433004382 putative Mg++ binding site [ion binding]; other site 557433004383 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 557433004384 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 557433004385 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557433004386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433004387 Walker A/P-loop; other site 557433004388 ATP binding site [chemical binding]; other site 557433004389 Q-loop/lid; other site 557433004390 ABC transporter signature motif; other site 557433004391 Walker B; other site 557433004392 D-loop; other site 557433004393 H-loop/switch region; other site 557433004394 LytTr DNA-binding domain; Region: LytTR; smart00850 557433004395 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 557433004396 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 557433004397 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557433004398 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 557433004399 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 557433004400 ligand binding site [chemical binding]; other site 557433004401 flexible hinge region; other site 557433004402 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 557433004403 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 557433004404 dinuclear metal binding motif [ion binding]; other site 557433004405 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 557433004406 metal-binding site [ion binding] 557433004407 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 557433004408 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 557433004409 putative active site [active] 557433004410 putative NTP binding site [chemical binding]; other site 557433004411 putative nucleic acid binding site [nucleotide binding]; other site 557433004412 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 557433004413 Isochorismatase family; Region: Isochorismatase; pfam00857 557433004414 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 557433004415 catalytic triad [active] 557433004416 conserved cis-peptide bond; other site 557433004417 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 557433004418 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 557433004419 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 557433004420 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 557433004421 ATP binding site [chemical binding]; other site 557433004422 putative Mg++ binding site [ion binding]; other site 557433004423 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557433004424 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557433004425 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 557433004426 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 557433004427 active site 557433004428 DNA binding site [nucleotide binding] 557433004429 Int/Topo IB signature motif; other site 557433004430 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557433004431 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557433004432 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557433004433 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557433004434 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557433004435 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557433004436 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 557433004437 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 557433004438 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 557433004439 S-adenosylmethionine binding site [chemical binding]; other site 557433004440 putative lipid kinase; Reviewed; Region: PRK13055 557433004441 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 557433004442 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 557433004443 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 557433004444 GatB domain; Region: GatB_Yqey; smart00845 557433004445 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 557433004446 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 557433004447 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 557433004448 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 557433004449 putative dimer interface [polypeptide binding]; other site 557433004450 CamS sex pheromone cAM373 precursor; Region: CamS; pfam07537 557433004451 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 557433004452 putative dimer interface [polypeptide binding]; other site 557433004453 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 557433004454 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 557433004455 nucleotide binding pocket [chemical binding]; other site 557433004456 K-X-D-G motif; other site 557433004457 catalytic site [active] 557433004458 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 557433004459 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 557433004460 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 557433004461 Dimer interface [polypeptide binding]; other site 557433004462 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 557433004463 Part of AAA domain; Region: AAA_19; pfam13245 557433004464 Family description; Region: UvrD_C_2; pfam13538 557433004465 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557433004466 xanthine phosphoribosyltransferase; Validated; Region: PRK09219 557433004467 active site 557433004468 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557433004469 acetoin reductase; Validated; Region: PRK08643 557433004470 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 557433004471 NAD binding site [chemical binding]; other site 557433004472 homotetramer interface [polypeptide binding]; other site 557433004473 homodimer interface [polypeptide binding]; other site 557433004474 active site 557433004475 substrate binding site [chemical binding]; other site 557433004476 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 557433004477 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 557433004478 23S rRNA interface [nucleotide binding]; other site 557433004479 L3 interface [polypeptide binding]; other site 557433004480 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 557433004481 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 557433004482 dimerization interface 3.5A [polypeptide binding]; other site 557433004483 active site 557433004484 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 557433004485 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 557433004486 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557433004487 Walker A/P-loop; other site 557433004488 ATP binding site [chemical binding]; other site 557433004489 Q-loop/lid; other site 557433004490 ABC transporter signature motif; other site 557433004491 Walker B; other site 557433004492 D-loop; other site 557433004493 H-loop/switch region; other site 557433004494 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 557433004495 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557433004496 Walker A/P-loop; other site 557433004497 ATP binding site [chemical binding]; other site 557433004498 Q-loop/lid; other site 557433004499 ABC transporter signature motif; other site 557433004500 Walker B; other site 557433004501 D-loop; other site 557433004502 H-loop/switch region; other site 557433004503 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 557433004504 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 557433004505 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 557433004506 alphaNTD homodimer interface [polypeptide binding]; other site 557433004507 alphaNTD - beta interaction site [polypeptide binding]; other site 557433004508 alphaNTD - beta' interaction site [polypeptide binding]; other site 557433004509 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 557433004510 30S ribosomal protein S11; Validated; Region: PRK05309 557433004511 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 557433004512 30S ribosomal protein S13; Region: bact_S13; TIGR03631 557433004513 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 557433004514 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 557433004515 rRNA binding site [nucleotide binding]; other site 557433004516 predicted 30S ribosome binding site; other site 557433004517 adenylate kinase; Reviewed; Region: adk; PRK00279 557433004518 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 557433004519 AMP-binding site [chemical binding]; other site 557433004520 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557433004521 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 557433004522 SecY translocase; Region: SecY; pfam00344 557433004523 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 557433004524 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 557433004525 23S rRNA binding site [nucleotide binding]; other site 557433004526 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 557433004527 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 557433004528 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 557433004529 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 557433004530 5S rRNA interface [nucleotide binding]; other site 557433004531 L27 interface [polypeptide binding]; other site 557433004532 23S rRNA interface [nucleotide binding]; other site 557433004533 L5 interface [polypeptide binding]; other site 557433004534 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 557433004535 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557433004536 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557433004537 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 557433004538 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 557433004539 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 557433004540 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 557433004541 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 557433004542 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 557433004543 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 557433004544 RNA binding site [nucleotide binding]; other site 557433004545 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 557433004546 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 557433004547 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 557433004548 23S rRNA interface [nucleotide binding]; other site 557433004549 putative translocon interaction site; other site 557433004550 signal recognition particle (SRP54) interaction site; other site 557433004551 L23 interface [polypeptide binding]; other site 557433004552 trigger factor interaction site; other site 557433004553 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 557433004554 23S rRNA interface [nucleotide binding]; other site 557433004555 5S rRNA interface [nucleotide binding]; other site 557433004556 putative antibiotic binding site [chemical binding]; other site 557433004557 L25 interface [polypeptide binding]; other site 557433004558 L27 interface [polypeptide binding]; other site 557433004559 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 557433004560 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 557433004561 G-X-X-G motif; other site 557433004562 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 557433004563 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 557433004564 putative translocon binding site; other site 557433004565 protein-rRNA interface [nucleotide binding]; other site 557433004566 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 557433004567 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 557433004568 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 557433004569 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 557433004570 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 557433004571 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 557433004572 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 557433004573 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 557433004574 elongation factor G; Reviewed; Region: PRK12739 557433004575 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557433004576 G1 box; other site 557433004577 putative GEF interaction site [polypeptide binding]; other site 557433004578 GTP/Mg2+ binding site [chemical binding]; other site 557433004579 Switch I region; other site 557433004580 G2 box; other site 557433004581 G3 box; other site 557433004582 Switch II region; other site 557433004583 G4 box; other site 557433004584 G5 box; other site 557433004585 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 557433004586 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 557433004587 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 557433004588 30S ribosomal protein S7; Validated; Region: PRK05302 557433004589 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 557433004590 S17 interaction site [polypeptide binding]; other site 557433004591 S8 interaction site; other site 557433004592 16S rRNA interaction site [nucleotide binding]; other site 557433004593 streptomycin interaction site [chemical binding]; other site 557433004594 23S rRNA interaction site [nucleotide binding]; other site 557433004595 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 557433004596 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 557433004597 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 557433004598 Predicted membrane protein [Function unknown]; Region: COG3371 557433004599 Protein of unknown function (DUF998); Region: DUF998; pfam06197 557433004600 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 557433004601 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 557433004602 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 557433004603 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 557433004604 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 557433004605 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 557433004606 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 557433004607 G-loop; other site 557433004608 DNA binding site [nucleotide binding] 557433004609 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 557433004610 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 557433004611 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 557433004612 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 557433004613 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 557433004614 RPB1 interaction site [polypeptide binding]; other site 557433004615 RPB12 interaction site [polypeptide binding]; other site 557433004616 RPB10 interaction site [polypeptide binding]; other site 557433004617 RPB11 interaction site [polypeptide binding]; other site 557433004618 RPB3 interaction site [polypeptide binding]; other site 557433004619 RPB12 interaction site [polypeptide binding]; other site 557433004620 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557433004621 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557433004622 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 557433004623 Clp amino terminal domain; Region: Clp_N; pfam02861 557433004624 Clp amino terminal domain; Region: Clp_N; pfam02861 557433004625 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 557433004626 Walker A motif; other site 557433004627 ATP binding site [chemical binding]; other site 557433004628 Walker B motif; other site 557433004629 arginine finger; other site 557433004630 UvrB/uvrC motif; Region: UVR; pfam02151 557433004631 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 557433004632 Walker A motif; other site 557433004633 ATP binding site [chemical binding]; other site 557433004634 Walker B motif; other site 557433004635 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557433004636 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 557433004637 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 557433004638 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 557433004639 NAD binding site [chemical binding]; other site 557433004640 substrate binding site [chemical binding]; other site 557433004641 catalytic Zn binding site [ion binding]; other site 557433004642 tetramer interface [polypeptide binding]; other site 557433004643 structural Zn binding site [ion binding]; other site 557433004644 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 557433004645 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 557433004646 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 557433004647 Substrate-binding site [chemical binding]; other site 557433004648 Substrate specificity [chemical binding]; other site 557433004649 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433004650 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 557433004651 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 557433004652 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557433004653 active site 557433004654 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 557433004655 Uncharacterized conserved protein [Function unknown]; Region: COG2966 557433004656 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 557433004657 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 557433004658 DNA-binding site [nucleotide binding]; DNA binding site 557433004659 RNA-binding motif; other site 557433004660 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 557433004661 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 557433004662 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 557433004663 FeoA domain; Region: FeoA; pfam04023 557433004664 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557433004665 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557433004666 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 557433004667 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 557433004668 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 557433004669 Ligand Binding Site [chemical binding]; other site 557433004670 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557433004671 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557433004672 Walker A/P-loop; other site 557433004673 ATP binding site [chemical binding]; other site 557433004674 Q-loop/lid; other site 557433004675 ABC transporter signature motif; other site 557433004676 Walker B; other site 557433004677 D-loop; other site 557433004678 H-loop/switch region; other site 557433004679 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 557433004680 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 557433004681 substrate binding pocket [chemical binding]; other site 557433004682 membrane-bound complex binding site; other site 557433004683 hinge residues; other site 557433004684 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557433004685 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 557433004686 dimer interface [polypeptide binding]; other site 557433004687 conserved gate region; other site 557433004688 putative PBP binding loops; other site 557433004689 ABC-ATPase subunit interface; other site 557433004690 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 557433004691 dimer interface [polypeptide binding]; other site 557433004692 conserved gate region; other site 557433004693 putative PBP binding loops; other site 557433004694 ABC-ATPase subunit interface; other site 557433004695 CAAX protease self-immunity; Region: Abi; pfam02517 557433004696 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 557433004697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 557433004698 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 557433004699 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 557433004700 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 557433004701 DNA binding residues [nucleotide binding] 557433004702 putative dimer interface [polypeptide binding]; other site 557433004703 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 557433004704 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 557433004705 putative substrate translocation pore; other site 557433004706 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 557433004707 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557433004708 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557433004709 active site 557433004710 Predicted integral membrane protein [Function unknown]; Region: COG0392 557433004711 Uncharacterized conserved protein [Function unknown]; Region: COG2898 557433004712 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 557433004713 DJ-1 family protein; Region: not_thiJ; TIGR01383 557433004714 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 557433004715 conserved cys residue [active] 557433004716 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 557433004717 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 557433004718 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 557433004719 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433004720 putative substrate translocation pore; other site 557433004721 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 557433004722 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 557433004723 Fe-S cluster binding site [ion binding]; other site 557433004724 active site 557433004725 Uncharacterized conserved protein [Function unknown]; Region: COG2966 557433004726 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 557433004727 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 557433004728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433004729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433004730 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 557433004731 dimerization interface [polypeptide binding]; other site 557433004732 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 557433004733 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 557433004734 transmembrane helices; other site 557433004735 L-aspartate oxidase; Provisional; Region: PRK06175 557433004736 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 557433004737 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557433004738 Class II fumarases; Region: Fumarase_classII; cd01362 557433004739 active site 557433004740 tetramer interface [polypeptide binding]; other site 557433004741 malate dehydrogenase; Provisional; Region: PRK13529 557433004742 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557433004743 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 557433004744 NAD(P) binding site [chemical binding]; other site 557433004745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433004746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433004747 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 557433004748 dimerization interface [polypeptide binding]; other site 557433004749 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 557433004750 active site 557433004751 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 557433004752 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 557433004753 putative NAD(P) binding site [chemical binding]; other site 557433004754 putative substrate binding site [chemical binding]; other site 557433004755 catalytic Zn binding site [ion binding]; other site 557433004756 structural Zn binding site [ion binding]; other site 557433004757 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 557433004758 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 557433004759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 557433004760 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 557433004761 active site 557433004762 catalytic residues [active] 557433004763 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557433004764 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 557433004765 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557433004766 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 557433004767 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557433004768 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 557433004769 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 557433004770 active site 557433004771 homodimer interface [polypeptide binding]; other site 557433004772 catalytic site [active] 557433004773 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 557433004774 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433004775 putative substrate translocation pore; other site 557433004776 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 557433004777 hypothetical protein; Provisional; Region: PRK07205 557433004778 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 557433004779 active site 557433004780 metal binding site [ion binding]; metal-binding site 557433004781 Predicted membrane protein [Function unknown]; Region: COG1288 557433004782 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 557433004783 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 557433004784 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557433004785 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 557433004786 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557433004787 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557433004788 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 557433004789 dimer interface [polypeptide binding]; other site 557433004790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433004791 catalytic residue [active] 557433004792 Ferrochelatase; Region: Ferrochelatase; pfam00762 557433004793 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 557433004794 C-terminal domain interface [polypeptide binding]; other site 557433004795 active site 557433004796 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 557433004797 active site 557433004798 N-terminal domain interface [polypeptide binding]; other site 557433004799 manganese transport protein MntH; Reviewed; Region: PRK00701 557433004800 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 557433004801 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 557433004802 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 557433004803 TrkA-N domain; Region: TrkA_N; pfam02254 557433004804 TrkA-C domain; Region: TrkA_C; pfam02080 557433004805 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 557433004806 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557433004807 myosin-cross-reactive antigen; Provisional; Region: PRK13977 557433004808 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 557433004809 dimer interface [polypeptide binding]; other site 557433004810 FMN binding site [chemical binding]; other site 557433004811 NADPH bind site [chemical binding]; other site 557433004812 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 557433004813 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557433004814 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 557433004815 DXD motif; other site 557433004816 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 557433004817 PhoU domain; Region: PhoU; pfam01895 557433004818 PhoU domain; Region: PhoU; pfam01895 557433004819 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 557433004820 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 557433004821 Walker A/P-loop; other site 557433004822 ATP binding site [chemical binding]; other site 557433004823 Q-loop/lid; other site 557433004824 ABC transporter signature motif; other site 557433004825 Walker B; other site 557433004826 D-loop; other site 557433004827 H-loop/switch region; other site 557433004828 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 557433004829 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 557433004830 dimer interface [polypeptide binding]; other site 557433004831 conserved gate region; other site 557433004832 putative PBP binding loops; other site 557433004833 ABC-ATPase subunit interface; other site 557433004834 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 557433004835 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 557433004836 dimer interface [polypeptide binding]; other site 557433004837 conserved gate region; other site 557433004838 putative PBP binding loops; other site 557433004839 ABC-ATPase subunit interface; other site 557433004840 PBP superfamily domain; Region: PBP_like_2; cl17296 557433004841 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557433004842 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433004843 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 557433004844 DNA binding site [nucleotide binding] 557433004845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 557433004846 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433004847 Coenzyme A binding pocket [chemical binding]; other site 557433004848 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 557433004849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433004850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433004851 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 557433004852 dimerization interface [polypeptide binding]; other site 557433004853 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 557433004854 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 557433004855 catalytic Zn binding site [ion binding]; other site 557433004856 NAD binding site [chemical binding]; other site 557433004857 structural Zn binding site [ion binding]; other site 557433004858 Low molecular weight phosphatase family; Region: LMWPc; cl00105 557433004859 elongation factor P; Validated; Region: PRK00529 557433004860 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557433004861 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 557433004862 RNA binding site [nucleotide binding]; other site 557433004863 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 557433004864 RNA binding site [nucleotide binding]; other site 557433004865 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 557433004866 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 557433004867 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 557433004868 S-ribosylhomocysteinase; Provisional; Region: PRK02260 557433004869 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 557433004870 active site 557433004871 Predicted membrane protein [Function unknown]; Region: COG2364 557433004872 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 557433004873 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557433004874 catalytic Zn binding site [ion binding]; other site 557433004875 NAD(P) binding site [chemical binding]; other site 557433004876 structural Zn binding site [ion binding]; other site 557433004877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557433004878 Helix-turn-helix domain; Region: HTH_28; pfam13518 557433004879 putative transposase OrfB; Reviewed; Region: PHA02517 557433004880 HTH-like domain; Region: HTH_21; pfam13276 557433004881 Integrase core domain; Region: rve; pfam00665 557433004882 Integrase core domain; Region: rve_3; pfam13683 557433004883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 557433004884 Transposase; Region: DDE_Tnp_ISL3; pfam01610 557433004885 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557433004886 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 557433004887 Na binding site [ion binding]; other site 557433004888 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 557433004889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433004890 Coenzyme A binding pocket [chemical binding]; other site 557433004891 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433004892 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557433004893 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 557433004894 putative substrate translocation pore; other site 557433004895 Protein of unknown function (DUF436); Region: DUF436; pfam04260 557433004896 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557433004897 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557433004898 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 557433004899 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 557433004900 putative substrate translocation pore; other site 557433004901 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 557433004902 Int/Topo IB signature motif; other site 557433004903 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 557433004904 Phage associated DNA primase [General function prediction only]; Region: COG3378 557433004905 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 557433004906 homodimer interface [polypeptide binding]; other site 557433004907 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 557433004908 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 557433004909 active site 557433004910 homodimer interface [polypeptide binding]; other site 557433004911 catalytic site [active] 557433004912 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 557433004913 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433004914 putative substrate translocation pore; other site 557433004915 GMP synthase; Reviewed; Region: guaA; PRK00074 557433004916 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 557433004917 AMP/PPi binding site [chemical binding]; other site 557433004918 candidate oxyanion hole; other site 557433004919 catalytic triad [active] 557433004920 potential glutamine specificity residues [chemical binding]; other site 557433004921 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 557433004922 ATP Binding subdomain [chemical binding]; other site 557433004923 Ligand Binding sites [chemical binding]; other site 557433004924 Dimerization subdomain; other site 557433004925 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 557433004926 AAA domain; Region: AAA_14; pfam13173 557433004927 pantothenate kinase; Provisional; Region: PRK05439 557433004928 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 557433004929 ATP-binding site [chemical binding]; other site 557433004930 CoA-binding site [chemical binding]; other site 557433004931 Mg2+-binding site [ion binding]; other site 557433004932 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557433004933 Sulfatase; Region: Sulfatase; pfam00884 557433004934 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557433004935 EamA-like transporter family; Region: EamA; pfam00892 557433004936 EamA-like transporter family; Region: EamA; pfam00892 557433004937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557433004938 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557433004939 Probable transposase; Region: OrfB_IS605; pfam01385 557433004940 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557433004941 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433004942 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 557433004943 Part of AAA domain; Region: AAA_19; pfam13245 557433004944 Family description; Region: UvrD_C_2; pfam13538 557433004945 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 557433004946 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557433004947 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 557433004948 catalytic core [active] 557433004949 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 557433004950 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 557433004951 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 557433004952 HflX GTPase family; Region: HflX; cd01878 557433004953 G1 box; other site 557433004954 GTP/Mg2+ binding site [chemical binding]; other site 557433004955 Switch I region; other site 557433004956 G2 box; other site 557433004957 G3 box; other site 557433004958 Switch II region; other site 557433004959 G4 box; other site 557433004960 G5 box; other site 557433004961 Predicted membrane protein [Function unknown]; Region: COG2261 557433004962 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557433004963 D-lactate dehydrogenase; Validated; Region: PRK08605 557433004964 homodimer interface [polypeptide binding]; other site 557433004965 ligand binding site [chemical binding]; other site 557433004966 NAD binding site [chemical binding]; other site 557433004967 catalytic site [active] 557433004968 Predicted membrane protein [Function unknown]; Region: COG1511 557433004969 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 557433004970 Predicted membrane protein [Function unknown]; Region: COG1511 557433004971 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 557433004972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557433004973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557433004974 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557433004975 metal binding site 2 [ion binding]; metal-binding site 557433004976 putative DNA binding helix; other site 557433004977 metal binding site 1 [ion binding]; metal-binding site 557433004978 dimer interface [polypeptide binding]; other site 557433004979 structural Zn2+ binding site [ion binding]; other site 557433004980 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 557433004981 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557433004982 active site 557433004983 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 557433004984 active site 557433004985 Ap4A binding cleft/pocket [chemical binding]; other site 557433004986 P4 phosphate binding site; other site 557433004987 nudix motif; other site 557433004988 putative P2/P3 phosphate binding site [ion binding]; other site 557433004989 amino acid transporter; Region: 2A0306; TIGR00909 557433004990 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 557433004991 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 557433004992 putative substrate translocation pore; other site 557433004993 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 557433004994 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557433004995 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557433004996 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 557433004997 dimer interface [polypeptide binding]; other site 557433004998 conserved gate region; other site 557433004999 putative PBP binding loops; other site 557433005000 ABC-ATPase subunit interface; other site 557433005001 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557433005002 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 557433005003 dimer interface [polypeptide binding]; other site 557433005004 conserved gate region; other site 557433005005 putative PBP binding loops; other site 557433005006 ABC-ATPase subunit interface; other site 557433005007 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557433005008 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 557433005009 Walker A/P-loop; other site 557433005010 ATP binding site [chemical binding]; other site 557433005011 Q-loop/lid; other site 557433005012 ABC transporter signature motif; other site 557433005013 Walker B; other site 557433005014 D-loop; other site 557433005015 H-loop/switch region; other site 557433005016 TOBE domain; Region: TOBE_2; pfam08402 557433005017 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 557433005018 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; smart00940 557433005019 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 557433005020 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 557433005021 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 557433005022 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 557433005023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557433005024 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 557433005025 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 557433005026 motif II; other site 557433005027 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 557433005028 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 557433005029 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 557433005030 dimerization interface [polypeptide binding]; other site 557433005031 DPS ferroxidase diiron center [ion binding]; other site 557433005032 ion pore; other site 557433005033 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 557433005034 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 557433005035 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 557433005036 motif II; other site 557433005037 Integrase core domain; Region: rve; pfam00665 557433005038 Integrase core domain; Region: rve_3; cl15866 557433005039 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 557433005040 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557433005041 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 557433005042 active site 557433005043 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 557433005044 homotetramer interface [polypeptide binding]; other site 557433005045 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 557433005046 NAD binding site [chemical binding]; other site 557433005047 homodimer interface [polypeptide binding]; other site 557433005048 active site 557433005049 hypothetical protein; Provisional; Region: PRK10621 557433005050 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557433005051 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 557433005052 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557433005053 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557433005054 Walker A/P-loop; other site 557433005055 ATP binding site [chemical binding]; other site 557433005056 Q-loop/lid; other site 557433005057 ABC transporter signature motif; other site 557433005058 Walker B; other site 557433005059 D-loop; other site 557433005060 H-loop/switch region; other site 557433005061 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 557433005062 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557433005063 Walker A/P-loop; other site 557433005064 ATP binding site [chemical binding]; other site 557433005065 Q-loop/lid; other site 557433005066 ABC transporter signature motif; other site 557433005067 Walker B; other site 557433005068 D-loop; other site 557433005069 H-loop/switch region; other site 557433005070 Cobalt transport protein; Region: CbiQ; cl00463 557433005071 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557433005072 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 557433005073 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 557433005074 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557433005075 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557433005076 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 557433005077 non-specific DNA binding site [nucleotide binding]; other site 557433005078 salt bridge; other site 557433005079 sequence-specific DNA binding site [nucleotide binding]; other site 557433005080 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 557433005081 active site 557433005082 metal binding site [ion binding]; metal-binding site 557433005083 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 557433005084 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 557433005085 putative NAD(P) binding site [chemical binding]; other site 557433005086 substrate binding site [chemical binding]; other site 557433005087 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 557433005088 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 557433005089 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557433005090 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 557433005091 putative substrate translocation pore; other site 557433005092 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557433005093 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 557433005094 non-specific DNA binding site [nucleotide binding]; other site 557433005095 salt bridge; other site 557433005096 sequence-specific DNA binding site [nucleotide binding]; other site 557433005097 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557433005098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433005099 Walker A/P-loop; other site 557433005100 ATP binding site [chemical binding]; other site 557433005101 Q-loop/lid; other site 557433005102 ABC transporter signature motif; other site 557433005103 Walker B; other site 557433005104 D-loop; other site 557433005105 H-loop/switch region; other site 557433005106 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 557433005107 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 557433005108 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 557433005109 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 557433005110 Ligand Binding Site [chemical binding]; other site 557433005111 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 557433005112 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 557433005113 G1 box; other site 557433005114 putative GEF interaction site [polypeptide binding]; other site 557433005115 GTP/Mg2+ binding site [chemical binding]; other site 557433005116 Switch I region; other site 557433005117 G2 box; other site 557433005118 G3 box; other site 557433005119 Switch II region; other site 557433005120 G4 box; other site 557433005121 G5 box; other site 557433005122 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 557433005123 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 557433005124 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 557433005125 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557433005126 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557433005127 nucleotide binding site [chemical binding]; other site 557433005128 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 557433005129 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433005130 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 557433005131 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 557433005132 Probable transposase; Region: OrfB_IS605; pfam01385 557433005133 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 557433005134 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 557433005135 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 557433005136 nucleophilic elbow; other site 557433005137 catalytic triad; other site 557433005138 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557433005139 amino acid transporter; Region: 2A0306; TIGR00909 557433005140 Spore germination protein; Region: Spore_permease; cl17796 557433005141 putative phosphoketolase; Provisional; Region: PRK05261 557433005142 XFP N-terminal domain; Region: XFP_N; pfam09364 557433005143 XFP C-terminal domain; Region: XFP_C; pfam09363 557433005144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557433005145 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 557433005146 DNA-binding site [nucleotide binding]; DNA binding site 557433005147 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 557433005148 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 557433005149 putative deacylase active site [active] 557433005150 Peptidase family C69; Region: Peptidase_C69; pfam03577 557433005151 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557433005152 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557433005153 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 557433005154 Walker A/P-loop; other site 557433005155 ATP binding site [chemical binding]; other site 557433005156 Q-loop/lid; other site 557433005157 ABC transporter signature motif; other site 557433005158 Walker B; other site 557433005159 D-loop; other site 557433005160 H-loop/switch region; other site 557433005161 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 557433005162 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557433005163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433005164 Walker A/P-loop; other site 557433005165 ATP binding site [chemical binding]; other site 557433005166 Q-loop/lid; other site 557433005167 ABC transporter signature motif; other site 557433005168 Walker B; other site 557433005169 D-loop; other site 557433005170 H-loop/switch region; other site 557433005171 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 557433005172 D-lactate dehydrogenase; Validated; Region: PRK08605 557433005173 homodimer interface [polypeptide binding]; other site 557433005174 ligand binding site [chemical binding]; other site 557433005175 NAD binding site [chemical binding]; other site 557433005176 catalytic site [active] 557433005177 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557433005178 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 557433005179 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 557433005180 active site pocket [active] 557433005181 putative dimer interface [polypeptide binding]; other site 557433005182 putative cataytic base [active] 557433005183 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 557433005184 active site 557433005185 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 557433005186 catalytic core [active] 557433005187 Cobalamin-5-phosphate synthase [Coenzyme metabolism]; Region: CobS; COG0368 557433005188 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 557433005189 homotrimer interface [polypeptide binding]; other site 557433005190 Walker A motif; other site 557433005191 GTP binding site [chemical binding]; other site 557433005192 Walker B motif; other site 557433005193 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 557433005194 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 557433005195 inhibitor-cofactor binding pocket; inhibition site 557433005196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433005197 catalytic residue [active] 557433005198 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 557433005199 dimer interface [polypeptide binding]; other site 557433005200 active site 557433005201 Schiff base residues; other site 557433005202 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 557433005203 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 557433005204 domain interfaces; other site 557433005205 active site 557433005206 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 557433005207 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 557433005208 tRNA; other site 557433005209 putative tRNA binding site [nucleotide binding]; other site 557433005210 putative NADP binding site [chemical binding]; other site 557433005211 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 557433005212 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 557433005213 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 557433005214 cobyric acid synthase; Provisional; Region: PRK00784 557433005215 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 557433005216 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 557433005217 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 557433005218 catalytic triad [active] 557433005219 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 557433005220 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557433005221 Walker A/P-loop; other site 557433005222 ATP binding site [chemical binding]; other site 557433005223 Q-loop/lid; other site 557433005224 ABC transporter signature motif; other site 557433005225 Walker B; other site 557433005226 D-loop; other site 557433005227 H-loop/switch region; other site 557433005228 Cobalt transport protein; Region: CbiQ; cl00463 557433005229 cobalt transport protein CbiN; Provisional; Region: PRK02898 557433005230 cobalt transport protein CbiM; Validated; Region: PRK08319 557433005231 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 557433005232 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 557433005233 active site 557433005234 SAM binding site [chemical binding]; other site 557433005235 homodimer interface [polypeptide binding]; other site 557433005236 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 557433005237 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 557433005238 active site 557433005239 C-terminal domain interface [polypeptide binding]; other site 557433005240 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 557433005241 active site 557433005242 N-terminal domain interface [polypeptide binding]; other site 557433005243 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 557433005244 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 557433005245 active site 557433005246 SAM binding site [chemical binding]; other site 557433005247 homodimer interface [polypeptide binding]; other site 557433005248 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 557433005249 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 557433005250 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 557433005251 active site 557433005252 SAM binding site [chemical binding]; other site 557433005253 homodimer interface [polypeptide binding]; other site 557433005254 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 557433005255 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 557433005256 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 557433005257 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 557433005258 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 557433005259 active site 557433005260 SAM binding site [chemical binding]; other site 557433005261 homodimer interface [polypeptide binding]; other site 557433005262 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 557433005263 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 557433005264 S-adenosylmethionine binding site [chemical binding]; other site 557433005265 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 557433005266 active site 557433005267 putative homodimer interface [polypeptide binding]; other site 557433005268 SAM binding site [chemical binding]; other site 557433005269 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 557433005270 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 557433005271 Precorrin-8X methylmutase; Region: CbiC; pfam02570 557433005272 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 557433005273 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 557433005274 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557433005275 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 557433005276 catalytic triad [active] 557433005277 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 557433005278 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 557433005279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433005280 homodimer interface [polypeptide binding]; other site 557433005281 catalytic residue [active] 557433005282 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557433005283 Integrase core domain; Region: rve; pfam00665 557433005284 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 557433005285 Predicted flavoprotein [General function prediction only]; Region: COG0431 557433005286 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557433005287 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 557433005288 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557433005289 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 557433005290 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 557433005291 G1 box; other site 557433005292 GTP/Mg2+ binding site [chemical binding]; other site 557433005293 G2 box; other site 557433005294 Switch I region; other site 557433005295 G3 box; other site 557433005296 Switch II region; other site 557433005297 G4 box; other site 557433005298 G5 box; other site 557433005299 Cadmium resistance transporter; Region: Cad; pfam03596 557433005300 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 557433005301 catalytic core [active] 557433005302 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 557433005303 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 557433005304 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 557433005305 putative hexamer interface [polypeptide binding]; other site 557433005306 putative hexagonal pore; other site 557433005307 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 557433005308 propionate/acetate kinase; Provisional; Region: PRK12379 557433005309 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 557433005310 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 557433005311 putative active site [active] 557433005312 metal binding site [ion binding]; metal-binding site 557433005313 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 557433005314 putative catalytic cysteine [active] 557433005315 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 557433005316 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 557433005317 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 557433005318 Hexamer/Pentamer interface [polypeptide binding]; other site 557433005319 central pore; other site 557433005320 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 557433005321 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 557433005322 Propanediol utilisation protein PduL; Region: PduL; pfam06130 557433005323 Propanediol utilisation protein PduL; Region: PduL; pfam06130 557433005324 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 557433005325 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 557433005326 Hexamer interface [polypeptide binding]; other site 557433005327 Hexagonal pore residue; other site 557433005328 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 557433005329 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 557433005330 putative hexamer interface [polypeptide binding]; other site 557433005331 putative hexagonal pore; other site 557433005332 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 557433005333 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 557433005334 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 557433005335 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 557433005336 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 557433005337 propanediol dehydratase large subunit; Provisional; Region: pduC; PRK15444 557433005338 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 557433005339 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 557433005340 alpha-beta subunit interface [polypeptide binding]; other site 557433005341 alpha-gamma subunit interface [polypeptide binding]; other site 557433005342 active site 557433005343 substrate and K+ binding site; other site 557433005344 K+ binding site [ion binding]; other site 557433005345 cobalamin binding site [chemical binding]; other site 557433005346 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 557433005347 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 557433005348 Hexamer interface [polypeptide binding]; other site 557433005349 Hexagonal pore residue; other site 557433005350 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 557433005351 putative hexamer interface [polypeptide binding]; other site 557433005352 putative hexagonal pore; other site 557433005353 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 557433005354 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 557433005355 Hexamer interface [polypeptide binding]; other site 557433005356 Hexagonal pore residue; other site 557433005357 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 557433005358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 557433005359 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 557433005360 Cell division protein FtsA; Region: FtsA; cl17206 557433005361 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557433005362 nucleotide binding site [chemical binding]; other site 557433005363 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 557433005364 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 557433005365 amphipathic channel; other site 557433005366 Asn-Pro-Ala signature motifs; other site 557433005367 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 557433005368 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 557433005369 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557433005370 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557433005371 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 557433005372 B3/4 domain; Region: B3_4; pfam03483 557433005373 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557433005374 MarR family; Region: MarR; pfam01047 557433005375 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 557433005376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557433005377 active site 557433005378 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557433005379 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433005380 Walker A/P-loop; other site 557433005381 ATP binding site [chemical binding]; other site 557433005382 Q-loop/lid; other site 557433005383 ABC transporter signature motif; other site 557433005384 Walker B; other site 557433005385 D-loop; other site 557433005386 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 557433005387 Domain of unknown function DUF21; Region: DUF21; pfam01595 557433005388 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 557433005389 Transporter associated domain; Region: CorC_HlyC; smart01091 557433005390 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 557433005391 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 557433005392 dimer interface [polypeptide binding]; other site 557433005393 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 557433005394 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 557433005395 putative substrate translocation pore; other site 557433005396 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 557433005397 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 557433005398 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 557433005399 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557433005400 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 557433005401 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 557433005402 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 557433005403 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 557433005404 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 557433005405 HPr interaction site; other site 557433005406 glycerol kinase (GK) interaction site [polypeptide binding]; other site 557433005407 active site 557433005408 phosphorylation site [posttranslational modification] 557433005409 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 557433005410 Ligand Binding Site [chemical binding]; other site 557433005411 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 557433005412 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 557433005413 putative DNA binding site [nucleotide binding]; other site 557433005414 putative Zn2+ binding site [ion binding]; other site 557433005415 AsnC family; Region: AsnC_trans_reg; pfam01037 557433005416 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557433005417 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 557433005418 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557433005419 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557433005420 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433005421 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433005422 DNA binding site [nucleotide binding] 557433005423 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 557433005424 putative ligand binding site [chemical binding]; other site 557433005425 putative dimerization interface [polypeptide binding]; other site 557433005426 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 557433005427 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 557433005428 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 557433005429 galactokinase; Provisional; Region: PRK05322 557433005430 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 557433005431 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557433005432 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 557433005433 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 557433005434 active site 557433005435 catalytic triad [active] 557433005436 oxyanion hole [active] 557433005437 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 557433005438 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 557433005439 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 557433005440 substrate binding site [chemical binding]; other site 557433005441 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557433005442 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557433005443 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557433005444 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 557433005445 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 557433005446 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433005447 active site 557433005448 catalytic tetrad [active] 557433005449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 557433005450 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 557433005451 active site 557433005452 phosphorylation site [posttranslational modification] 557433005453 intermolecular recognition site; other site 557433005454 dimerization interface [polypeptide binding]; other site 557433005455 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 557433005456 DNA binding site [nucleotide binding] 557433005457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 557433005458 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 557433005459 ATP binding site [chemical binding]; other site 557433005460 Mg2+ binding site [ion binding]; other site 557433005461 G-X-G motif; other site 557433005462 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557433005463 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557433005464 Walker A/P-loop; other site 557433005465 ATP binding site [chemical binding]; other site 557433005466 Q-loop/lid; other site 557433005467 ABC transporter signature motif; other site 557433005468 Walker B; other site 557433005469 D-loop; other site 557433005470 H-loop/switch region; other site 557433005471 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 557433005472 FtsX-like permease family; Region: FtsX; pfam02687 557433005473 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 557433005474 proposed active site lysine [active] 557433005475 conserved cys residue [active] 557433005476 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557433005477 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 557433005478 dimer interface [polypeptide binding]; other site 557433005479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433005480 catalytic residue [active] 557433005481 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 557433005482 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 557433005483 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 557433005484 putative active site [active] 557433005485 catalytic site [active] 557433005486 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 557433005487 putative active site [active] 557433005488 catalytic site [active] 557433005489 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 557433005490 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 557433005491 putative substrate translocation pore; other site 557433005492 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 557433005493 putative ADP-ribose binding site [chemical binding]; other site 557433005494 putative active site [active] 557433005495 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557433005496 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 557433005497 non-specific DNA binding site [nucleotide binding]; other site 557433005498 salt bridge; other site 557433005499 sequence-specific DNA binding site [nucleotide binding]; other site 557433005500 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 557433005501 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 557433005502 active site 557433005503 Zn binding site [ion binding]; other site 557433005504 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 557433005505 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 557433005506 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 557433005507 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 557433005508 Walker A motif; other site 557433005509 ATP binding site [chemical binding]; other site 557433005510 Walker B motif; other site 557433005511 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 557433005512 active site 557433005513 DNA binding site [nucleotide binding] 557433005514 Uncharacterized conserved protein [Function unknown]; Region: COG3189 557433005515 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 557433005516 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557433005517 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 557433005518 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 557433005519 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 557433005520 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 557433005521 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 557433005522 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557433005523 Predicted membrane protein [Function unknown]; Region: COG4905 557433005524 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 557433005525 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 557433005526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433005527 Walker A/P-loop; other site 557433005528 ATP binding site [chemical binding]; other site 557433005529 Q-loop/lid; other site 557433005530 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557433005531 ABC transporter signature motif; other site 557433005532 Walker B; other site 557433005533 D-loop; other site 557433005534 ABC transporter; Region: ABC_tran_2; pfam12848 557433005535 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557433005536 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 557433005537 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433005538 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 557433005539 NlpC/P60 family; Region: NLPC_P60; pfam00877 557433005540 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 557433005541 zinc binding site [ion binding]; other site 557433005542 putative ligand binding site [chemical binding]; other site 557433005543 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 557433005544 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557433005545 TM-ABC transporter signature motif; other site 557433005546 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 557433005547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557433005548 Walker A/P-loop; other site 557433005549 ATP binding site [chemical binding]; other site 557433005550 Q-loop/lid; other site 557433005551 ABC transporter signature motif; other site 557433005552 Walker B; other site 557433005553 D-loop; other site 557433005554 H-loop/switch region; other site 557433005555 Cadmium resistance transporter; Region: Cad; pfam03596 557433005556 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 557433005557 dimerization interface [polypeptide binding]; other site 557433005558 putative DNA binding site [nucleotide binding]; other site 557433005559 putative Zn2+ binding site [ion binding]; other site 557433005560 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 557433005561 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 557433005562 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 557433005563 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557433005564 catalytic residues [active] 557433005565 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 557433005566 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557433005567 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557433005568 active site 557433005569 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 557433005570 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 557433005571 Cl binding site [ion binding]; other site 557433005572 oligomer interface [polypeptide binding]; other site 557433005573 Peptidase family C69; Region: Peptidase_C69; pfam03577 557433005574 xanthine permease; Region: pbuX; TIGR03173 557433005575 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 557433005576 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557433005577 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 557433005578 dimer interface [polypeptide binding]; other site 557433005579 motif 1; other site 557433005580 active site 557433005581 motif 2; other site 557433005582 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 557433005583 anticodon binding site; other site 557433005584 Histidine carboxylase PI chain; Region: HDC; cl03540 557433005585 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 557433005586 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 557433005587 Predicted membrane protein [Function unknown]; Region: COG1288 557433005588 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 557433005589 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 557433005590 catalytic core [active] 557433005591 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 557433005592 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557433005593 Sulfatase; Region: Sulfatase; pfam00884 557433005594 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 557433005595 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 557433005596 dimer interface [polypeptide binding]; other site 557433005597 active site 557433005598 metal binding site [ion binding]; metal-binding site 557433005599 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557433005600 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557433005601 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 557433005602 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 557433005603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 557433005604 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557433005605 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 557433005606 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557433005607 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557433005608 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 557433005609 dimer interface [polypeptide binding]; other site 557433005610 motif 1; other site 557433005611 active site 557433005612 motif 2; other site 557433005613 motif 3; other site 557433005614 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 557433005615 anticodon binding site; other site 557433005616 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 557433005617 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433005618 putative substrate translocation pore; other site 557433005619 Uncharacterized conserved protein [Function unknown]; Region: COG4095 557433005620 Transcriptional regulators [Transcription]; Region: PurR; COG1609 557433005621 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557433005622 DNA binding site [nucleotide binding] 557433005623 domain linker motif; other site 557433005624 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 557433005625 dimerization interface [polypeptide binding]; other site 557433005626 ligand binding site [chemical binding]; other site 557433005627 sodium binding site [ion binding]; other site 557433005628 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 557433005629 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 557433005630 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433005631 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433005632 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557433005633 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433005634 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557433005635 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557433005636 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557433005637 Walker A/P-loop; other site 557433005638 ATP binding site [chemical binding]; other site 557433005639 Q-loop/lid; other site 557433005640 ABC transporter signature motif; other site 557433005641 Walker B; other site 557433005642 D-loop; other site 557433005643 H-loop/switch region; other site 557433005644 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557433005645 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 557433005646 FtsX-like permease family; Region: FtsX; pfam02687 557433005647 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557433005648 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 557433005649 Walker A/P-loop; other site 557433005650 ATP binding site [chemical binding]; other site 557433005651 Q-loop/lid; other site 557433005652 ABC transporter signature motif; other site 557433005653 Walker B; other site 557433005654 D-loop; other site 557433005655 H-loop/switch region; other site 557433005656 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557433005657 FtsX-like permease family; Region: FtsX; pfam02687 557433005658 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557433005659 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557433005660 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 557433005661 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 557433005662 putative NAD(P) binding site [chemical binding]; other site 557433005663 catalytic Zn binding site [ion binding]; other site 557433005664 manganese transport protein MntH; Reviewed; Region: PRK00701 557433005665 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 557433005666 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 557433005667 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 557433005668 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 557433005669 active site 557433005670 dimer interface [polypeptide binding]; other site 557433005671 motif 1; other site 557433005672 motif 2; other site 557433005673 motif 3; other site 557433005674 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 557433005675 anticodon binding site; other site 557433005676 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 557433005677 putative substrate translocation pore; other site 557433005678 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 557433005679 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 557433005680 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 557433005681 amino acid transporter; Region: 2A0306; TIGR00909 557433005682 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 557433005683 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557433005684 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 557433005685 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 557433005686 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 557433005687 substrate binding site [chemical binding]; other site 557433005688 THF binding site; other site 557433005689 zinc-binding site [ion binding]; other site 557433005690 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557433005691 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557433005692 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 557433005693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433005694 Coenzyme A binding pocket [chemical binding]; other site 557433005695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557433005696 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557433005697 NAD(P) binding site [chemical binding]; other site 557433005698 active site 557433005699 Predicted transcriptional regulators [Transcription]; Region: COG1733 557433005700 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557433005701 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 557433005702 dimer interface [polypeptide binding]; other site 557433005703 FMN binding site [chemical binding]; other site 557433005704 Predicted transcriptional regulators [Transcription]; Region: COG1733 557433005705 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 557433005706 dimerization interface [polypeptide binding]; other site 557433005707 putative DNA binding site [nucleotide binding]; other site 557433005708 putative Zn2+ binding site [ion binding]; other site 557433005709 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 557433005710 putative substrate translocation pore; other site 557433005711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557433005712 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 557433005713 trimer interface [polypeptide binding]; other site 557433005714 active site 557433005715 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 557433005716 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557433005717 NAD(P) binding site [chemical binding]; other site 557433005718 putative active site [active] 557433005719 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 557433005720 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 557433005721 Zn binding site [ion binding]; other site 557433005722 hypothetical protein; Provisional; Region: PRK09609 557433005723 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 557433005724 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 557433005725 dimer interface [polypeptide binding]; other site 557433005726 active site 557433005727 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 557433005728 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 557433005729 putative dimer interface [polypeptide binding]; other site 557433005730 putative anticodon binding site; other site 557433005731 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 557433005732 homodimer interface [polypeptide binding]; other site 557433005733 motif 1; other site 557433005734 motif 2; other site 557433005735 active site 557433005736 motif 3; other site 557433005737 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 557433005738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 557433005739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 557433005740 metal binding site [ion binding]; metal-binding site 557433005741 active site 557433005742 I-site; other site 557433005743 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 557433005744 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 557433005745 DXD motif; other site 557433005746 EAL domain; Region: EAL; pfam00563 557433005747 Transposase IS200 like; Region: Y1_Tnp; pfam01797 557433005748 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 557433005749 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 557433005750 catalytic triad [active] 557433005751 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 557433005752 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 557433005753 NADH(P)-binding; Region: NAD_binding_10; pfam13460 557433005754 NAD binding site [chemical binding]; other site 557433005755 substrate binding site [chemical binding]; other site 557433005756 putative active site [active] 557433005757 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 557433005758 Protein of unknown function (DUF3533); Region: DUF3533; pfam12051 557433005759 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 557433005760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557433005761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557433005762 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 557433005763 active site 557433005764 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433005765 catalytic tetrad [active] 557433005766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433005767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433005768 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 557433005769 active site 557433005770 homodimer interface [polypeptide binding]; other site 557433005771 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 557433005772 Predicted secreted protein [Function unknown]; Region: COG4086 557433005773 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 557433005774 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 557433005775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433005776 homodimer interface [polypeptide binding]; other site 557433005777 catalytic residue [active] 557433005778 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 557433005779 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557433005780 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 557433005781 NAD binding site [chemical binding]; other site 557433005782 dimer interface [polypeptide binding]; other site 557433005783 substrate binding site [chemical binding]; other site 557433005784 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 557433005785 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 557433005786 maltose O-acetyltransferase; Provisional; Region: PRK10092 557433005787 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 557433005788 putative trimer interface [polypeptide binding]; other site 557433005789 putative CoA binding site [chemical binding]; other site 557433005790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557433005791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557433005792 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 557433005793 dimerization interface [polypeptide binding]; other site 557433005794 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557433005795 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 557433005796 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 557433005797 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 557433005798 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 557433005799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433005800 homodimer interface [polypeptide binding]; other site 557433005801 catalytic residue [active] 557433005802 Predicted permeases [General function prediction only]; Region: COG0679 557433005803 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 557433005804 RibD C-terminal domain; Region: RibD_C; cl17279 557433005805 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557433005806 Integrase core domain; Region: rve; pfam00665 557433005807 RibD C-terminal domain; Region: RibD_C; cl17279 557433005808 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 557433005809 putative deacylase active site [active] 557433005810 Uncharacterized conserved protein [Function unknown]; Region: COG1359 557433005811 Beta-lactamase; Region: Beta-lactamase; pfam00144 557433005812 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 557433005813 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557433005814 active site 557433005815 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 557433005816 MgtC family; Region: MgtC; pfam02308 557433005817 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 557433005818 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 557433005819 AzlC protein; Region: AzlC; cl00570 557433005820 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 557433005821 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557433005822 DNA-binding site [nucleotide binding]; DNA binding site 557433005823 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 557433005824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557433005825 homodimer interface [polypeptide binding]; other site 557433005826 catalytic residue [active] 557433005827 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 557433005828 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 557433005829 active site 557433005830 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 557433005831 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 557433005832 active site 557433005833 catalytic tetrad [active] 557433005834 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557433005835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557433005836 Coenzyme A binding pocket [chemical binding]; other site 557433005837 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 557433005838 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 557433005839 Catalytic site [active] 557433005840 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 557433005841 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 557433005842 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 557433005843 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 557433005844 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557433005845 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557433005846 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557433005847 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 557433005848 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 557433005849 active site 557433005850 dimer interface [polypeptide binding]; other site 557433005851 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 557433005852 Ligand Binding Site [chemical binding]; other site 557433005853 Molecular Tunnel; other site 557433005854 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 557433005855 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 557433005856 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 557433005857 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 557433005858 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 557433005859 trmE is a tRNA modification GTPase; Region: trmE; cd04164 557433005860 G1 box; other site 557433005861 GTP/Mg2+ binding site [chemical binding]; other site 557433005862 Switch I region; other site 557433005863 G2 box; other site 557433005864 Switch II region; other site 557433005865 G3 box; other site 557433005866 G4 box; other site 557433005867 G5 box; other site 557433005868 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 557433005869 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 557433005870 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 557433005871 G-X-X-G motif; other site 557433005872 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 557433005873 RxxxH motif; other site 557433005874 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 557433005875 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 557433005876 ribonuclease P; Reviewed; Region: rnpA; PRK00499 557433005877 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399