-- dump date 20140619_065521 -- class Genbank::misc_feature -- table misc_feature_note -- id note 561229000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 561229000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 561229000003 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 561229000004 Walker A motif; other site 561229000005 ATP binding site [chemical binding]; other site 561229000006 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 561229000007 Walker B motif; other site 561229000008 arginine finger; other site 561229000009 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 561229000010 DnaA box-binding interface [nucleotide binding]; other site 561229000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 561229000012 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 561229000013 putative DNA binding surface [nucleotide binding]; other site 561229000014 dimer interface [polypeptide binding]; other site 561229000015 beta-clamp/clamp loader binding surface; other site 561229000016 beta-clamp/translesion DNA polymerase binding surface; other site 561229000017 recombination protein F; Reviewed; Region: recF; PRK00064 561229000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229000019 Walker A/P-loop; other site 561229000020 ATP binding site [chemical binding]; other site 561229000021 Q-loop/lid; other site 561229000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229000023 ABC transporter signature motif; other site 561229000024 Walker B; other site 561229000025 D-loop; other site 561229000026 H-loop/switch region; other site 561229000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 561229000028 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 561229000029 Mg2+ binding site [ion binding]; other site 561229000030 G-X-G motif; other site 561229000031 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 561229000032 anchoring element; other site 561229000033 dimer interface [polypeptide binding]; other site 561229000034 ATP binding site [chemical binding]; other site 561229000035 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 561229000036 active site 561229000037 putative metal-binding site [ion binding]; other site 561229000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 561229000039 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 561229000040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229000041 putative substrate translocation pore; other site 561229000042 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 561229000043 S-adenosylmethionine binding site [chemical binding]; other site 561229000044 oligopeptidase A; Provisional; Region: PRK10911 561229000045 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 561229000046 active site 561229000047 Zn binding site [ion binding]; other site 561229000048 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 561229000049 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 561229000050 ribonuclease Z; Region: RNase_Z; TIGR02651 561229000051 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 561229000052 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 561229000053 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 561229000054 Walker A motif; other site 561229000055 ATP binding site [chemical binding]; other site 561229000056 Walker B motif; other site 561229000057 arginine finger; other site 561229000058 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 561229000059 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 561229000060 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 561229000061 hypothetical protein; Reviewed; Region: PRK09588 561229000062 glutathione reductase; Validated; Region: PRK06116 561229000063 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229000064 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229000065 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561229000066 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 561229000067 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 561229000068 active site 561229000069 catalytic triad [active] 561229000070 oxyanion hole [active] 561229000071 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 561229000072 active site 561229000073 oxyanion hole [active] 561229000074 SGNH_peri1; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri1; cd01825 561229000075 active site 561229000076 catalytic triad [active] 561229000077 oxyanion hole [active] 561229000078 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 561229000079 Uncharacterized conserved protein [Function unknown]; Region: COG1284 561229000080 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 561229000081 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561229000082 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 561229000083 putative DNA binding site [nucleotide binding]; other site 561229000084 putative Zn2+ binding site [ion binding]; other site 561229000085 AsnC family; Region: AsnC_trans_reg; pfam01037 561229000086 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 561229000087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229000088 catalytic residue [active] 561229000089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229000090 Coenzyme A binding pocket [chemical binding]; other site 561229000091 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229000092 MarR family; Region: MarR_2; pfam12802 561229000093 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 561229000094 glucokinase, proteobacterial type; Region: glk; TIGR00749 561229000095 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229000096 nucleotide binding site [chemical binding]; other site 561229000097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229000098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229000099 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561229000100 putative effector binding pocket; other site 561229000101 putative dimerization interface [polypeptide binding]; other site 561229000102 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 561229000103 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561229000104 putative NAD(P) binding site [chemical binding]; other site 561229000105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 561229000106 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 561229000107 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 561229000108 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 561229000109 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 561229000110 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561229000111 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229000112 Walker A/P-loop; other site 561229000113 ATP binding site [chemical binding]; other site 561229000114 Q-loop/lid; other site 561229000115 ABC transporter signature motif; other site 561229000116 Walker B; other site 561229000117 D-loop; other site 561229000118 H-loop/switch region; other site 561229000119 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229000120 Walker A/P-loop; other site 561229000121 ATP binding site [chemical binding]; other site 561229000122 Q-loop/lid; other site 561229000123 ABC transporter signature motif; other site 561229000124 Walker B; other site 561229000125 D-loop; other site 561229000126 H-loop/switch region; other site 561229000127 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229000128 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561229000129 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 561229000130 putative PBP binding loops; other site 561229000131 dimer interface [polypeptide binding]; other site 561229000132 ABC-ATPase subunit interface; other site 561229000133 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229000134 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 561229000135 dimer interface [polypeptide binding]; other site 561229000136 conserved gate region; other site 561229000137 ABC-ATPase subunit interface; other site 561229000138 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229000139 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 561229000140 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561229000141 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 561229000142 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 561229000143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229000144 homodimer interface [polypeptide binding]; other site 561229000145 catalytic residue [active] 561229000146 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 561229000147 active site 561229000148 catalytic residues [active] 561229000149 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 561229000150 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 561229000151 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 561229000152 dimerization interface [polypeptide binding]; other site 561229000153 ligand binding site [chemical binding]; other site 561229000154 NADP binding site [chemical binding]; other site 561229000155 catalytic site [active] 561229000156 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561229000157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229000158 Coenzyme A binding pocket [chemical binding]; other site 561229000159 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 561229000160 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561229000161 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 561229000162 dimer interface [polypeptide binding]; other site 561229000163 motif 1; other site 561229000164 active site 561229000165 motif 2; other site 561229000166 motif 3; other site 561229000167 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 561229000168 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 561229000169 urea carboxylase; Region: urea_carbox; TIGR02712 561229000170 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561229000171 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561229000172 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561229000173 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561229000174 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561229000175 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 561229000176 carboxyltransferase (CT) interaction site; other site 561229000177 biotinylation site [posttranslational modification]; other site 561229000178 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 561229000179 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 561229000180 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 561229000181 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 561229000182 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 561229000183 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561229000184 Walker A/P-loop; other site 561229000185 ATP binding site [chemical binding]; other site 561229000186 Q-loop/lid; other site 561229000187 ABC transporter signature motif; other site 561229000188 Walker B; other site 561229000189 D-loop; other site 561229000190 H-loop/switch region; other site 561229000191 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229000192 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 561229000193 putative PBP binding loops; other site 561229000194 dimer interface [polypeptide binding]; other site 561229000195 ABC-ATPase subunit interface; other site 561229000196 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 561229000197 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 561229000198 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 561229000199 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 561229000200 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 561229000201 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 561229000202 active site 561229000203 P-loop; other site 561229000204 phosphorylation site [posttranslational modification] 561229000205 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561229000206 active site 561229000207 phosphorylation site [posttranslational modification] 561229000208 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 561229000209 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561229000210 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561229000211 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 561229000212 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 561229000213 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229000214 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 561229000215 dimerization interface [polypeptide binding]; other site 561229000216 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229000217 dimer interface [polypeptide binding]; other site 561229000218 putative CheW interface [polypeptide binding]; other site 561229000219 superoxide dismutase; Provisional; Region: PRK10925 561229000220 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 561229000221 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 561229000222 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 561229000223 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 561229000224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 561229000225 NAD(P) binding site [chemical binding]; other site 561229000226 catalytic residues [active] 561229000227 xylulokinase; Provisional; Region: PRK15027 561229000228 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 561229000229 N- and C-terminal domain interface [polypeptide binding]; other site 561229000230 active site 561229000231 MgATP binding site [chemical binding]; other site 561229000232 catalytic site [active] 561229000233 metal binding site [ion binding]; metal-binding site 561229000234 xylulose binding site [chemical binding]; other site 561229000235 homodimer interface [polypeptide binding]; other site 561229000236 xylose isomerase; Provisional; Region: PRK05474 561229000237 xylose isomerase; Region: xylose_isom_A; TIGR02630 561229000238 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 561229000239 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 561229000240 putative ligand binding site [chemical binding]; other site 561229000241 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 561229000242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229000243 Walker A/P-loop; other site 561229000244 ATP binding site [chemical binding]; other site 561229000245 Q-loop/lid; other site 561229000246 ABC transporter signature motif; other site 561229000247 Walker B; other site 561229000248 D-loop; other site 561229000249 H-loop/switch region; other site 561229000250 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229000251 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229000252 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229000253 TM-ABC transporter signature motif; other site 561229000254 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 561229000255 putative dimerization interface [polypeptide binding]; other site 561229000256 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229000257 putative ligand binding site [chemical binding]; other site 561229000258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229000259 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229000260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229000261 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 561229000262 DJ-1 family protein; Region: not_thiJ; TIGR01383 561229000263 conserved cys residue [active] 561229000264 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 561229000265 putative metal binding site [ion binding]; other site 561229000266 putative homodimer interface [polypeptide binding]; other site 561229000267 putative homotetramer interface [polypeptide binding]; other site 561229000268 putative homodimer-homodimer interface [polypeptide binding]; other site 561229000269 putative allosteric switch controlling residues; other site 561229000270 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 561229000271 argininosuccinate synthase; Validated; Region: PRK05370 561229000272 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229000273 MarR family; Region: MarR; pfam01047 561229000274 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561229000275 EamA-like transporter family; Region: EamA; pfam00892 561229000276 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 561229000277 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 561229000278 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 561229000279 motif II; other site 561229000280 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561229000281 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561229000282 acyl-activating enzyme (AAE) consensus motif; other site 561229000283 AMP binding site [chemical binding]; other site 561229000284 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 561229000285 NADPH bind site [chemical binding]; other site 561229000286 putative FMN binding site [chemical binding]; other site 561229000287 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229000288 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561229000289 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 561229000290 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 561229000291 active site 561229000292 Phosphopantetheine attachment site; Region: PP-binding; cl09936 561229000293 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 561229000294 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 561229000295 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561229000296 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229000297 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229000298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229000299 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561229000300 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561229000301 Walker A/P-loop; other site 561229000302 ATP binding site [chemical binding]; other site 561229000303 Q-loop/lid; other site 561229000304 ABC transporter signature motif; other site 561229000305 Walker B; other site 561229000306 D-loop; other site 561229000307 H-loop/switch region; other site 561229000308 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 561229000309 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229000310 FtsX-like permease family; Region: FtsX; pfam02687 561229000311 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229000312 FtsX-like permease family; Region: FtsX; pfam02687 561229000313 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 561229000314 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 561229000315 active site 561229000316 phosphorylation site [posttranslational modification] 561229000317 intermolecular recognition site; other site 561229000318 dimerization interface [polypeptide binding]; other site 561229000319 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 561229000320 Walker A motif; other site 561229000321 ATP binding site [chemical binding]; other site 561229000322 Walker B motif; other site 561229000323 arginine finger; other site 561229000324 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561229000325 PAS domain; Region: PAS; smart00091 561229000326 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 561229000327 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 561229000328 ATP binding site [chemical binding]; other site 561229000329 Mg2+ binding site [ion binding]; other site 561229000330 G-X-G motif; other site 561229000331 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 561229000332 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 561229000333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 561229000334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 561229000335 active site 561229000336 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; Region: ACP_syn_III_C; pfam08541 561229000337 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 561229000338 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 561229000339 active site 561229000340 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 561229000341 active site 561229000342 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 561229000343 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229000344 acyl-activating enzyme (AAE) consensus motif; other site 561229000345 AMP binding site [chemical binding]; other site 561229000346 active site 561229000347 CoA binding site [chemical binding]; other site 561229000348 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 561229000349 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229000350 acyl-activating enzyme (AAE) consensus motif; other site 561229000351 AMP binding site [chemical binding]; other site 561229000352 active site 561229000353 CoA binding site [chemical binding]; other site 561229000354 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 561229000355 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229000356 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229000357 acyl-activating enzyme (AAE) consensus motif; other site 561229000358 acyl-activating enzyme (AAE) consensus motif; other site 561229000359 AMP binding site [chemical binding]; other site 561229000360 active site 561229000361 CoA binding site [chemical binding]; other site 561229000362 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 561229000363 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 561229000364 dimer interface [polypeptide binding]; other site 561229000365 active site 561229000366 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561229000367 catalytic residues [active] 561229000368 substrate binding site [chemical binding]; other site 561229000369 Autoinducer binding domain; Region: Autoind_bind; pfam03472 561229000370 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 561229000371 DNA binding residues [nucleotide binding] 561229000372 dimerization interface [polypeptide binding]; other site 561229000373 Autoinducer synthetase; Region: Autoind_synth; pfam00765 561229000374 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561229000375 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 561229000376 triosephosphate isomerase; Provisional; Region: PRK14567 561229000377 substrate binding site [chemical binding]; other site 561229000378 dimer interface [polypeptide binding]; other site 561229000379 catalytic triad [active] 561229000380 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 561229000381 Predicted membrane protein [Function unknown]; Region: COG3152 561229000382 ferredoxin-NADP reductase; Provisional; Region: PRK10926 561229000383 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 561229000384 FAD binding pocket [chemical binding]; other site 561229000385 FAD binding motif [chemical binding]; other site 561229000386 phosphate binding motif [ion binding]; other site 561229000387 beta-alpha-beta structure motif; other site 561229000388 NAD binding pocket [chemical binding]; other site 561229000389 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 561229000390 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 561229000391 putative active site [active] 561229000392 glycerol kinase; Provisional; Region: glpK; PRK00047 561229000393 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 561229000394 N- and C-terminal domain interface [polypeptide binding]; other site 561229000395 active site 561229000396 MgATP binding site [chemical binding]; other site 561229000397 catalytic site [active] 561229000398 metal binding site [ion binding]; metal-binding site 561229000399 glycerol binding site [chemical binding]; other site 561229000400 homotetramer interface [polypeptide binding]; other site 561229000401 homodimer interface [polypeptide binding]; other site 561229000402 FBP binding site [chemical binding]; other site 561229000403 protein IIAGlc interface [polypeptide binding]; other site 561229000404 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 561229000405 amphipathic channel; other site 561229000406 Asn-Pro-Ala signature motifs; other site 561229000407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 561229000408 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 561229000409 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 561229000410 UbiA prenyltransferase family; Region: UbiA; pfam01040 561229000411 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 561229000412 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 561229000413 Walker A motif; other site 561229000414 ATP binding site [chemical binding]; other site 561229000415 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 561229000416 Walker B motif; other site 561229000417 arginine finger; other site 561229000418 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561229000419 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 561229000420 active site 561229000421 HslU subunit interaction site [polypeptide binding]; other site 561229000422 essential cell division protein FtsN; Provisional; Region: PRK10927 561229000423 cell division protein FtsN; Provisional; Region: PRK12757 561229000424 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229000425 DNA binding site [nucleotide binding] 561229000426 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 561229000427 domain linker motif; other site 561229000428 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 561229000429 dimerization interface [polypeptide binding]; other site 561229000430 ligand binding site [chemical binding]; other site 561229000431 primosome assembly protein PriA; Validated; Region: PRK05580 561229000432 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 561229000433 ATP binding site [chemical binding]; other site 561229000434 putative Mg++ binding site [ion binding]; other site 561229000435 helicase superfamily c-terminal domain; Region: HELICc; smart00490 561229000436 ATP-binding site [chemical binding]; other site 561229000437 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 561229000438 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 561229000439 dimerization interface [polypeptide binding]; other site 561229000440 DNA binding site [nucleotide binding] 561229000441 corepressor binding sites; other site 561229000442 cystathionine gamma-synthase; Provisional; Region: PRK08045 561229000443 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 561229000444 homodimer interface [polypeptide binding]; other site 561229000445 substrate-cofactor binding pocket; other site 561229000446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229000447 catalytic residue [active] 561229000448 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 561229000449 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 561229000450 putative catalytic residues [active] 561229000451 putative nucleotide binding site [chemical binding]; other site 561229000452 putative aspartate binding site [chemical binding]; other site 561229000453 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 561229000454 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 561229000455 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 561229000456 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561229000457 putative NAD(P) binding site [chemical binding]; other site 561229000458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229000459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229000460 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 561229000461 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 561229000462 FAD binding site [chemical binding]; other site 561229000463 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 561229000464 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 561229000465 catalytic triad [active] 561229000466 dimer interface [polypeptide binding]; other site 561229000467 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 561229000468 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 561229000469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229000470 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 561229000471 dimerization interface [polypeptide binding]; other site 561229000472 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 561229000473 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229000474 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561229000475 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 561229000476 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229000477 hypothetical protein; Provisional; Region: PRK11056 561229000478 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 561229000479 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 561229000480 S-adenosylmethionine binding site [chemical binding]; other site 561229000481 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 561229000482 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 561229000483 N-terminal plug; other site 561229000484 ligand-binding site [chemical binding]; other site 561229000485 glutamate racemase; Provisional; Region: PRK00865 561229000486 transcriptional regulator HdfR; Provisional; Region: PRK03601 561229000487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229000488 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 561229000489 dimerization interface [polypeptide binding]; other site 561229000490 hypothetical protein; Provisional; Region: PRK11027 561229000491 putative ATP-dependent protease; Provisional; Region: PRK09862 561229000492 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 561229000493 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 561229000494 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 561229000495 putative sialic acid transporter; Region: 2A0112; TIGR00891 561229000496 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 561229000497 putative substrate translocation pore; other site 561229000498 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 561229000499 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561229000500 PYR/PP interface [polypeptide binding]; other site 561229000501 dimer interface [polypeptide binding]; other site 561229000502 TPP binding site [chemical binding]; other site 561229000503 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561229000504 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 561229000505 TPP-binding site [chemical binding]; other site 561229000506 dimer interface [polypeptide binding]; other site 561229000507 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 561229000508 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561229000509 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 561229000510 homodimer interface [polypeptide binding]; other site 561229000511 substrate-cofactor binding pocket; other site 561229000512 catalytic residue [active] 561229000513 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 561229000514 threonine dehydratase; Reviewed; Region: PRK09224 561229000515 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 561229000516 tetramer interface [polypeptide binding]; other site 561229000517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229000518 catalytic residue [active] 561229000519 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 561229000520 putative Ile/Val binding site [chemical binding]; other site 561229000521 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 561229000522 putative Ile/Val binding site [chemical binding]; other site 561229000523 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 561229000524 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 561229000525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229000526 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 561229000527 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 561229000528 putative dimerization interface [polypeptide binding]; other site 561229000529 ketol-acid reductoisomerase; Validated; Region: PRK05225 561229000530 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 561229000531 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 561229000532 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 561229000533 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 561229000534 Na binding site [ion binding]; other site 561229000535 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 561229000536 Predicted transcriptional regulator [Transcription]; Region: COG3905 561229000537 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 561229000538 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 561229000539 Glutamate binding site [chemical binding]; other site 561229000540 NAD binding site [chemical binding]; other site 561229000541 catalytic residues [active] 561229000542 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 561229000543 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 561229000544 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 561229000545 Part of AAA domain; Region: AAA_19; pfam13245 561229000546 Family description; Region: UvrD_C_2; pfam13538 561229000547 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 561229000548 Interdomain contacts; other site 561229000549 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 561229000550 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 561229000551 Interdomain contacts; other site 561229000552 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 561229000553 polygalacturonase; Region: PLN03010 561229000554 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 561229000555 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 561229000556 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 561229000557 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 561229000558 ATP binding site [chemical binding]; other site 561229000559 Mg++ binding site [ion binding]; other site 561229000560 motif III; other site 561229000561 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 561229000562 nucleotide binding region [chemical binding]; other site 561229000563 ATP-binding site [chemical binding]; other site 561229000564 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 561229000565 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 561229000566 catalytic residues [active] 561229000567 transcription termination factor Rho; Provisional; Region: rho; PRK09376 561229000568 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 561229000569 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 561229000570 RNA binding site [nucleotide binding]; other site 561229000571 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 561229000572 multimer interface [polypeptide binding]; other site 561229000573 Walker A motif; other site 561229000574 ATP binding site [chemical binding]; other site 561229000575 Walker B motif; other site 561229000576 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 561229000577 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 561229000578 Mg++ binding site [ion binding]; other site 561229000579 putative catalytic motif [active] 561229000580 substrate binding site [chemical binding]; other site 561229000581 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 561229000582 Chain length determinant protein; Region: Wzz; pfam02706 561229000583 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 561229000584 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 561229000585 active site 561229000586 homodimer interface [polypeptide binding]; other site 561229000587 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 561229000588 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561229000589 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 561229000590 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 561229000591 Coenzyme A binding pocket [chemical binding]; other site 561229000592 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561229000593 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 561229000594 inhibitor-cofactor binding pocket; inhibition site 561229000595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229000596 catalytic residue [active] 561229000597 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 561229000598 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 561229000599 putative common antigen polymerase; Provisional; Region: PRK02975 561229000600 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 561229000601 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 561229000602 putative transport protein YifK; Provisional; Region: PRK10746 561229000603 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 561229000604 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 561229000605 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 561229000606 tetramer interface [polypeptide binding]; other site 561229000607 active site 561229000608 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229000609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229000610 Coenzyme A binding pocket [chemical binding]; other site 561229000611 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229000612 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 561229000613 substrate binding pocket [chemical binding]; other site 561229000614 membrane-bound complex binding site; other site 561229000615 hinge residues; other site 561229000616 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 561229000617 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229000618 dimer interface [polypeptide binding]; other site 561229000619 conserved gate region; other site 561229000620 putative PBP binding loops; other site 561229000621 ABC-ATPase subunit interface; other site 561229000622 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229000623 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229000624 Walker A/P-loop; other site 561229000625 ATP binding site [chemical binding]; other site 561229000626 Q-loop/lid; other site 561229000627 ABC transporter signature motif; other site 561229000628 Walker B; other site 561229000629 D-loop; other site 561229000630 H-loop/switch region; other site 561229000631 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 561229000632 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561229000633 metal binding site [ion binding]; metal-binding site 561229000634 dimer interface [polypeptide binding]; other site 561229000635 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 561229000636 HemY protein N-terminus; Region: HemY_N; pfam07219 561229000637 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 561229000638 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 561229000639 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 561229000640 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 561229000641 active site 561229000642 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 561229000643 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 561229000644 domain interfaces; other site 561229000645 active site 561229000646 adenylate cyclase; Provisional; Region: cyaA; PRK09450 561229000647 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 561229000648 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 561229000649 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 561229000650 putative iron binding site [ion binding]; other site 561229000651 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 561229000652 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 561229000653 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 561229000654 hypothetical protein; Provisional; Region: PRK10963 561229000655 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 561229000656 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 561229000657 active site 561229000658 DNA binding site [nucleotide binding] 561229000659 Int/Topo IB signature motif; other site 561229000660 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 561229000661 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 561229000662 motif II; other site 561229000663 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 561229000664 Part of AAA domain; Region: AAA_19; pfam13245 561229000665 Family description; Region: UvrD_C_2; pfam13538 561229000666 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 561229000667 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 561229000668 Cl binding site [ion binding]; other site 561229000669 oligomer interface [polypeptide binding]; other site 561229000670 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 561229000671 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 561229000672 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 561229000673 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 561229000674 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 561229000675 CoenzymeA binding site [chemical binding]; other site 561229000676 subunit interaction site [polypeptide binding]; other site 561229000677 PHB binding site; other site 561229000678 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 561229000679 dimerization interface [polypeptide binding]; other site 561229000680 substrate binding site [chemical binding]; other site 561229000681 active site 561229000682 calcium binding site [ion binding]; other site 561229000683 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 561229000684 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 561229000685 ATP binding site [chemical binding]; other site 561229000686 putative Mg++ binding site [ion binding]; other site 561229000687 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 561229000688 nucleotide binding region [chemical binding]; other site 561229000689 ATP-binding site [chemical binding]; other site 561229000690 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 561229000691 HRDC domain; Region: HRDC; pfam00570 561229000692 threonine efflux system; Provisional; Region: PRK10229 561229000693 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 561229000694 lysophospholipase L2; Provisional; Region: PRK10749 561229000695 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561229000696 putative hydrolase; Provisional; Region: PRK10976 561229000697 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 561229000698 active site 561229000699 motif I; other site 561229000700 motif II; other site 561229000701 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 561229000702 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 561229000703 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 561229000704 active site 561229000705 catalytic site [active] 561229000706 metal binding site [ion binding]; metal-binding site 561229000707 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 561229000708 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 561229000709 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 561229000710 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 561229000711 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561229000712 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561229000713 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 561229000714 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 561229000715 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 561229000716 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 561229000717 Cysteine-rich domain; Region: CCG; pfam02754 561229000718 Cysteine-rich domain; Region: CCG; pfam02754 561229000719 Pirin-related protein [General function prediction only]; Region: COG1741 561229000720 Pirin; Region: Pirin; pfam02678 561229000721 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229000722 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229000723 emp24/gp25L/p24 family/GOLD; Region: EMP24_GP25L; pfam01105 561229000724 Uncharacterized conserved protein [Function unknown]; Region: COG1262 561229000725 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 561229000726 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561229000727 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229000728 catalytic loop [active] 561229000729 iron binding site [ion binding]; other site 561229000730 Proline dehydrogenase; Region: Pro_dh; cl03282 561229000731 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 561229000732 active site 561229000733 iron coordination sites [ion binding]; other site 561229000734 substrate binding pocket [chemical binding]; other site 561229000735 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 561229000736 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 561229000737 substrate binding site [chemical binding]; other site 561229000738 oxyanion hole (OAH) forming residues; other site 561229000739 trimer interface [polypeptide binding]; other site 561229000740 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 561229000741 Domain of unknown function (DUF1933); Region: DUF1933; pfam09147 561229000742 active site 561229000743 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 561229000744 Ligand Binding Site [chemical binding]; other site 561229000745 Molecular Tunnel; other site 561229000746 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 561229000747 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229000748 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 561229000749 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 561229000750 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229000751 DNA binding site [nucleotide binding] 561229000752 domain linker motif; other site 561229000753 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 561229000754 putative ligand binding site [chemical binding]; other site 561229000755 putative dimerization interface [polypeptide binding]; other site 561229000756 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 561229000757 ATP-binding site [chemical binding]; other site 561229000758 Gluconate-6-phosphate binding site [chemical binding]; other site 561229000759 high-affinity gluconate transporter; Provisional; Region: PRK14984 561229000760 gluconate transporter; Region: gntP; TIGR00791 561229000761 putative antibiotic transporter; Provisional; Region: PRK10739 561229000762 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 561229000763 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561229000764 nickel responsive regulator; Provisional; Region: PRK02967 561229000765 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 561229000766 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 561229000767 DNA-binding site [nucleotide binding]; DNA binding site 561229000768 RNA-binding motif; other site 561229000769 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561229000770 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561229000771 GAF domain; Region: GAF; cl17456 561229000772 Histidine kinase; Region: His_kinase; pfam06580 561229000773 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 561229000774 ATP binding site [chemical binding]; other site 561229000775 Mg2+ binding site [ion binding]; other site 561229000776 G-X-G motif; other site 561229000777 glycogen branching enzyme; Provisional; Region: PRK05402 561229000778 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 561229000779 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 561229000780 active site 561229000781 catalytic site [active] 561229000782 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 561229000783 glycogen debranching enzyme; Provisional; Region: PRK03705 561229000784 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 561229000785 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 561229000786 active site 561229000787 catalytic site [active] 561229000788 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 561229000789 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 561229000790 ligand binding site; other site 561229000791 oligomer interface; other site 561229000792 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 561229000793 N-terminal domain interface [polypeptide binding]; other site 561229000794 sulfate 1 binding site; other site 561229000795 glycogen synthase; Provisional; Region: glgA; PRK00654 561229000796 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 561229000797 ADP-binding pocket [chemical binding]; other site 561229000798 homodimer interface [polypeptide binding]; other site 561229000799 glycogen phosphorylase; Provisional; Region: PRK14986 561229000800 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 561229000801 homodimer interface [polypeptide binding]; other site 561229000802 active site pocket [active] 561229000803 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 561229000804 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 561229000805 active site residue [active] 561229000806 intramembrane serine protease GlpG; Provisional; Region: PRK10907 561229000807 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 561229000808 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 561229000809 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 561229000810 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561229000811 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229000812 maltodextrin phosphorylase; Provisional; Region: PRK14985 561229000813 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 561229000814 active site pocket [active] 561229000815 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 561229000816 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 561229000817 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 561229000818 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 561229000819 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 561229000820 DNA utilization protein GntX; Provisional; Region: PRK11595 561229000821 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229000822 active site 561229000823 carboxylesterase BioH; Provisional; Region: PRK10349 561229000824 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561229000825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 561229000826 MULE transposase domain; Region: MULE; pfam10551 561229000827 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 561229000828 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 561229000829 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 561229000830 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 561229000831 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 561229000832 RNA binding site [nucleotide binding]; other site 561229000833 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 561229000834 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 561229000835 putative acyl-acceptor binding pocket; other site 561229000836 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 561229000837 Sulfatase; Region: Sulfatase; cl17466 561229000838 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 561229000839 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 561229000840 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561229000841 osmolarity response regulator; Provisional; Region: ompR; PRK09468 561229000842 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 561229000843 active site 561229000844 phosphorylation site [posttranslational modification] 561229000845 intermolecular recognition site; other site 561229000846 dimerization interface [polypeptide binding]; other site 561229000847 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 561229000848 DNA binding site [nucleotide binding] 561229000849 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 561229000850 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 561229000851 dimerization interface [polypeptide binding]; other site 561229000852 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 561229000853 dimer interface [polypeptide binding]; other site 561229000854 phosphorylation site [posttranslational modification] 561229000855 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 561229000856 ATP binding site [chemical binding]; other site 561229000857 G-X-G motif; other site 561229000858 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 561229000859 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_ATP; cd00484 561229000860 active site 561229000861 substrate-binding site [chemical binding]; other site 561229000862 metal-binding site [ion binding] 561229000863 ATP binding site [chemical binding]; other site 561229000864 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 561229000865 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 561229000866 dimerization interface [polypeptide binding]; other site 561229000867 domain crossover interface; other site 561229000868 redox-dependent activation switch; other site 561229000869 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 561229000870 RNA binding surface [nucleotide binding]; other site 561229000871 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 561229000872 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 561229000873 motif II; other site 561229000874 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 561229000875 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 561229000876 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 561229000877 ADP-ribose binding site [chemical binding]; other site 561229000878 dimer interface [polypeptide binding]; other site 561229000879 active site 561229000880 nudix motif; other site 561229000881 metal binding site [ion binding]; metal-binding site 561229000882 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 561229000883 Transglycosylase; Region: Transgly; pfam00912 561229000884 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 561229000885 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 561229000886 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 561229000887 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 561229000888 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 561229000889 Secretin and TonB N terminus short domain; Region: STN; smart00965 561229000890 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229000891 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561229000892 shikimate kinase; Reviewed; Region: aroK; PRK00131 561229000893 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 561229000894 ADP binding site [chemical binding]; other site 561229000895 magnesium binding site [ion binding]; other site 561229000896 putative shikimate binding site; other site 561229000897 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 561229000898 active site 561229000899 dimer interface [polypeptide binding]; other site 561229000900 metal binding site [ion binding]; metal-binding site 561229000901 hypothetical protein; Reviewed; Region: PRK11901 561229000902 cell division protein DamX; Validated; Region: PRK10905 561229000903 DNA adenine methylase; Provisional; Region: PRK10904 561229000904 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 561229000905 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 561229000906 substrate binding site [chemical binding]; other site 561229000907 hexamer interface [polypeptide binding]; other site 561229000908 metal binding site [ion binding]; metal-binding site 561229000909 phosphoglycolate phosphatase; Provisional; Region: PRK13222 561229000910 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561229000911 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 561229000912 motif II; other site 561229000913 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 561229000914 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 561229000915 active site 561229000916 HIGH motif; other site 561229000917 dimer interface [polypeptide binding]; other site 561229000918 KMSKS motif; other site 561229000919 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561229000920 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 561229000921 putative active site pocket [active] 561229000922 metal binding site [ion binding]; metal-binding site 561229000923 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 561229000924 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 561229000925 substrate binding site [chemical binding]; other site 561229000926 Pectate lyase; Region: Pec_lyase_C; cl01593 561229000927 Pectate lyase; Region: Pec_lyase_C; pfam00544 561229000928 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 561229000929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229000930 catalytic residue [active] 561229000931 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 561229000932 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 561229000933 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 561229000934 putative substrate translocation pore; other site 561229000935 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229000936 Predicted chitinase [General function prediction only]; Region: COG3179 561229000937 catalytic residue [active] 561229000938 cyanobactin maturation protease, PatA/PatG family; Region: protease_PatA; TIGR03895 561229000939 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 561229000940 active site 561229000941 catalytic residues [active] 561229000942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229000943 Helix-turn-helix domain; Region: HTH_18; pfam12833 561229000944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229000945 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 561229000946 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 561229000947 non-specific DNA binding site [nucleotide binding]; other site 561229000948 salt bridge; other site 561229000949 sequence-specific DNA binding site [nucleotide binding]; other site 561229000950 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 561229000951 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 561229000952 glutamine binding [chemical binding]; other site 561229000953 catalytic triad [active] 561229000954 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 561229000955 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 561229000956 inhibitor-cofactor binding pocket; inhibition site 561229000957 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229000958 catalytic residue [active] 561229000959 transcriptional repressor UlaR; Provisional; Region: PRK13509 561229000960 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561229000961 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229000962 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 561229000963 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 561229000964 AP (apurinic/apyrimidinic) site pocket; other site 561229000965 DNA interaction; other site 561229000966 Metal-binding active site; metal-binding site 561229000967 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 561229000968 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 561229000969 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 561229000970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 561229000971 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 561229000972 active site 561229000973 P-loop; other site 561229000974 phosphorylation site [posttranslational modification] 561229000975 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561229000976 active site 561229000977 phosphorylation site [posttranslational modification] 561229000978 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 561229000979 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 561229000980 intersubunit interface [polypeptide binding]; other site 561229000981 active site 561229000982 Zn2+ binding site [ion binding]; other site 561229000983 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 561229000984 active site 561229000985 dimer interface [polypeptide binding]; other site 561229000986 magnesium binding site [ion binding]; other site 561229000987 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 561229000988 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 561229000989 ligand binding site [chemical binding]; other site 561229000990 flexible hinge region; other site 561229000991 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 561229000992 putative switch regulator; other site 561229000993 non-specific DNA interactions [nucleotide binding]; other site 561229000994 DNA binding site [nucleotide binding] 561229000995 sequence specific DNA binding site [nucleotide binding]; other site 561229000996 putative cAMP binding site [chemical binding]; other site 561229000997 hypothetical protein; Provisional; Region: PRK10738 561229000998 phosphoribulokinase; Provisional; Region: PRK15453 561229000999 active site 561229001000 hypothetical protein; Provisional; Region: PRK04966 561229001001 putative hydrolase; Provisional; Region: PRK10985 561229001002 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561229001003 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 561229001004 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229001005 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229001006 ABC transporter; Region: ABC_tran_2; pfam12848 561229001007 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229001008 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 561229001009 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 561229001010 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 561229001011 TrkA-N domain; Region: TrkA_N; pfam02254 561229001012 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 561229001013 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 561229001014 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561229001015 ethanolamine permease; Region: 2A0305; TIGR00908 561229001016 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 561229001017 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 561229001018 active site 561229001019 substrate binding site [chemical binding]; other site 561229001020 ATP binding site [chemical binding]; other site 561229001021 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 561229001022 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561229001023 SurA N-terminal domain; Region: SurA_N; pfam09312 561229001024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229001025 SlyX; Region: SlyX; cl01090 561229001026 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 561229001027 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 561229001028 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561229001029 sensor protein BasS/PmrB; Provisional; Region: PRK10755 561229001030 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 561229001031 dimer interface [polypeptide binding]; other site 561229001032 phosphorylation site [posttranslational modification] 561229001033 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 561229001034 ATP binding site [chemical binding]; other site 561229001035 Mg2+ binding site [ion binding]; other site 561229001036 G-X-G motif; other site 561229001037 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 561229001038 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 561229001039 active site 561229001040 phosphorylation site [posttranslational modification] 561229001041 intermolecular recognition site; other site 561229001042 dimerization interface [polypeptide binding]; other site 561229001043 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 561229001044 DNA binding site [nucleotide binding] 561229001045 putative metal dependent hydrolase; Provisional; Region: PRK11598 561229001046 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561229001047 Sulfatase; Region: Sulfatase; pfam00884 561229001048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 561229001049 YheO-like PAS domain; Region: PAS_6; pfam08348 561229001050 HTH domain; Region: HTH_22; pfam13309 561229001051 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 561229001052 sulfur relay protein TusC; Validated; Region: PRK00211 561229001053 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 561229001054 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 561229001055 S17 interaction site [polypeptide binding]; other site 561229001056 S8 interaction site; other site 561229001057 16S rRNA interaction site [nucleotide binding]; other site 561229001058 streptomycin interaction site [chemical binding]; other site 561229001059 23S rRNA interaction site [nucleotide binding]; other site 561229001060 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 561229001061 30S ribosomal protein S7; Validated; Region: PRK05302 561229001062 elongation factor G; Reviewed; Region: PRK00007 561229001063 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 561229001064 G1 box; other site 561229001065 putative GEF interaction site [polypeptide binding]; other site 561229001066 GTP/Mg2+ binding site [chemical binding]; other site 561229001067 Switch I region; other site 561229001068 G2 box; other site 561229001069 G3 box; other site 561229001070 Switch II region; other site 561229001071 G4 box; other site 561229001072 G5 box; other site 561229001073 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 561229001074 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 561229001075 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 561229001076 elongation factor Tu; Reviewed; Region: PRK00049 561229001077 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 561229001078 G1 box; other site 561229001079 GEF interaction site [polypeptide binding]; other site 561229001080 GTP/Mg2+ binding site [chemical binding]; other site 561229001081 Switch I region; other site 561229001082 G2 box; other site 561229001083 G3 box; other site 561229001084 Switch II region; other site 561229001085 G4 box; other site 561229001086 G5 box; other site 561229001087 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 561229001088 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 561229001089 Antibiotic Binding Site [chemical binding]; other site 561229001090 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 561229001091 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 561229001092 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 561229001093 heme binding site [chemical binding]; other site 561229001094 ferroxidase pore; other site 561229001095 ferroxidase diiron center [ion binding]; other site 561229001096 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 561229001097 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 561229001098 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 561229001099 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 561229001100 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 561229001101 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 561229001102 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 561229001103 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 561229001104 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 561229001105 protein-rRNA interface [nucleotide binding]; other site 561229001106 putative translocon binding site; other site 561229001107 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 561229001108 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 561229001109 G-X-X-G motif; other site 561229001110 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 561229001111 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 561229001112 23S rRNA interface [nucleotide binding]; other site 561229001113 5S rRNA interface [nucleotide binding]; other site 561229001114 putative antibiotic binding site [chemical binding]; other site 561229001115 L25 interface [polypeptide binding]; other site 561229001116 L27 interface [polypeptide binding]; other site 561229001117 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 561229001118 23S rRNA interface [nucleotide binding]; other site 561229001119 putative translocon interaction site; other site 561229001120 signal recognition particle (SRP54) interaction site; other site 561229001121 L23 interface [polypeptide binding]; other site 561229001122 trigger factor interaction site; other site 561229001123 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 561229001124 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 561229001125 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 561229001126 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 561229001127 RNA binding site [nucleotide binding]; other site 561229001128 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 561229001129 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 561229001130 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 561229001131 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 561229001132 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 561229001133 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 561229001134 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 561229001135 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 561229001136 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 561229001137 5S rRNA interface [nucleotide binding]; other site 561229001138 23S rRNA interface [nucleotide binding]; other site 561229001139 L5 interface [polypeptide binding]; other site 561229001140 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 561229001141 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 561229001142 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 561229001143 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 561229001144 23S rRNA binding site [nucleotide binding]; other site 561229001145 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 561229001146 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 561229001147 SecY translocase; Region: SecY; pfam00344 561229001148 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 561229001149 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 561229001150 30S ribosomal protein S13; Region: bact_S13; TIGR03631 561229001151 30S ribosomal protein S11; Validated; Region: PRK05309 561229001152 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 561229001153 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 561229001154 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 561229001155 RNA binding surface [nucleotide binding]; other site 561229001156 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 561229001157 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 561229001158 alphaNTD homodimer interface [polypeptide binding]; other site 561229001159 alphaNTD - beta interaction site [polypeptide binding]; other site 561229001160 alphaNTD - beta' interaction site [polypeptide binding]; other site 561229001161 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 561229001162 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 561229001163 hypothetical protein; Provisional; Region: PRK10203 561229001164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 561229001165 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 561229001166 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 561229001167 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 561229001168 TrkA-N domain; Region: TrkA_N; pfam02254 561229001169 TrkA-C domain; Region: TrkA_C; pfam02080 561229001170 TrkA-N domain; Region: TrkA_N; pfam02254 561229001171 TrkA-C domain; Region: TrkA_C; pfam02080 561229001172 16S rRNA methyltransferase B; Provisional; Region: PRK10901 561229001173 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 561229001174 putative RNA binding site [nucleotide binding]; other site 561229001175 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 561229001176 S-adenosylmethionine binding site [chemical binding]; other site 561229001177 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 561229001178 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 561229001179 putative active site [active] 561229001180 substrate binding site [chemical binding]; other site 561229001181 putative cosubstrate binding site; other site 561229001182 catalytic site [active] 561229001183 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 561229001184 substrate binding site [chemical binding]; other site 561229001185 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 561229001186 active site 561229001187 catalytic residues [active] 561229001188 metal binding site [ion binding]; metal-binding site 561229001189 hypothetical protein; Provisional; Region: PRK10736 561229001190 DNA protecting protein DprA; Region: dprA; TIGR00732 561229001191 hypothetical protein; Validated; Region: PRK03430 561229001192 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561229001193 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 561229001194 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561229001195 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561229001196 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 561229001197 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 561229001198 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 561229001199 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 561229001200 shikimate binding site; other site 561229001201 NAD(P) binding site [chemical binding]; other site 561229001202 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 561229001203 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 561229001204 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 561229001205 trimer interface [polypeptide binding]; other site 561229001206 putative metal binding site [ion binding]; other site 561229001207 homoserine O-succinyltransferase; Provisional; Region: PRK05368 561229001208 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 561229001209 proposed active site lysine [active] 561229001210 conserved cys residue [active] 561229001211 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 561229001212 malate synthase A; Region: malate_syn_A; TIGR01344 561229001213 active site 561229001214 isocitrate lyase; Provisional; Region: PRK15063 561229001215 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 561229001216 tetramer interface [polypeptide binding]; other site 561229001217 active site 561229001218 Mg2+/Mn2+ binding site [ion binding]; other site 561229001219 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 561229001220 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 561229001221 transcriptional repressor IclR; Provisional; Region: PRK11569 561229001222 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561229001223 Bacterial transcriptional regulator; Region: IclR; pfam01614 561229001224 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 561229001225 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 561229001226 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 561229001227 substrate binding pocket [chemical binding]; other site 561229001228 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 561229001229 B12 binding site [chemical binding]; other site 561229001230 cobalt ligand [ion binding]; other site 561229001231 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 561229001232 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561229001233 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 561229001234 transmembrane helices; other site 561229001235 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 561229001236 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 561229001237 PhoU domain; Region: PhoU; pfam01895 561229001238 aspartate kinase III; Validated; Region: PRK09084 561229001239 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 561229001240 nucleotide binding site [chemical binding]; other site 561229001241 putative catalytic residues [active] 561229001242 aspartate binding site [chemical binding]; other site 561229001243 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561229001244 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 561229001245 dimer interface [polypeptide binding]; other site 561229001246 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 561229001247 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 561229001248 active site 561229001249 dimer interface [polypeptide binding]; other site 561229001250 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 561229001251 dimer interface [polypeptide binding]; other site 561229001252 active site 561229001253 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 561229001254 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 561229001255 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 561229001256 FeS/SAM binding site; other site 561229001257 elongation factor P; Validated; Region: PRK00529 561229001258 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 561229001259 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 561229001260 RNA binding site [nucleotide binding]; other site 561229001261 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 561229001262 RNA binding site [nucleotide binding]; other site 561229001263 Protein of unknown function, DUF486; Region: DUF486; cl01236 561229001264 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 561229001265 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 561229001266 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 561229001267 Iron-sulfur protein interface; other site 561229001268 proximal quinone binding site [chemical binding]; other site 561229001269 C-subunit interface; other site 561229001270 distal quinone binding site; other site 561229001271 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 561229001272 D-subunit interface [polypeptide binding]; other site 561229001273 Iron-sulfur protein interface; other site 561229001274 proximal quinone binding site [chemical binding]; other site 561229001275 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 561229001276 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 561229001277 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 561229001278 L-aspartate oxidase; Provisional; Region: PRK06175 561229001279 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561229001280 poxB regulator PoxA; Provisional; Region: PRK09350 561229001281 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 561229001282 motif 1; other site 561229001283 dimer interface [polypeptide binding]; other site 561229001284 active site 561229001285 motif 2; other site 561229001286 motif 3; other site 561229001287 putative mechanosensitive channel protein; Provisional; Region: PRK10929 561229001288 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 561229001289 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561229001290 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 561229001291 GTPase RsgA; Reviewed; Region: PRK12288 561229001292 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 561229001293 RNA binding site [nucleotide binding]; other site 561229001294 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 561229001295 GTPase/Zn-binding domain interface [polypeptide binding]; other site 561229001296 GTP/Mg2+ binding site [chemical binding]; other site 561229001297 G4 box; other site 561229001298 G5 box; other site 561229001299 G1 box; other site 561229001300 Switch I region; other site 561229001301 G2 box; other site 561229001302 G3 box; other site 561229001303 Switch II region; other site 561229001304 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 561229001305 catalytic site [active] 561229001306 putative active site [active] 561229001307 putative substrate binding site [chemical binding]; other site 561229001308 dimer interface [polypeptide binding]; other site 561229001309 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229001310 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229001311 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229001312 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229001313 Peptidase family M50; Region: Peptidase_M50; pfam02163 561229001314 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 561229001315 active site 561229001316 putative substrate binding region [chemical binding]; other site 561229001317 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 561229001318 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229001319 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229001320 Phage Tail Collar Domain; Region: Collar; pfam07484 561229001321 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 561229001322 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229001323 Cadherin repeat-like domain; Region: CA_like; cl15786 561229001324 Ca2+ binding site [ion binding]; other site 561229001325 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229001326 Cadherin repeat-like domain; Region: CA_like; cl15786 561229001327 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229001328 Cadherin repeat-like domain; Region: CA_like; cl15786 561229001329 Ca2+ binding site [ion binding]; other site 561229001330 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229001331 Cadherin repeat-like domain; Region: CA_like; cl15786 561229001332 Outer membrane efflux protein; Region: OEP; pfam02321 561229001333 Outer membrane efflux protein; Region: OEP; pfam02321 561229001334 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229001335 dimer interface [polypeptide binding]; other site 561229001336 ligand binding site [chemical binding]; other site 561229001337 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229001338 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229001339 dimer interface [polypeptide binding]; other site 561229001340 putative CheW interface [polypeptide binding]; other site 561229001341 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561229001342 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229001343 HAMP domain; Region: HAMP; pfam00672 561229001344 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229001345 dimer interface [polypeptide binding]; other site 561229001346 putative CheW interface [polypeptide binding]; other site 561229001347 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 561229001348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229001349 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 561229001350 putative substrate binding pocket [chemical binding]; other site 561229001351 putative dimerization interface [polypeptide binding]; other site 561229001352 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 561229001353 amidohydrolase; Region: amidohydrolases; TIGR01891 561229001354 putative metal binding site [ion binding]; other site 561229001355 dimer interface [polypeptide binding]; other site 561229001356 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 561229001357 amidohydrolase; Region: amidohydrolases; TIGR01891 561229001358 putative metal binding site [ion binding]; other site 561229001359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229001360 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229001361 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229001362 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 561229001363 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 561229001364 Transcriptional regulators [Transcription]; Region: MarR; COG1846 561229001365 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 561229001366 putative Zn2+ binding site [ion binding]; other site 561229001367 putative DNA binding site [nucleotide binding]; other site 561229001368 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 561229001369 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561229001370 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229001371 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229001372 Walker A/P-loop; other site 561229001373 ATP binding site [chemical binding]; other site 561229001374 Q-loop/lid; other site 561229001375 ABC transporter signature motif; other site 561229001376 Walker B; other site 561229001377 D-loop; other site 561229001378 H-loop/switch region; other site 561229001379 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 561229001380 dimer interface [polypeptide binding]; other site 561229001381 conserved gate region; other site 561229001382 putative PBP binding loops; other site 561229001383 ABC-ATPase subunit interface; other site 561229001384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229001385 Coenzyme A binding pocket [chemical binding]; other site 561229001386 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229001387 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 561229001388 substrate binding pocket [chemical binding]; other site 561229001389 membrane-bound complex binding site; other site 561229001390 hinge residues; other site 561229001391 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 561229001392 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 561229001393 active site 561229001394 non-prolyl cis peptide bond; other site 561229001395 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 561229001396 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 561229001397 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229001398 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561229001399 Na binding site [ion binding]; other site 561229001400 PAS fold; Region: PAS_4; pfam08448 561229001401 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561229001402 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 561229001403 DNA binding residues [nucleotide binding] 561229001404 dimerization interface [polypeptide binding]; other site 561229001405 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229001406 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229001407 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561229001408 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561229001409 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561229001410 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561229001411 PAAR motif; Region: PAAR_motif; pfam05488 561229001412 RHS Repeat; Region: RHS_repeat; pfam05593 561229001413 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561229001414 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 561229001415 RHS Repeat; Region: RHS_repeat; pfam05593 561229001416 RHS Repeat; Region: RHS_repeat; pfam05593 561229001417 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561229001418 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 561229001419 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 561229001420 Walker A motif; other site 561229001421 ATP binding site [chemical binding]; other site 561229001422 Walker B motif; other site 561229001423 arginine finger; other site 561229001424 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 561229001425 Putative helicase; Region: TraI_2; pfam07514 561229001426 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 561229001427 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 561229001428 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 561229001429 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 561229001430 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 561229001431 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 561229001432 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 561229001433 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 561229001434 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 561229001435 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 561229001436 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 561229001437 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 561229001438 Protein of unknown function (DUF904); Region: DUF904; pfam06005 561229001439 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 561229001440 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 561229001441 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 561229001442 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 561229001443 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 561229001444 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 561229001445 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 561229001446 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 561229001447 TIR domain; Region: TIR_2; pfam13676 561229001448 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 561229001449 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 561229001450 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 561229001451 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 561229001452 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 561229001453 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229001454 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 561229001455 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 561229001456 HNH endonuclease; Region: HNH_5; pfam14279 561229001457 DEAD-like helicases superfamily; Region: DEXDc; smart00487 561229001458 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 561229001459 ATP binding site [chemical binding]; other site 561229001460 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 561229001461 nucleotide binding region [chemical binding]; other site 561229001462 ATP-binding site [chemical binding]; other site 561229001463 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561229001464 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 561229001465 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 561229001466 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 561229001467 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 561229001468 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 561229001469 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 561229001470 cofactor binding site; other site 561229001471 DNA binding site [nucleotide binding] 561229001472 substrate interaction site [chemical binding]; other site 561229001473 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 561229001474 DNA topoisomerase III; Provisional; Region: PRK07726 561229001475 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 561229001476 active site 561229001477 putative interdomain interaction site [polypeptide binding]; other site 561229001478 putative metal-binding site [ion binding]; other site 561229001479 putative nucleotide binding site [chemical binding]; other site 561229001480 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 561229001481 domain I; other site 561229001482 DNA binding groove [nucleotide binding] 561229001483 phosphate binding site [ion binding]; other site 561229001484 domain II; other site 561229001485 domain III; other site 561229001486 nucleotide binding site [chemical binding]; other site 561229001487 catalytic site [active] 561229001488 domain IV; other site 561229001489 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561229001490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229001491 AAA domain; Region: AAA_23; pfam13476 561229001492 Walker A/P-loop; other site 561229001493 ATP binding site [chemical binding]; other site 561229001494 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 561229001495 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 561229001496 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 561229001497 ssDNA binding site [nucleotide binding]; other site 561229001498 dimer interface [polypeptide binding]; other site 561229001499 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561229001500 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 561229001501 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 561229001502 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 561229001503 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 561229001504 ParB-like nuclease domain; Region: ParBc; pfam02195 561229001505 YcfA-like protein; Region: YcfA; cl00752 561229001506 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 561229001507 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 561229001508 P-loop; other site 561229001509 Magnesium ion binding site [ion binding]; other site 561229001510 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 561229001511 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 561229001512 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 561229001513 NAD binding site [chemical binding]; other site 561229001514 ligand binding site [chemical binding]; other site 561229001515 catalytic site [active] 561229001516 epoxyqueuosine reductase; Region: TIGR00276 561229001517 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 561229001518 putative carbohydrate kinase; Provisional; Region: PRK10565 561229001519 Uncharacterized conserved protein [Function unknown]; Region: COG0062 561229001520 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 561229001521 putative substrate binding site [chemical binding]; other site 561229001522 putative ATP binding site [chemical binding]; other site 561229001523 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 561229001524 AMIN domain; Region: AMIN; pfam11741 561229001525 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 561229001526 active site 561229001527 metal binding site [ion binding]; metal-binding site 561229001528 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561229001529 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 561229001530 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561229001531 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 561229001532 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 561229001533 ATP binding site [chemical binding]; other site 561229001534 Mg2+ binding site [ion binding]; other site 561229001535 G-X-G motif; other site 561229001536 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 561229001537 ATP binding site [chemical binding]; other site 561229001538 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 561229001539 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 561229001540 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 561229001541 bacterial Hfq-like; Region: Hfq; cd01716 561229001542 hexamer interface [polypeptide binding]; other site 561229001543 Sm1 motif; other site 561229001544 RNA binding site [nucleotide binding]; other site 561229001545 Sm2 motif; other site 561229001546 GTPase HflX; Provisional; Region: PRK11058 561229001547 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 561229001548 HflX GTPase family; Region: HflX; cd01878 561229001549 G1 box; other site 561229001550 GTP/Mg2+ binding site [chemical binding]; other site 561229001551 Switch I region; other site 561229001552 G2 box; other site 561229001553 G3 box; other site 561229001554 Switch II region; other site 561229001555 G4 box; other site 561229001556 G5 box; other site 561229001557 FtsH protease regulator HflK; Provisional; Region: PRK10930 561229001558 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 561229001559 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 561229001560 FtsH protease regulator HflC; Provisional; Region: PRK11029 561229001561 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 561229001562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 561229001563 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 561229001564 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 561229001565 GDP-binding site [chemical binding]; other site 561229001566 ACT binding site; other site 561229001567 IMP binding site; other site 561229001568 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 561229001569 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561229001570 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561229001571 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561229001572 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 561229001573 AMP binding site [chemical binding]; other site 561229001574 metal binding site [ion binding]; metal-binding site 561229001575 active site 561229001576 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 561229001577 hypothetical protein; Validated; Region: PRK00228 561229001578 glutathione synthetase; Provisional; Region: PRK05246 561229001579 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 561229001580 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 561229001581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 561229001582 RNA methyltransferase, RsmE family; Region: TIGR00046 561229001583 DNA-specific endonuclease I; Provisional; Region: PRK15137 561229001584 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 561229001585 hypothetical protein; Provisional; Region: PRK04860 561229001586 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 561229001587 S-adenosylmethionine synthetase; Validated; Region: PRK05250 561229001588 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 561229001589 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 561229001590 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 561229001591 arginine decarboxylase; Provisional; Region: PRK05354 561229001592 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 561229001593 dimer interface [polypeptide binding]; other site 561229001594 active site 561229001595 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561229001596 catalytic residues [active] 561229001597 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 561229001598 putative transporter; Provisional; Region: PRK03699 561229001599 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 561229001600 putative substrate translocation pore; other site 561229001601 transketolase; Reviewed; Region: PRK12753 561229001602 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 561229001603 TPP-binding site [chemical binding]; other site 561229001604 dimer interface [polypeptide binding]; other site 561229001605 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 561229001606 PYR/PP interface [polypeptide binding]; other site 561229001607 dimer interface [polypeptide binding]; other site 561229001608 TPP binding site [chemical binding]; other site 561229001609 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561229001610 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229001611 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229001612 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 561229001613 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 561229001614 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 561229001615 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 561229001616 Phosphoglycerate kinase; Region: PGK; pfam00162 561229001617 substrate binding site [chemical binding]; other site 561229001618 hinge regions; other site 561229001619 ADP binding site [chemical binding]; other site 561229001620 catalytic site [active] 561229001621 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 561229001622 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 561229001623 active site 561229001624 intersubunit interface [polypeptide binding]; other site 561229001625 zinc binding site [ion binding]; other site 561229001626 Na+ binding site [ion binding]; other site 561229001627 mechanosensitive channel MscS; Provisional; Region: PRK10334 561229001628 Conserved TM helix; Region: TM_helix; pfam05552 561229001629 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561229001630 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561229001631 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561229001632 Bacterial transcriptional regulator; Region: IclR; pfam01614 561229001633 Uncharacterized conserved protein [Function unknown]; Region: COG2968 561229001634 oxidative stress defense protein; Provisional; Region: PRK11087 561229001635 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 561229001636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229001637 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 561229001638 putative dimerization interface [polypeptide binding]; other site 561229001639 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 561229001640 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561229001641 active site 561229001642 dimer interface [polypeptide binding]; other site 561229001643 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 561229001644 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 561229001645 ligand binding site [chemical binding]; other site 561229001646 NAD binding site [chemical binding]; other site 561229001647 tetramer interface [polypeptide binding]; other site 561229001648 catalytic site [active] 561229001649 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 561229001650 L-serine binding site [chemical binding]; other site 561229001651 ACT domain interface; other site 561229001652 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 561229001653 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 561229001654 putative NAD(P) binding site [chemical binding]; other site 561229001655 dimer interface [polypeptide binding]; other site 561229001656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229001657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229001658 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229001659 putative effector binding pocket; other site 561229001660 dimerization interface [polypeptide binding]; other site 561229001661 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229001662 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 561229001663 dimerization interface [polypeptide binding]; other site 561229001664 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229001665 dimer interface [polypeptide binding]; other site 561229001666 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561229001667 putative CheW interface [polypeptide binding]; other site 561229001668 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 561229001669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229001670 Walker A/P-loop; other site 561229001671 ATP binding site [chemical binding]; other site 561229001672 Q-loop/lid; other site 561229001673 ABC transporter signature motif; other site 561229001674 Walker B; other site 561229001675 D-loop; other site 561229001676 H-loop/switch region; other site 561229001677 ABC transporter; Region: ABC_tran_2; pfam12848 561229001678 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229001679 lytic murein transglycosylase; Provisional; Region: PRK11619 561229001680 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 561229001681 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229001682 catalytic residue [active] 561229001683 Trp operon repressor; Provisional; Region: PRK01381 561229001684 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 561229001685 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 561229001686 catalytic core [active] 561229001687 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 561229001688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229001689 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 561229001690 hypothetical protein; Provisional; Region: PRK10756 561229001691 CreA protein; Region: CreA; pfam05981 561229001692 two-component response regulator; Provisional; Region: PRK11173 561229001693 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 561229001694 active site 561229001695 phosphorylation site [posttranslational modification] 561229001696 intermolecular recognition site; other site 561229001697 dimerization interface [polypeptide binding]; other site 561229001698 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 561229001699 DNA binding site [nucleotide binding] 561229001700 putative RNA methyltransferase; Provisional; Region: PRK10433 561229001701 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 561229001702 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 561229001703 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 561229001704 putative catalytic residues [active] 561229001705 putative nucleotide binding site [chemical binding]; other site 561229001706 putative aspartate binding site [chemical binding]; other site 561229001707 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 561229001708 dimer interface [polypeptide binding]; other site 561229001709 putative threonine allosteric regulatory site; other site 561229001710 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 561229001711 putative threonine allosteric regulatory site; other site 561229001712 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 561229001713 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 561229001714 homoserine kinase; Provisional; Region: PRK01212 561229001715 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561229001716 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 561229001717 threonine synthase; Validated; Region: PRK09225 561229001718 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 561229001719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229001720 catalytic residue [active] 561229001721 hypothetical protein; Validated; Region: PRK02101 561229001722 transaldolase-like protein; Provisional; Region: PTZ00411 561229001723 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 561229001724 active site 561229001725 dimer interface [polypeptide binding]; other site 561229001726 catalytic residue [active] 561229001727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229001728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229001729 metal binding site [ion binding]; metal-binding site 561229001730 active site 561229001731 I-site; other site 561229001732 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 561229001733 MPT binding site; other site 561229001734 trimer interface [polypeptide binding]; other site 561229001735 metabolite-proton symporter; Region: 2A0106; TIGR00883 561229001736 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 561229001737 putative substrate translocation pore; other site 561229001738 hypothetical protein; Provisional; Region: PRK10659 561229001739 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 561229001740 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561229001741 nucleotide binding site [chemical binding]; other site 561229001742 chaperone protein DnaJ; Provisional; Region: PRK10767 561229001743 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 561229001744 HSP70 interaction site [polypeptide binding]; other site 561229001745 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 561229001746 substrate binding site [polypeptide binding]; other site 561229001747 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 561229001748 Zn binding sites [ion binding]; other site 561229001749 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 561229001750 dimer interface [polypeptide binding]; other site 561229001751 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 561229001752 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 561229001753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229001754 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 561229001755 putative dimerization interface [polypeptide binding]; other site 561229001756 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 561229001757 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 561229001758 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 561229001759 active site 561229001760 Riboflavin kinase; Region: Flavokinase; smart00904 561229001761 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 561229001762 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561229001763 active site 561229001764 HIGH motif; other site 561229001765 nucleotide binding site [chemical binding]; other site 561229001766 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 561229001767 active site 561229001768 KMSKS motif; other site 561229001769 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 561229001770 tRNA binding surface [nucleotide binding]; other site 561229001771 anticodon binding site; other site 561229001772 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561229001773 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 561229001774 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 561229001775 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561229001776 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 561229001777 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 561229001778 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 561229001779 active site 561229001780 tetramer interface [polypeptide binding]; other site 561229001781 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 561229001782 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 561229001783 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 561229001784 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 561229001785 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 561229001786 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 561229001787 catalytic site [active] 561229001788 subunit interface [polypeptide binding]; other site 561229001789 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 561229001790 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561229001791 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 561229001792 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 561229001793 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561229001794 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561229001795 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 561229001796 IMP binding site; other site 561229001797 dimer interface [polypeptide binding]; other site 561229001798 interdomain contacts; other site 561229001799 partial ornithine binding site; other site 561229001800 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561229001801 Uncharacterized conserved protein [Function unknown]; Region: COG2966 561229001802 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 561229001803 hypothetical protein; Provisional; Region: PRK09917 561229001804 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 561229001805 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 561229001806 folate binding site [chemical binding]; other site 561229001807 NADP+ binding site [chemical binding]; other site 561229001808 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 561229001809 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 561229001810 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 561229001811 active site 561229001812 metal binding site [ion binding]; metal-binding site 561229001813 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 561229001814 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 561229001815 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 561229001816 S-adenosylmethionine binding site [chemical binding]; other site 561229001817 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 561229001818 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561229001819 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 561229001820 SurA N-terminal domain; Region: SurA_N; pfam09312 561229001821 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 561229001822 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 561229001823 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 561229001824 OstA-like protein; Region: OstA; pfam03968 561229001825 Organic solvent tolerance protein; Region: OstA_C; pfam04453 561229001826 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 561229001827 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 561229001828 putative metal binding site [ion binding]; other site 561229001829 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 561229001830 HSP70 interaction site [polypeptide binding]; other site 561229001831 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 561229001832 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561229001833 active site 561229001834 ATP-dependent helicase HepA; Validated; Region: PRK04914 561229001835 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 561229001836 ATP binding site [chemical binding]; other site 561229001837 putative Mg++ binding site [ion binding]; other site 561229001838 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 561229001839 nucleotide binding region [chemical binding]; other site 561229001840 ATP-binding site [chemical binding]; other site 561229001841 DNA polymerase II; Reviewed; Region: PRK05762 561229001842 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 561229001843 active site 561229001844 catalytic site [active] 561229001845 substrate binding site [chemical binding]; other site 561229001846 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 561229001847 active site 561229001848 metal-binding site 561229001849 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229001850 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 561229001851 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561229001852 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 561229001853 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561229001854 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561229001855 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 561229001856 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 561229001857 putative valine binding site [chemical binding]; other site 561229001858 dimer interface [polypeptide binding]; other site 561229001859 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 561229001860 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561229001861 PYR/PP interface [polypeptide binding]; other site 561229001862 dimer interface [polypeptide binding]; other site 561229001863 TPP binding site [chemical binding]; other site 561229001864 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561229001865 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 561229001866 TPP-binding site [chemical binding]; other site 561229001867 dimer interface [polypeptide binding]; other site 561229001868 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 561229001869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229001870 Walker A/P-loop; other site 561229001871 ATP binding site [chemical binding]; other site 561229001872 Q-loop/lid; other site 561229001873 ABC transporter signature motif; other site 561229001874 Walker B; other site 561229001875 D-loop; other site 561229001876 H-loop/switch region; other site 561229001877 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 561229001878 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 561229001879 dimer interface [polypeptide binding]; other site 561229001880 conserved gate region; other site 561229001881 putative PBP binding loops; other site 561229001882 ABC-ATPase subunit interface; other site 561229001883 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 561229001884 dimer interface [polypeptide binding]; other site 561229001885 conserved gate region; other site 561229001886 putative PBP binding loops; other site 561229001887 ABC-ATPase subunit interface; other site 561229001888 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 561229001889 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 561229001890 transcriptional regulator SgrR; Provisional; Region: PRK13626 561229001891 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 561229001892 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 561229001893 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 561229001894 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 561229001895 substrate binding site [chemical binding]; other site 561229001896 tetramer interface [polypeptide binding]; other site 561229001897 catalytic residue [active] 561229001898 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 561229001899 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 561229001900 FAD binding pocket [chemical binding]; other site 561229001901 FAD binding motif [chemical binding]; other site 561229001902 phosphate binding motif [ion binding]; other site 561229001903 NAD binding pocket [chemical binding]; other site 561229001904 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229001905 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229001906 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229001907 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 561229001908 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 561229001909 substrate binding site [chemical binding]; other site 561229001910 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 561229001911 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 561229001912 substrate binding site [chemical binding]; other site 561229001913 ligand binding site [chemical binding]; other site 561229001914 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 561229001915 tartrate dehydrogenase; Region: TTC; TIGR02089 561229001916 2-isopropylmalate synthase; Validated; Region: PRK00915 561229001917 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 561229001918 active site 561229001919 catalytic residues [active] 561229001920 metal binding site [ion binding]; metal-binding site 561229001921 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 561229001922 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 561229001923 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229001924 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 561229001925 acyl-activating enzyme (AAE) consensus motif; other site 561229001926 putative AMP binding site [chemical binding]; other site 561229001927 putative active site [active] 561229001928 putative CoA binding site [chemical binding]; other site 561229001929 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 561229001930 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561229001931 PYR/PP interface [polypeptide binding]; other site 561229001932 dimer interface [polypeptide binding]; other site 561229001933 TPP binding site [chemical binding]; other site 561229001934 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561229001935 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 561229001936 TPP-binding site [chemical binding]; other site 561229001937 dimer interface [polypeptide binding]; other site 561229001938 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 561229001939 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 561229001940 putative valine binding site [chemical binding]; other site 561229001941 dimer interface [polypeptide binding]; other site 561229001942 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 561229001943 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 561229001944 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229001945 DNA binding site [nucleotide binding] 561229001946 domain linker motif; other site 561229001947 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 561229001948 dimerization interface [polypeptide binding]; other site 561229001949 ligand binding site [chemical binding]; other site 561229001950 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 561229001951 cell division protein MraZ; Reviewed; Region: PRK00326 561229001952 MraZ protein; Region: MraZ; pfam02381 561229001953 MraZ protein; Region: MraZ; pfam02381 561229001954 MraW methylase family; Region: Methyltransf_5; pfam01795 561229001955 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 561229001956 cell division protein FtsL; Provisional; Region: PRK10772 561229001957 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 561229001958 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561229001959 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561229001960 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 561229001961 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561229001962 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561229001963 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561229001964 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 561229001965 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561229001966 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561229001967 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561229001968 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 561229001969 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 561229001970 Mg++ binding site [ion binding]; other site 561229001971 putative catalytic motif [active] 561229001972 putative substrate binding site [chemical binding]; other site 561229001973 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 561229001974 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 561229001975 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561229001976 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561229001977 cell division protein FtsW; Provisional; Region: PRK10774 561229001978 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 561229001979 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 561229001980 active site 561229001981 homodimer interface [polypeptide binding]; other site 561229001982 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 561229001983 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 561229001984 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561229001985 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561229001986 cell division protein FtsQ; Provisional; Region: PRK10775 561229001987 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 561229001988 Cell division protein FtsQ; Region: FtsQ; pfam03799 561229001989 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 561229001990 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229001991 Cell division protein FtsA; Region: FtsA; pfam14450 561229001992 cell division protein FtsZ; Validated; Region: PRK09330 561229001993 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 561229001994 nucleotide binding site [chemical binding]; other site 561229001995 SulA interaction site; other site 561229001996 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 561229001997 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 561229001998 Protein of unknown function (DUF721); Region: DUF721; cl02324 561229001999 SecA regulator SecM; Provisional; Region: PRK02943 561229002000 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 561229002001 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 561229002002 SEC-C motif; Region: SEC-C; pfam02810 561229002003 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 561229002004 active site 561229002005 8-oxo-dGMP binding site [chemical binding]; other site 561229002006 nudix motif; other site 561229002007 metal binding site [ion binding]; metal-binding site 561229002008 DNA gyrase inhibitor; Reviewed; Region: PRK00418 561229002009 hypothetical protein; Provisional; Region: PRK05287 561229002010 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 561229002011 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 561229002012 CoA-binding site [chemical binding]; other site 561229002013 ATP-binding [chemical binding]; other site 561229002014 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 561229002015 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 561229002016 active site 561229002017 type IV pilin biogenesis protein; Provisional; Region: PRK10573 561229002018 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229002019 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229002020 hypothetical protein; Provisional; Region: PRK10436 561229002021 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 561229002022 Walker A motif; other site 561229002023 ATP binding site [chemical binding]; other site 561229002024 Walker B motif; other site 561229002025 putative major pilin subunit; Provisional; Region: PRK10574 561229002026 Pilin (bacterial filament); Region: Pilin; pfam00114 561229002027 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 561229002028 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 561229002029 dimerization interface [polypeptide binding]; other site 561229002030 active site 561229002031 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 561229002032 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 561229002033 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 561229002034 amidase catalytic site [active] 561229002035 Zn binding residues [ion binding]; other site 561229002036 substrate binding site [chemical binding]; other site 561229002037 regulatory protein AmpE; Provisional; Region: PRK10987 561229002038 aromatic amino acid transporter; Provisional; Region: PRK10238 561229002039 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 561229002040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229002041 DNA-binding site [nucleotide binding]; DNA binding site 561229002042 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561229002043 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 561229002044 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 561229002045 dimer interface [polypeptide binding]; other site 561229002046 TPP-binding site [chemical binding]; other site 561229002047 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 561229002048 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 561229002049 E3 interaction surface; other site 561229002050 lipoyl attachment site [posttranslational modification]; other site 561229002051 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 561229002052 E3 interaction surface; other site 561229002053 lipoyl attachment site [posttranslational modification]; other site 561229002054 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 561229002055 E3 interaction surface; other site 561229002056 lipoyl attachment site [posttranslational modification]; other site 561229002057 e3 binding domain; Region: E3_binding; pfam02817 561229002058 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 561229002059 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 561229002060 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 561229002061 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229002062 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 561229002063 Abhydrolase family; Region: Abhydrolase_7; pfam12715 561229002064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229002065 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 561229002066 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 561229002067 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 561229002068 substrate binding site [chemical binding]; other site 561229002069 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 561229002070 substrate binding site [chemical binding]; other site 561229002071 ligand binding site [chemical binding]; other site 561229002072 hypothetical protein; Provisional; Region: PRK05248 561229002073 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229002074 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229002075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002076 dimer interface [polypeptide binding]; other site 561229002077 putative CheW interface [polypeptide binding]; other site 561229002078 short chain dehydrogenase; Provisional; Region: PRK07577 561229002079 classical (c) SDRs; Region: SDR_c; cd05233 561229002080 NAD(P) binding site [chemical binding]; other site 561229002081 active site 561229002082 Domain of unknown function (DUF386); Region: DUF386; cl01047 561229002083 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 561229002084 BNR repeat-like domain; Region: BNR_2; pfam13088 561229002085 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 561229002086 Na binding site [ion binding]; other site 561229002087 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 561229002088 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 561229002089 inhibitor site; inhibition site 561229002090 active site 561229002091 dimer interface [polypeptide binding]; other site 561229002092 catalytic residue [active] 561229002093 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 561229002094 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 561229002095 putative active site [active] 561229002096 metal binding site [ion binding]; metal-binding site 561229002097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 561229002098 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 561229002099 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 561229002100 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561229002101 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 561229002102 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229002103 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 561229002104 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 561229002105 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 561229002106 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 561229002107 metal binding site [ion binding]; metal-binding site 561229002108 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561229002109 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 561229002110 ABC-ATPase subunit interface; other site 561229002111 dimer interface [polypeptide binding]; other site 561229002112 putative PBP binding regions; other site 561229002113 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 561229002114 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561229002115 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229002116 nucleotide binding site [chemical binding]; other site 561229002117 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561229002118 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561229002119 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 561229002120 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561229002121 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561229002122 Walker A/P-loop; other site 561229002123 ATP binding site [chemical binding]; other site 561229002124 Q-loop/lid; other site 561229002125 ABC transporter signature motif; other site 561229002126 Walker B; other site 561229002127 D-loop; other site 561229002128 H-loop/switch region; other site 561229002129 TOBE domain; Region: TOBE_2; pfam08402 561229002130 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 561229002131 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 561229002132 ABC-ATPase subunit interface; other site 561229002133 putative PBP binding loops; other site 561229002134 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229002135 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 561229002136 dimer interface [polypeptide binding]; other site 561229002137 conserved gate region; other site 561229002138 putative PBP binding loops; other site 561229002139 ABC-ATPase subunit interface; other site 561229002140 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229002141 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229002142 DNA binding site [nucleotide binding] 561229002143 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 561229002144 ligand binding site [chemical binding]; other site 561229002145 dimerization interface [polypeptide binding]; other site 561229002146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229002147 AAA domain; Region: AAA_21; pfam13304 561229002148 Walker A/P-loop; other site 561229002149 ATP binding site [chemical binding]; other site 561229002150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 561229002151 Q-loop/lid; other site 561229002152 ABC transporter signature motif; other site 561229002153 Walker B; other site 561229002154 D-loop; other site 561229002155 H-loop/switch region; other site 561229002156 Homeodomain-like domain; Region: HTH_23; pfam13384 561229002157 Winged helix-turn helix; Region: HTH_29; pfam13551 561229002158 Homeodomain-like domain; Region: HTH_32; pfam13565 561229002159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 561229002160 DDE superfamily endonuclease; Region: DDE_3; pfam13358 561229002161 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 561229002162 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 561229002163 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 561229002164 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 561229002165 Uncharacterized conserved protein [Function unknown]; Region: COG4104 561229002166 Phage protein D [General function prediction only]; Region: COG3500 561229002167 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 561229002168 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561229002169 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 561229002170 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 561229002171 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 561229002172 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 561229002173 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 561229002174 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561229002175 NAD binding site [chemical binding]; other site 561229002176 active site 561229002177 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 561229002178 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 561229002179 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 561229002180 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 561229002181 putative active site [active] 561229002182 putative NTP binding site [chemical binding]; other site 561229002183 putative nucleic acid binding site [nucleotide binding]; other site 561229002184 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 561229002185 Type II intron maturase; Region: Intron_maturas2; pfam01348 561229002186 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 561229002187 active site 561229002188 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 561229002189 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 561229002190 dimer interface [polypeptide binding]; other site 561229002191 ssDNA binding site [nucleotide binding]; other site 561229002192 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561229002193 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 561229002194 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 561229002195 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 561229002196 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 561229002197 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 561229002198 Cache domain; Region: Cache_1; pfam02743 561229002199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229002200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229002201 metal binding site [ion binding]; metal-binding site 561229002202 active site 561229002203 I-site; other site 561229002204 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229002205 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 561229002206 dimerization interface [polypeptide binding]; other site 561229002207 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002208 dimer interface [polypeptide binding]; other site 561229002209 putative CheW interface [polypeptide binding]; other site 561229002210 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 561229002211 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 561229002212 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 561229002213 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09735 561229002214 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 561229002215 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 561229002216 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 561229002217 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 561229002218 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 561229002219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229002220 homodimer interface [polypeptide binding]; other site 561229002221 catalytic residue [active] 561229002222 Uncharacterized conserved protein [Function unknown]; Region: COG1284 561229002223 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 561229002224 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561229002225 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 561229002226 putative DNA binding site [nucleotide binding]; other site 561229002227 putative Zn2+ binding site [ion binding]; other site 561229002228 AsnC family; Region: AsnC_trans_reg; pfam01037 561229002229 aromatic amino acid transporter; Provisional; Region: PRK10238 561229002230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229002231 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 561229002232 substrate binding pocket [chemical binding]; other site 561229002233 membrane-bound complex binding site; other site 561229002234 hinge residues; other site 561229002235 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561229002236 alanine racemase; Reviewed; Region: alr; PRK00053 561229002237 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 561229002238 active site 561229002239 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561229002240 substrate binding site [chemical binding]; other site 561229002241 catalytic residues [active] 561229002242 dimer interface [polypeptide binding]; other site 561229002243 replicative DNA helicase; Provisional; Region: PRK08006 561229002244 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 561229002245 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 561229002246 Walker A motif; other site 561229002247 ATP binding site [chemical binding]; other site 561229002248 Walker B motif; other site 561229002249 DNA binding loops [nucleotide binding] 561229002250 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 561229002251 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 561229002252 NADP binding site [chemical binding]; other site 561229002253 dimer interface [polypeptide binding]; other site 561229002254 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 561229002255 Cytochrome P450; Region: p450; cl12078 561229002256 phage shock protein G; Reviewed; Region: pspG; PRK09459 561229002257 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 561229002258 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 561229002259 FMN binding site [chemical binding]; other site 561229002260 active site 561229002261 catalytic residues [active] 561229002262 substrate binding site [chemical binding]; other site 561229002263 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 561229002264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229002265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229002266 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561229002267 putative effector binding pocket; other site 561229002268 putative dimerization interface [polypeptide binding]; other site 561229002269 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 561229002270 Uncharacterized conserved protein [Function unknown]; Region: COG4925 561229002271 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 561229002272 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229002273 putative substrate translocation pore; other site 561229002274 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229002275 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229002276 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229002277 putative effector binding pocket; other site 561229002278 dimerization interface [polypeptide binding]; other site 561229002279 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 561229002280 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 561229002281 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 561229002282 transcriptional regulator protein; Region: phnR; TIGR03337 561229002283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229002284 DNA-binding site [nucleotide binding]; DNA binding site 561229002285 UTRA domain; Region: UTRA; pfam07702 561229002286 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 561229002287 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561229002288 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 561229002289 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 561229002290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 561229002291 dimer interface [polypeptide binding]; other site 561229002292 conserved gate region; other site 561229002293 ABC-ATPase subunit interface; other site 561229002294 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561229002295 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 561229002296 putative PBP binding loops; other site 561229002297 dimer interface [polypeptide binding]; other site 561229002298 ABC-ATPase subunit interface; other site 561229002299 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561229002300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229002301 Walker A/P-loop; other site 561229002302 ATP binding site [chemical binding]; other site 561229002303 Q-loop/lid; other site 561229002304 ABC transporter signature motif; other site 561229002305 Walker B; other site 561229002306 D-loop; other site 561229002307 H-loop/switch region; other site 561229002308 TOBE domain; Region: TOBE_2; pfam08402 561229002309 Fic family protein [Function unknown]; Region: COG3177 561229002310 Fic/DOC family; Region: Fic; pfam02661 561229002311 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 561229002312 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229002313 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 561229002314 dimerization interface [polypeptide binding]; other site 561229002315 diaminopimelate decarboxylase; Provisional; Region: PRK11165 561229002316 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 561229002317 active site 561229002318 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561229002319 substrate binding site [chemical binding]; other site 561229002320 catalytic residues [active] 561229002321 dimer interface [polypeptide binding]; other site 561229002322 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229002323 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229002324 DNA binding site [nucleotide binding] 561229002325 domain linker motif; other site 561229002326 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561229002327 dimerization interface (closed form) [polypeptide binding]; other site 561229002328 ligand binding site [chemical binding]; other site 561229002329 methionine cluster; other site 561229002330 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 561229002331 active site 561229002332 phosphorylation site [posttranslational modification] 561229002333 metal binding site [ion binding]; metal-binding site 561229002334 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561229002335 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561229002336 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561229002337 beta-galactosidase; Region: BGL; TIGR03356 561229002338 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 561229002339 active site 561229002340 P-loop; other site 561229002341 phosphorylation site [posttranslational modification] 561229002342 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 561229002343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229002344 DNA-binding site [nucleotide binding]; DNA binding site 561229002345 FCD domain; Region: FCD; pfam07729 561229002346 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229002347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229002348 Coenzyme A binding pocket [chemical binding]; other site 561229002349 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229002350 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 561229002351 Fic/DOC family; Region: Fic; pfam02661 561229002352 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 561229002353 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229002354 DNA binding site [nucleotide binding] 561229002355 domain linker motif; other site 561229002356 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561229002357 dimerization interface (closed form) [polypeptide binding]; other site 561229002358 ligand binding site [chemical binding]; other site 561229002359 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561229002360 CAT RNA binding domain; Region: CAT_RBD; smart01061 561229002361 PRD domain; Region: PRD; pfam00874 561229002362 PRD domain; Region: PRD; pfam00874 561229002363 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 561229002364 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561229002365 active site turn [active] 561229002366 phosphorylation site [posttranslational modification] 561229002367 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561229002368 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; cl00162 561229002369 HPr interaction site; other site 561229002370 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561229002371 active site 561229002372 phosphorylation site [posttranslational modification] 561229002373 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 561229002374 beta-galactosidase; Region: BGL; TIGR03356 561229002375 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561229002376 beta-galactosidase; Region: BGL; TIGR03356 561229002377 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 561229002378 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561229002379 putative acyl-acceptor binding pocket; other site 561229002380 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 561229002381 acyl-activating enzyme (AAE) consensus motif; other site 561229002382 putative AMP binding site [chemical binding]; other site 561229002383 lysophospholipid transporter LplT; Provisional; Region: PRK11195 561229002384 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 561229002385 putative substrate translocation pore; other site 561229002386 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229002387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229002388 Coenzyme A binding pocket [chemical binding]; other site 561229002389 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 561229002390 PAS domain; Region: PAS_9; pfam13426 561229002391 putative active site [active] 561229002392 heme pocket [chemical binding]; other site 561229002393 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 561229002394 PAS fold; Region: PAS_3; pfam08447 561229002395 putative active site [active] 561229002396 heme pocket [chemical binding]; other site 561229002397 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229002398 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229002399 metal binding site [ion binding]; metal-binding site 561229002400 active site 561229002401 I-site; other site 561229002402 HemN family oxidoreductase; Provisional; Region: PRK05660 561229002403 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 561229002404 FeS/SAM binding site; other site 561229002405 HemN C-terminal domain; Region: HemN_C; pfam06969 561229002406 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 561229002407 active site 561229002408 dimerization interface [polypeptide binding]; other site 561229002409 hypothetical protein; Validated; Region: PRK05090 561229002410 YGGT family; Region: YGGT; pfam02325 561229002411 YGGT family; Region: YGGT; pfam02325 561229002412 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 561229002413 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 561229002414 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 561229002415 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561229002416 catalytic residue [active] 561229002417 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 561229002418 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 561229002419 Walker A motif; other site 561229002420 ATP binding site [chemical binding]; other site 561229002421 Walker B motif; other site 561229002422 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 561229002423 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 561229002424 putative active site [active] 561229002425 heme pocket [chemical binding]; other site 561229002426 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 561229002427 putative active site [active] 561229002428 heme pocket [chemical binding]; other site 561229002429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229002430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229002431 metal binding site [ion binding]; metal-binding site 561229002432 active site 561229002433 I-site; other site 561229002434 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 561229002435 cytosine deaminase; Provisional; Region: PRK09230 561229002436 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 561229002437 active site 561229002438 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 561229002439 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229002440 dimer interface [polypeptide binding]; other site 561229002441 ligand binding site [chemical binding]; other site 561229002442 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 561229002443 dimerization interface [polypeptide binding]; other site 561229002444 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229002445 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002446 dimer interface [polypeptide binding]; other site 561229002447 putative CheW interface [polypeptide binding]; other site 561229002448 transcriptional repressor NsrR; Provisional; Region: PRK11014 561229002449 Rrf2 family protein; Region: rrf2_super; TIGR00738 561229002450 exoribonuclease R; Provisional; Region: PRK11642 561229002451 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 561229002452 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 561229002453 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 561229002454 RNB domain; Region: RNB; pfam00773 561229002455 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 561229002456 RNA binding site [nucleotide binding]; other site 561229002457 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 561229002458 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 561229002459 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561229002460 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229002461 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 561229002462 dimerization interface [polypeptide binding]; other site 561229002463 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002464 dimer interface [polypeptide binding]; other site 561229002465 putative CheW interface [polypeptide binding]; other site 561229002466 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 561229002467 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 561229002468 dimerization interface [polypeptide binding]; other site 561229002469 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229002470 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002471 dimer interface [polypeptide binding]; other site 561229002472 putative CheW interface [polypeptide binding]; other site 561229002473 esterase; Provisional; Region: PRK10566 561229002474 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229002475 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 561229002476 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 561229002477 dimer interface [polypeptide binding]; other site 561229002478 ssDNA binding site [nucleotide binding]; other site 561229002479 tetramer (dimer of dimers) interface [polypeptide binding]; other site 561229002480 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 561229002481 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 561229002482 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 561229002483 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 561229002484 Protein of unknown function, DUF488; Region: DUF488; cl01246 561229002485 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 561229002486 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 561229002487 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 561229002488 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 561229002489 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561229002490 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 561229002491 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 561229002492 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 561229002493 Hemerythrin-like domain; Region: Hr-like; cd12108 561229002494 Fe binding site [ion binding]; other site 561229002495 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 561229002496 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 561229002497 active site 561229002498 metal binding site [ion binding]; metal-binding site 561229002499 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561229002500 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 561229002501 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561229002502 active site 561229002503 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 561229002504 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 561229002505 Domain of unknown function DUF21; Region: DUF21; pfam01595 561229002506 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 561229002507 Transporter associated domain; Region: CorC_HlyC; smart01091 561229002508 methionine sulfoxide reductase A; Provisional; Region: PRK00058 561229002509 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 561229002510 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561229002511 Surface antigen; Region: Bac_surface_Ag; pfam01103 561229002512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 561229002513 Family of unknown function (DUF490); Region: DUF490; pfam04357 561229002514 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 561229002515 putative active site pocket [active] 561229002516 dimerization interface [polypeptide binding]; other site 561229002517 putative catalytic residue [active] 561229002518 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 561229002519 dimer interface [polypeptide binding]; other site 561229002520 substrate binding site [chemical binding]; other site 561229002521 metal binding sites [ion binding]; metal-binding site 561229002522 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 561229002523 dimerization interface [polypeptide binding]; other site 561229002524 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229002525 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002526 dimer interface [polypeptide binding]; other site 561229002527 putative CheW interface [polypeptide binding]; other site 561229002528 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 561229002529 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 561229002530 homooctamer interface [polypeptide binding]; other site 561229002531 active site 561229002532 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 561229002533 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 561229002534 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 561229002535 active site 561229002536 NTP binding site [chemical binding]; other site 561229002537 metal binding triad [ion binding]; metal-binding site 561229002538 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 561229002539 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561229002540 Zn2+ binding site [ion binding]; other site 561229002541 Mg2+ binding site [ion binding]; other site 561229002542 SH3 domain-containing protein; Provisional; Region: PRK10884 561229002543 Bacterial SH3 domain homologues; Region: SH3b; smart00287 561229002544 Uncharacterized conserved protein [Function unknown]; Region: COG3025 561229002545 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 561229002546 putative active site [active] 561229002547 putative metal binding residues [ion binding]; other site 561229002548 signature motif; other site 561229002549 putative triphosphate binding site [ion binding]; other site 561229002550 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 561229002551 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561229002552 metal binding triad; other site 561229002553 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561229002554 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561229002555 metal binding triad; other site 561229002556 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561229002557 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 561229002558 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 561229002559 putative ribose interaction site [chemical binding]; other site 561229002560 putative ADP binding site [chemical binding]; other site 561229002561 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 561229002562 active site 561229002563 nucleotide binding site [chemical binding]; other site 561229002564 HIGH motif; other site 561229002565 KMSKS motif; other site 561229002566 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 561229002567 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 561229002568 nucleotide binding pocket [chemical binding]; other site 561229002569 K-X-D-G motif; other site 561229002570 catalytic site [active] 561229002571 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 561229002572 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 561229002573 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 561229002574 Dimer interface [polypeptide binding]; other site 561229002575 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 561229002576 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 561229002577 PAS domain; Region: PAS_9; pfam13426 561229002578 putative active site [active] 561229002579 heme pocket [chemical binding]; other site 561229002580 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229002581 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229002582 dimer interface [polypeptide binding]; other site 561229002583 putative CheW interface [polypeptide binding]; other site 561229002584 galactarate dehydratase; Region: galactar-dH20; TIGR03248 561229002585 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 561229002586 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 561229002587 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 561229002588 D-galactonate transporter; Region: 2A0114; TIGR00893 561229002589 putative substrate translocation pore; other site 561229002590 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 561229002591 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 561229002592 active site 561229002593 tetramer interface [polypeptide binding]; other site 561229002594 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 561229002595 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 561229002596 active site 561229002597 tetramer interface [polypeptide binding]; other site 561229002598 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 561229002599 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 561229002600 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 561229002601 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 561229002602 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 561229002603 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 561229002604 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 561229002605 dimerization interface [polypeptide binding]; other site 561229002606 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 561229002607 dimer interface [polypeptide binding]; other site 561229002608 phosphorylation site [posttranslational modification] 561229002609 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 561229002610 ATP binding site [chemical binding]; other site 561229002611 Mg2+ binding site [ion binding]; other site 561229002612 G-X-G motif; other site 561229002613 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 561229002614 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 561229002615 active site 561229002616 phosphorylation site [posttranslational modification] 561229002617 intermolecular recognition site; other site 561229002618 dimerization interface [polypeptide binding]; other site 561229002619 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 561229002620 putative binding surface; other site 561229002621 active site 561229002622 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 561229002623 TRAM domain; Region: TRAM; pfam01938 561229002624 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 561229002625 S-adenosylmethionine binding site [chemical binding]; other site 561229002626 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 561229002627 HD domain; Region: HD_4; pfam13328 561229002628 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561229002629 synthetase active site [active] 561229002630 NTP binding site [chemical binding]; other site 561229002631 metal binding site [ion binding]; metal-binding site 561229002632 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 561229002633 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 561229002634 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 561229002635 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 561229002636 homodimer interface [polypeptide binding]; other site 561229002637 metal binding site [ion binding]; metal-binding site 561229002638 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 561229002639 homodimer interface [polypeptide binding]; other site 561229002640 active site 561229002641 putative chemical substrate binding site [chemical binding]; other site 561229002642 metal binding site [ion binding]; metal-binding site 561229002643 CTP synthetase; Validated; Region: pyrG; PRK05380 561229002644 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 561229002645 Catalytic site [active] 561229002646 active site 561229002647 UTP binding site [chemical binding]; other site 561229002648 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 561229002649 active site 561229002650 putative oxyanion hole; other site 561229002651 catalytic triad [active] 561229002652 enolase; Provisional; Region: eno; PRK00077 561229002653 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 561229002654 dimer interface [polypeptide binding]; other site 561229002655 metal binding site [ion binding]; metal-binding site 561229002656 substrate binding pocket [chemical binding]; other site 561229002657 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 561229002658 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561229002659 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 561229002660 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561229002661 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 561229002662 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 561229002663 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 561229002664 active site 561229002665 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 561229002666 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561229002667 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561229002668 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561229002669 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 561229002670 Flavodoxin; Region: Flavodoxin_1; pfam00258 561229002671 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 561229002672 FAD binding pocket [chemical binding]; other site 561229002673 FAD binding motif [chemical binding]; other site 561229002674 catalytic residues [active] 561229002675 NAD binding pocket [chemical binding]; other site 561229002676 phosphate binding motif [ion binding]; other site 561229002677 beta-alpha-beta structure motif; other site 561229002678 sulfite reductase subunit beta; Provisional; Region: PRK13504 561229002679 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561229002680 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561229002681 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 561229002682 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 561229002683 Active Sites [active] 561229002684 siroheme synthase; Provisional; Region: cysG; PRK10637 561229002685 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 561229002686 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 561229002687 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561229002688 active site 561229002689 SAM binding site [chemical binding]; other site 561229002690 homodimer interface [polypeptide binding]; other site 561229002691 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 561229002692 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 561229002693 Active Sites [active] 561229002694 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 561229002695 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 561229002696 CysD dimerization site [polypeptide binding]; other site 561229002697 G1 box; other site 561229002698 putative GEF interaction site [polypeptide binding]; other site 561229002699 GTP/Mg2+ binding site [chemical binding]; other site 561229002700 Switch I region; other site 561229002701 G2 box; other site 561229002702 G3 box; other site 561229002703 Switch II region; other site 561229002704 G4 box; other site 561229002705 G5 box; other site 561229002706 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 561229002707 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 561229002708 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 561229002709 ligand-binding site [chemical binding]; other site 561229002710 hypothetical protein; Provisional; Region: PRK10726 561229002711 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 561229002712 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 561229002713 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 561229002714 substrate binding site; other site 561229002715 dimer interface; other site 561229002716 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 561229002717 homotrimer interaction site [polypeptide binding]; other site 561229002718 zinc binding site [ion binding]; other site 561229002719 CDP-binding sites; other site 561229002720 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 561229002721 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 561229002722 Permutation of conserved domain; other site 561229002723 active site 561229002724 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 561229002725 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 561229002726 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 561229002727 S-adenosylmethionine binding site [chemical binding]; other site 561229002728 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 561229002729 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561229002730 Peptidase family M23; Region: Peptidase_M23; pfam01551 561229002731 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 561229002732 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 561229002733 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561229002734 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561229002735 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 561229002736 DNA binding residues [nucleotide binding] 561229002737 prolyl-tRNA synthetase; Provisional; Region: PRK09194 561229002738 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 561229002739 dimer interface [polypeptide binding]; other site 561229002740 motif 1; other site 561229002741 active site 561229002742 motif 2; other site 561229002743 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 561229002744 putative deacylase active site [active] 561229002745 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 561229002746 active site 561229002747 motif 3; other site 561229002748 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 561229002749 anticodon binding site; other site 561229002750 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 561229002751 homodimer interaction site [polypeptide binding]; other site 561229002752 cofactor binding site; other site 561229002753 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 561229002754 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 561229002755 lipoprotein, YaeC family; Region: TIGR00363 561229002756 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 561229002757 dimer interface [polypeptide binding]; other site 561229002758 conserved gate region; other site 561229002759 ABC-ATPase subunit interface; other site 561229002760 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561229002761 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561229002762 Walker A/P-loop; other site 561229002763 ATP binding site [chemical binding]; other site 561229002764 Q-loop/lid; other site 561229002765 ABC transporter signature motif; other site 561229002766 Walker B; other site 561229002767 D-loop; other site 561229002768 H-loop/switch region; other site 561229002769 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 561229002770 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 561229002771 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 561229002772 active site 561229002773 motif I; other site 561229002774 motif II; other site 561229002775 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 561229002776 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 561229002777 putative substrate translocation pore; other site 561229002778 lipoprotein; Provisional; Region: PRK10759 561229002779 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 561229002780 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 561229002781 domain interface [polypeptide binding]; other site 561229002782 putative active site [active] 561229002783 catalytic site [active] 561229002784 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 561229002785 domain interface [polypeptide binding]; other site 561229002786 putative active site [active] 561229002787 catalytic site [active] 561229002788 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 561229002789 CoA binding domain; Region: CoA_binding_2; pfam13380 561229002790 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 561229002791 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 561229002792 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561229002793 Uncharacterized conserved protein [Function unknown]; Region: COG3148 561229002794 thioredoxin 2; Provisional; Region: PRK10996 561229002795 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 561229002796 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 561229002797 catalytic residues [active] 561229002798 putative methyltransferase; Provisional; Region: PRK10864 561229002799 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 561229002800 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561229002801 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 561229002802 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 561229002803 putative substrate translocation pore; other site 561229002804 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 561229002805 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 561229002806 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229002807 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229002808 transcriptional repressor MprA; Provisional; Region: PRK10870 561229002809 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229002810 putative L-valine exporter; Provisional; Region: PRK10408 561229002811 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 561229002812 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561229002813 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 561229002814 putative substrate translocation pore; other site 561229002815 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 561229002816 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 561229002817 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 561229002818 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 561229002819 dimer interface [polypeptide binding]; other site 561229002820 conserved gate region; other site 561229002821 putative PBP binding loops; other site 561229002822 ABC-ATPase subunit interface; other site 561229002823 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 561229002824 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 561229002825 Walker A/P-loop; other site 561229002826 ATP binding site [chemical binding]; other site 561229002827 Q-loop/lid; other site 561229002828 ABC transporter signature motif; other site 561229002829 Walker B; other site 561229002830 D-loop; other site 561229002831 H-loop/switch region; other site 561229002832 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 561229002833 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 561229002834 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 561229002835 Na binding site [ion binding]; other site 561229002836 putative substrate binding site [chemical binding]; other site 561229002837 Transcriptional regulators [Transcription]; Region: FadR; COG2186 561229002838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229002839 DNA-binding site [nucleotide binding]; DNA binding site 561229002840 FCD domain; Region: FCD; pfam07729 561229002841 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 561229002842 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 561229002843 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 561229002844 active site 561229002845 catalytic site [active] 561229002846 tetramer interface [polypeptide binding]; other site 561229002847 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 561229002848 HipA-like N-terminal domain; Region: HipA_N; pfam07805 561229002849 HipA-like C-terminal domain; Region: HipA_C; pfam07804 561229002850 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 561229002851 non-specific DNA binding site [nucleotide binding]; other site 561229002852 salt bridge; other site 561229002853 sequence-specific DNA binding site [nucleotide binding]; other site 561229002854 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 561229002855 SnoaL-like domain; Region: SnoaL_3; pfam13474 561229002856 amidase; Provisional; Region: PRK09201 561229002857 Amidase; Region: Amidase; cl11426 561229002858 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 561229002859 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 561229002860 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 561229002861 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561229002862 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561229002863 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 561229002864 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229002865 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 561229002866 substrate binding pocket [chemical binding]; other site 561229002867 membrane-bound complex binding site; other site 561229002868 hinge residues; other site 561229002869 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 561229002870 dimer interface [polypeptide binding]; other site 561229002871 conserved gate region; other site 561229002872 putative PBP binding loops; other site 561229002873 ABC-ATPase subunit interface; other site 561229002874 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 561229002875 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229002876 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 561229002877 ABC-ATPase subunit interface; other site 561229002878 putative PBP binding loops; other site 561229002879 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229002880 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229002881 Walker A/P-loop; other site 561229002882 ATP binding site [chemical binding]; other site 561229002883 Q-loop/lid; other site 561229002884 ABC transporter signature motif; other site 561229002885 Walker B; other site 561229002886 D-loop; other site 561229002887 H-loop/switch region; other site 561229002888 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 561229002889 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229002890 catalytic residue [active] 561229002891 allantoate amidohydrolase; Reviewed; Region: PRK09290 561229002892 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 561229002893 active site 561229002894 metal binding site [ion binding]; metal-binding site 561229002895 dimer interface [polypeptide binding]; other site 561229002896 C-N hydrolase family amidase; Provisional; Region: PRK10438 561229002897 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 561229002898 putative active site [active] 561229002899 catalytic triad [active] 561229002900 dimer interface [polypeptide binding]; other site 561229002901 multimer interface [polypeptide binding]; other site 561229002902 methionine aminotransferase; Validated; Region: PRK09082 561229002903 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 561229002904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229002905 homodimer interface [polypeptide binding]; other site 561229002906 catalytic residue [active] 561229002907 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 561229002908 intersubunit interface [polypeptide binding]; other site 561229002909 active site 561229002910 Zn2+ binding site [ion binding]; other site 561229002911 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 561229002912 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 561229002913 Cupin domain; Region: Cupin_2; cl17218 561229002914 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 561229002915 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 561229002916 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 561229002917 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 561229002918 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 561229002919 active site 561229002920 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 561229002921 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 561229002922 active site 561229002923 dimer interface [polypeptide binding]; other site 561229002924 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 561229002925 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 561229002926 putative active site [active] 561229002927 putative dimer interface [polypeptide binding]; other site 561229002928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 561229002929 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561229002930 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 561229002931 active site 561229002932 DNA polymerase IV; Validated; Region: PRK02406 561229002933 DNA binding site [nucleotide binding] 561229002934 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 561229002935 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 561229002936 metal binding site [ion binding]; metal-binding site 561229002937 dimer interface [polypeptide binding]; other site 561229002938 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229002939 active site 561229002940 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 561229002941 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 561229002942 gamma-glutamyl kinase; Provisional; Region: PRK05429 561229002943 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 561229002944 nucleotide binding site [chemical binding]; other site 561229002945 homotetrameric interface [polypeptide binding]; other site 561229002946 putative phosphate binding site [ion binding]; other site 561229002947 putative allosteric binding site; other site 561229002948 PUA domain; Region: PUA; pfam01472 561229002949 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 561229002950 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 561229002951 putative catalytic cysteine [active] 561229002952 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 561229002953 non-specific DNA binding site [nucleotide binding]; other site 561229002954 salt bridge; other site 561229002955 sequence-specific DNA binding site [nucleotide binding]; other site 561229002956 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 561229002957 sequence-specific DNA binding site [nucleotide binding]; other site 561229002958 salt bridge; other site 561229002959 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229002960 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 561229002961 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 561229002962 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 561229002963 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 561229002964 CT1975-like protein; Region: Cas_CT1975; pfam09344 561229002965 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 561229002966 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 561229002967 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 561229002968 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 561229002969 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 561229002970 WYL domain; Region: WYL; pfam13280 561229002971 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 561229002972 non-specific DNA binding site [nucleotide binding]; other site 561229002973 salt bridge; other site 561229002974 sequence-specific DNA binding site [nucleotide binding]; other site 561229002975 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 561229002976 Helix-turn-helix domain; Region: HTH_17; pfam12728 561229002977 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 561229002978 active site 561229002979 DNA binding site [nucleotide binding] 561229002980 Int/Topo IB signature motif; other site 561229002981 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 561229002982 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 561229002983 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 561229002984 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561229002985 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 561229002986 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 561229002987 S-adenosylmethionine binding site [chemical binding]; other site 561229002988 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 561229002989 AAA domain; Region: AAA_13; pfam13166 561229002990 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 561229002991 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 561229002992 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 561229002993 ATP binding site [chemical binding]; other site 561229002994 putative Mg++ binding site [ion binding]; other site 561229002995 Predicted GTPase [General function prediction only]; Region: COG3596 561229002996 YfjP GTPase; Region: YfjP; cd11383 561229002997 G1 box; other site 561229002998 GTP/Mg2+ binding site [chemical binding]; other site 561229002999 Switch I region; other site 561229003000 G2 box; other site 561229003001 Switch II region; other site 561229003002 G3 box; other site 561229003003 G4 box; other site 561229003004 G5 box; other site 561229003005 Domain of unknown function (DUF932); Region: DUF932; pfam06067 561229003006 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561229003007 MPN+ (JAMM) motif; other site 561229003008 Zinc-binding site [ion binding]; other site 561229003009 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 561229003010 Macro domain, Poa1p_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 ADP-ribose...; Region: Macro_Poa1p_like; cd02901 561229003011 ADP-ribose binding site [chemical binding]; other site 561229003012 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 561229003013 LysR family transcriptional regulator; Provisional; Region: PRK14997 561229003014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229003015 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229003016 putative effector binding pocket; other site 561229003017 dimerization interface [polypeptide binding]; other site 561229003018 Predicted transcriptional regulator [Transcription]; Region: COG1959 561229003019 Transcriptional regulator; Region: Rrf2; pfam02082 561229003020 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 561229003021 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 561229003022 Pirin-related protein [General function prediction only]; Region: COG1741 561229003023 Pirin; Region: Pirin; pfam02678 561229003024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 561229003025 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 561229003026 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 561229003027 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561229003028 Sel1 repeat; Region: Sel1; pfam08238 561229003029 Sel1-like repeats; Region: SEL1; smart00671 561229003030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229003031 Helix-turn-helix domain; Region: HTH_18; pfam12833 561229003032 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 561229003033 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 561229003034 DNA binding site [nucleotide binding] 561229003035 active site 561229003036 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 561229003037 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 561229003038 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 561229003039 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 561229003040 acyl-activating enzyme (AAE) consensus motif; other site 561229003041 AMP binding site [chemical binding]; other site 561229003042 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 561229003043 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 561229003044 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 561229003045 conserved cys residue [active] 561229003046 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 561229003047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229003048 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229003049 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 561229003050 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 561229003051 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561229003052 YCII-related domain; Region: YCII; cl00999 561229003053 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561229003054 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561229003055 GAF domain; Region: GAF; pfam01590 561229003056 Histidine kinase; Region: His_kinase; pfam06580 561229003057 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 561229003058 ATP binding site [chemical binding]; other site 561229003059 Mg2+ binding site [ion binding]; other site 561229003060 G-X-G motif; other site 561229003061 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 561229003062 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 561229003063 active site 561229003064 phosphorylation site [posttranslational modification] 561229003065 intermolecular recognition site; other site 561229003066 dimerization interface [polypeptide binding]; other site 561229003067 LytTr DNA-binding domain; Region: LytTR; pfam04397 561229003068 carbon starvation protein A; Provisional; Region: PRK15015 561229003069 Carbon starvation protein CstA; Region: CstA; pfam02554 561229003070 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 561229003071 Uncharacterized small protein [Function unknown]; Region: COG2879 561229003072 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 561229003073 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 561229003074 P-loop, Walker A motif; other site 561229003075 Base recognition motif; other site 561229003076 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 561229003077 transcriptional regulator EutR; Provisional; Region: PRK10130 561229003078 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 561229003079 putative catalytic cysteine [active] 561229003080 Peptidase family C69; Region: Peptidase_C69; cl17793 561229003081 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 561229003082 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 561229003083 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229003084 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229003085 TM-ABC transporter signature motif; other site 561229003086 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229003087 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229003088 TM-ABC transporter signature motif; other site 561229003089 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561229003090 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229003091 Walker A/P-loop; other site 561229003092 ATP binding site [chemical binding]; other site 561229003093 Q-loop/lid; other site 561229003094 ABC transporter signature motif; other site 561229003095 Walker B; other site 561229003096 D-loop; other site 561229003097 H-loop/switch region; other site 561229003098 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229003099 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 561229003100 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561229003101 putative ligand binding site [chemical binding]; other site 561229003102 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 561229003103 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 561229003104 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561229003105 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 561229003106 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 561229003107 tetramer interface [polypeptide binding]; other site 561229003108 heme binding pocket [chemical binding]; other site 561229003109 acetoin reductase; Validated; Region: PRK08643 561229003110 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 561229003111 NAD binding site [chemical binding]; other site 561229003112 homotetramer interface [polypeptide binding]; other site 561229003113 homodimer interface [polypeptide binding]; other site 561229003114 active site 561229003115 substrate binding site [chemical binding]; other site 561229003116 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561229003117 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 561229003118 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 561229003119 putative hydrophobic ligand binding site [chemical binding]; other site 561229003120 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229003121 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561229003122 hypothetical protein; Validated; Region: PRK03661 561229003123 recombinase A; Provisional; Region: recA; PRK09354 561229003124 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 561229003125 hexamer interface [polypeptide binding]; other site 561229003126 Walker A motif; other site 561229003127 ATP binding site [chemical binding]; other site 561229003128 Walker B motif; other site 561229003129 recombination regulator RecX; Reviewed; Region: recX; PRK00117 561229003130 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 561229003131 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 561229003132 motif 1; other site 561229003133 active site 561229003134 motif 2; other site 561229003135 motif 3; other site 561229003136 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 561229003137 DHHA1 domain; Region: DHHA1; pfam02272 561229003138 carbon storage regulator; Provisional; Region: PRK01712 561229003139 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 561229003140 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 561229003141 motif II; other site 561229003142 Predicted membrane protein [Function unknown]; Region: COG1238 561229003143 glutamate--cysteine ligase; Provisional; Region: PRK02107 561229003144 S-ribosylhomocysteinase; Provisional; Region: PRK02260 561229003145 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 561229003146 signal recognition particle protein; Provisional; Region: PRK10867 561229003147 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 561229003148 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 561229003149 P loop; other site 561229003150 GTP binding site [chemical binding]; other site 561229003151 Signal peptide binding domain; Region: SRP_SPB; pfam02978 561229003152 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 561229003153 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 561229003154 RimM N-terminal domain; Region: RimM; pfam01782 561229003155 PRC-barrel domain; Region: PRC; pfam05239 561229003156 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 561229003157 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 561229003158 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 561229003159 lipoprotein; Provisional; Region: PRK11443 561229003160 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 561229003161 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 561229003162 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561229003163 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 561229003164 Chorismate mutase type II; Region: CM_2; cl00693 561229003165 prephenate dehydrogenase; Validated; Region: PRK08507 561229003166 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 561229003167 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 561229003168 Prephenate dehydratase; Region: PDT; pfam00800 561229003169 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 561229003170 putative L-Phe binding site [chemical binding]; other site 561229003171 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 561229003172 30S subunit binding site; other site 561229003173 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 561229003174 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 561229003175 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 561229003176 RNA binding surface [nucleotide binding]; other site 561229003177 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561229003178 active site 561229003179 hypothetical protein; Provisional; Region: PRK10723 561229003180 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 561229003181 protein disaggregation chaperone; Provisional; Region: PRK10865 561229003182 Clp amino terminal domain; Region: Clp_N; pfam02861 561229003183 Clp amino terminal domain; Region: Clp_N; pfam02861 561229003184 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 561229003185 Walker A motif; other site 561229003186 ATP binding site [chemical binding]; other site 561229003187 Walker B motif; other site 561229003188 arginine finger; other site 561229003189 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 561229003190 Walker A motif; other site 561229003191 ATP binding site [chemical binding]; other site 561229003192 Walker B motif; other site 561229003193 arginine finger; other site 561229003194 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 561229003195 hypothetical protein; Provisional; Region: PRK05421 561229003196 putative catalytic site [active] 561229003197 putative metal binding site [ion binding]; other site 561229003198 putative phosphate binding site [ion binding]; other site 561229003199 putative catalytic site [active] 561229003200 putative phosphate binding site [ion binding]; other site 561229003201 putative metal binding site [ion binding]; other site 561229003202 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 561229003203 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 561229003204 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229003205 catalytic residue [active] 561229003206 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561229003207 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561229003208 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 561229003209 Methyltransferase domain; Region: Methyltransf_11; pfam08241 561229003210 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 561229003211 RNA/DNA hybrid binding site [nucleotide binding]; other site 561229003212 active site 561229003213 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 561229003214 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 561229003215 active site 561229003216 catalytic site [active] 561229003217 substrate binding site [chemical binding]; other site 561229003218 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 561229003219 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 561229003220 dimer interface [polypeptide binding]; other site 561229003221 putative radical transfer pathway; other site 561229003222 diiron center [ion binding]; other site 561229003223 tyrosyl radical; other site 561229003224 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 561229003225 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 561229003226 Class I ribonucleotide reductase; Region: RNR_I; cd01679 561229003227 active site 561229003228 dimer interface [polypeptide binding]; other site 561229003229 catalytic residues [active] 561229003230 effector binding site; other site 561229003231 R2 peptide binding site; other site 561229003232 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 561229003233 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 561229003234 catalytic residues [active] 561229003235 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 561229003236 spermidine synthase; Provisional; Region: PRK00811 561229003237 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 561229003238 S-adenosylmethionine binding site [chemical binding]; other site 561229003239 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 561229003240 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561229003241 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 561229003242 dimer interface [polypeptide binding]; other site 561229003243 conserved gate region; other site 561229003244 putative PBP binding loops; other site 561229003245 ABC-ATPase subunit interface; other site 561229003246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 561229003247 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561229003248 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561229003249 Walker A/P-loop; other site 561229003250 ATP binding site [chemical binding]; other site 561229003251 Q-loop/lid; other site 561229003252 ABC transporter signature motif; other site 561229003253 Walker B; other site 561229003254 D-loop; other site 561229003255 H-loop/switch region; other site 561229003256 TOBE domain; Region: TOBE_2; pfam08402 561229003257 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229003258 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229003259 Coenzyme A binding pocket [chemical binding]; other site 561229003260 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229003261 active site 561229003262 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 561229003263 active site clefts [active] 561229003264 zinc binding site [ion binding]; other site 561229003265 dimer interface [polypeptide binding]; other site 561229003266 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 561229003267 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561229003268 Walker A/P-loop; other site 561229003269 ATP binding site [chemical binding]; other site 561229003270 Q-loop/lid; other site 561229003271 ABC transporter signature motif; other site 561229003272 Walker B; other site 561229003273 D-loop; other site 561229003274 H-loop/switch region; other site 561229003275 inner membrane transport permease; Provisional; Region: PRK15066 561229003276 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561229003277 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 561229003278 tetramerization interface [polypeptide binding]; other site 561229003279 active site 561229003280 Pantoate-beta-alanine ligase; Region: PanC; cd00560 561229003281 pantoate--beta-alanine ligase; Region: panC; TIGR00018 561229003282 active site 561229003283 ATP-binding site [chemical binding]; other site 561229003284 pantoate-binding site; other site 561229003285 HXXH motif; other site 561229003286 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 561229003287 oligomerization interface [polypeptide binding]; other site 561229003288 active site 561229003289 metal binding site [ion binding]; metal-binding site 561229003290 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 561229003291 catalytic center binding site [active] 561229003292 ATP binding site [chemical binding]; other site 561229003293 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 561229003294 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 561229003295 active site 561229003296 HIGH motif; other site 561229003297 nucleotide binding site [chemical binding]; other site 561229003298 KMSKS motif; other site 561229003299 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 561229003300 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 561229003301 2'-5' RNA ligase; Provisional; Region: PRK15124 561229003302 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 561229003303 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 561229003304 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 561229003305 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 561229003306 ATP binding site [chemical binding]; other site 561229003307 putative Mg++ binding site [ion binding]; other site 561229003308 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 561229003309 nucleotide binding region [chemical binding]; other site 561229003310 ATP-binding site [chemical binding]; other site 561229003311 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 561229003312 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 561229003313 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 561229003314 Transglycosylase; Region: Transgly; pfam00912 561229003315 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 561229003316 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 561229003317 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 561229003318 inhibitor-cofactor binding pocket; inhibition site 561229003319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229003320 catalytic residue [active] 561229003321 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 561229003322 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 561229003323 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 561229003324 cobalamin binding residues [chemical binding]; other site 561229003325 putative BtuC binding residues; other site 561229003326 dimer interface [polypeptide binding]; other site 561229003327 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 561229003328 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 561229003329 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 561229003330 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561229003331 Zn2+ binding site [ion binding]; other site 561229003332 Mg2+ binding site [ion binding]; other site 561229003333 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 561229003334 serine endoprotease; Provisional; Region: PRK10942 561229003335 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561229003336 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 561229003337 protein binding site [polypeptide binding]; other site 561229003338 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 561229003339 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 561229003340 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 561229003341 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 561229003342 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 561229003343 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 561229003344 substrate binding pocket [chemical binding]; other site 561229003345 membrane-bound complex binding site; other site 561229003346 hinge residues; other site 561229003347 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561229003348 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 561229003349 dimer interface [polypeptide binding]; other site 561229003350 conserved gate region; other site 561229003351 putative PBP binding loops; other site 561229003352 ABC-ATPase subunit interface; other site 561229003353 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561229003354 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 561229003355 dimer interface [polypeptide binding]; other site 561229003356 conserved gate region; other site 561229003357 putative PBP binding loops; other site 561229003358 ABC-ATPase subunit interface; other site 561229003359 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 561229003360 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 561229003361 Walker A/P-loop; other site 561229003362 ATP binding site [chemical binding]; other site 561229003363 Q-loop/lid; other site 561229003364 ABC transporter signature motif; other site 561229003365 Walker B; other site 561229003366 D-loop; other site 561229003367 H-loop/switch region; other site 561229003368 TOBE-like domain; Region: TOBE_3; pfam12857 561229003369 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 561229003370 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 561229003371 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 561229003372 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 561229003373 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229003374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229003375 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 561229003376 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561229003377 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229003378 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 561229003379 active site 561229003380 P-loop; other site 561229003381 phosphorylation site [posttranslational modification] 561229003382 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 561229003383 methionine cluster; other site 561229003384 active site 561229003385 phosphorylation site [posttranslational modification] 561229003386 metal binding site [ion binding]; metal-binding site 561229003387 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 561229003388 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 561229003389 active site 561229003390 HIGH motif; other site 561229003391 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 561229003392 active site 561229003393 KMSKS motif; other site 561229003394 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 561229003395 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 561229003396 homodimer interface [polypeptide binding]; other site 561229003397 substrate-cofactor binding pocket; other site 561229003398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229003399 catalytic residue [active] 561229003400 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 561229003401 ligand binding site [chemical binding]; other site 561229003402 active site 561229003403 UGI interface [polypeptide binding]; other site 561229003404 catalytic site [active] 561229003405 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 561229003406 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 561229003407 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 561229003408 ATP binding site [chemical binding]; other site 561229003409 Mg++ binding site [ion binding]; other site 561229003410 motif III; other site 561229003411 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 561229003412 nucleotide binding region [chemical binding]; other site 561229003413 ATP-binding site [chemical binding]; other site 561229003414 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 561229003415 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 561229003416 S-adenosylmethionine binding site [chemical binding]; other site 561229003417 L-aspartate oxidase; Provisional; Region: PRK09077 561229003418 L-aspartate oxidase; Provisional; Region: PRK06175 561229003419 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561229003420 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 561229003421 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561229003422 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 561229003423 DNA binding residues [nucleotide binding] 561229003424 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 561229003425 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 561229003426 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 561229003427 anti-sigma E factor; Provisional; Region: rseB; PRK09455 561229003428 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 561229003429 SoxR reducing system protein RseC; Provisional; Region: PRK10862 561229003430 GTP-binding protein LepA; Provisional; Region: PRK05433 561229003431 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 561229003432 G1 box; other site 561229003433 putative GEF interaction site [polypeptide binding]; other site 561229003434 GTP/Mg2+ binding site [chemical binding]; other site 561229003435 Switch I region; other site 561229003436 G2 box; other site 561229003437 G3 box; other site 561229003438 Switch II region; other site 561229003439 G4 box; other site 561229003440 G5 box; other site 561229003441 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 561229003442 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 561229003443 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 561229003444 signal peptidase I; Provisional; Region: PRK10861 561229003445 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 561229003446 Catalytic site [active] 561229003447 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 561229003448 ribonuclease III; Reviewed; Region: rnc; PRK00102 561229003449 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 561229003450 dimerization interface [polypeptide binding]; other site 561229003451 active site 561229003452 metal binding site [ion binding]; metal-binding site 561229003453 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 561229003454 dsRNA binding site [nucleotide binding]; other site 561229003455 GTPase Era; Reviewed; Region: era; PRK00089 561229003456 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 561229003457 G1 box; other site 561229003458 GTP/Mg2+ binding site [chemical binding]; other site 561229003459 Switch I region; other site 561229003460 G2 box; other site 561229003461 Switch II region; other site 561229003462 G3 box; other site 561229003463 G4 box; other site 561229003464 G5 box; other site 561229003465 KH domain; Region: KH_2; pfam07650 561229003466 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 561229003467 Recombination protein O N terminal; Region: RecO_N; pfam11967 561229003468 Recombination protein O C terminal; Region: RecO_C; pfam02565 561229003469 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 561229003470 active site 561229003471 hydrophilic channel; other site 561229003472 dimerization interface [polypeptide binding]; other site 561229003473 catalytic residues [active] 561229003474 active site lid [active] 561229003475 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 561229003476 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 561229003477 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 561229003478 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 561229003479 PAS domain; Region: PAS_9; pfam13426 561229003480 putative active site [active] 561229003481 heme pocket [chemical binding]; other site 561229003482 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561229003483 GAF domain; Region: GAF; pfam01590 561229003484 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229003485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229003486 metal binding site [ion binding]; metal-binding site 561229003487 active site 561229003488 I-site; other site 561229003489 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 561229003490 carboxyltransferase (CT) interaction site; other site 561229003491 biotinylation site [posttranslational modification]; other site 561229003492 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229003493 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 561229003494 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 561229003495 putative active site [active] 561229003496 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561229003497 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 561229003498 Walker A/P-loop; other site 561229003499 ATP binding site [chemical binding]; other site 561229003500 Q-loop/lid; other site 561229003501 ABC transporter signature motif; other site 561229003502 Walker B; other site 561229003503 D-loop; other site 561229003504 H-loop/switch region; other site 561229003505 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 561229003506 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 561229003507 putative active site [active] 561229003508 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 561229003509 nucleoside/Zn binding site; other site 561229003510 dimer interface [polypeptide binding]; other site 561229003511 catalytic motif [active] 561229003512 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 561229003513 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 561229003514 substrate binding pocket [chemical binding]; other site 561229003515 membrane-bound complex binding site; other site 561229003516 hinge residues; other site 561229003517 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 561229003518 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229003519 catalytic residue [active] 561229003520 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 561229003521 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 561229003522 dimerization interface [polypeptide binding]; other site 561229003523 ATP binding site [chemical binding]; other site 561229003524 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 561229003525 dimerization interface [polypeptide binding]; other site 561229003526 ATP binding site [chemical binding]; other site 561229003527 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 561229003528 putative active site [active] 561229003529 catalytic triad [active] 561229003530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561229003531 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 561229003532 dimer interface [polypeptide binding]; other site 561229003533 phosphorylation site [posttranslational modification] 561229003534 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 561229003535 ATP binding site [chemical binding]; other site 561229003536 Mg2+ binding site [ion binding]; other site 561229003537 G-X-G motif; other site 561229003538 hypothetical protein; Provisional; Region: PRK10722 561229003539 response regulator GlrR; Provisional; Region: PRK15115 561229003540 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 561229003541 active site 561229003542 phosphorylation site [posttranslational modification] 561229003543 intermolecular recognition site; other site 561229003544 dimerization interface [polypeptide binding]; other site 561229003545 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 561229003546 Walker A motif; other site 561229003547 ATP binding site [chemical binding]; other site 561229003548 Walker B motif; other site 561229003549 arginine finger; other site 561229003550 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 561229003551 Nitrogen regulatory protein P-II; Region: P-II; smart00938 561229003552 Pectinesterase; Region: Pectinesterase; pfam01095 561229003553 putative pectinesterase; Region: PLN02432; cl01911 561229003554 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 561229003555 active site 561229003556 catalytic triad [active] 561229003557 oxyanion hole [active] 561229003558 Pectate lyase; Region: Pec_lyase_C; pfam00544 561229003559 Pectate lyase; Region: Pec_lyase_C; pfam00544 561229003560 Pectate lyase; Region: Pec_lyase_C; pfam00544 561229003561 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 561229003562 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 561229003563 heme-binding site [chemical binding]; other site 561229003564 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 561229003565 FAD binding pocket [chemical binding]; other site 561229003566 FAD binding motif [chemical binding]; other site 561229003567 phosphate binding motif [ion binding]; other site 561229003568 beta-alpha-beta structure motif; other site 561229003569 NAD binding pocket [chemical binding]; other site 561229003570 Heme binding pocket [chemical binding]; other site 561229003571 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 561229003572 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 561229003573 dimer interface [polypeptide binding]; other site 561229003574 active site 561229003575 glycine-pyridoxal phosphate binding site [chemical binding]; other site 561229003576 folate binding site [chemical binding]; other site 561229003577 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 561229003578 MFS_1 like family; Region: MFS_1_like; pfam12832 561229003579 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 561229003580 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 561229003581 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561229003582 Periplasmic binding protein TroA_f. 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_f; cd01139 561229003583 putative ligand binding residues [chemical binding]; other site 561229003584 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561229003585 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561229003586 Walker A/P-loop; other site 561229003587 ATP binding site [chemical binding]; other site 561229003588 Q-loop/lid; other site 561229003589 ABC transporter signature motif; other site 561229003590 Walker B; other site 561229003591 D-loop; other site 561229003592 H-loop/switch region; other site 561229003593 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561229003594 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 561229003595 dimer interface [polypeptide binding]; other site 561229003596 putative PBP binding regions; other site 561229003597 ABC-ATPase subunit interface; other site 561229003598 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 561229003599 intersubunit interface [polypeptide binding]; other site 561229003600 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561229003601 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 561229003602 active site 561229003603 dimerization interface [polypeptide binding]; other site 561229003604 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 561229003605 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561229003606 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 561229003607 Rrf2 family protein; Region: rrf2_super; TIGR00738 561229003608 cysteine desulfurase; Provisional; Region: PRK14012 561229003609 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 561229003610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229003611 catalytic residue [active] 561229003612 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 561229003613 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 561229003614 trimerization site [polypeptide binding]; other site 561229003615 active site 561229003616 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 561229003617 co-chaperone HscB; Provisional; Region: hscB; PRK05014 561229003618 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 561229003619 HSP70 interaction site [polypeptide binding]; other site 561229003620 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 561229003621 chaperone protein HscA; Provisional; Region: hscA; PRK05183 561229003622 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 561229003623 nucleotide binding site [chemical binding]; other site 561229003624 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561229003625 SBD interface [polypeptide binding]; other site 561229003626 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561229003627 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229003628 catalytic loop [active] 561229003629 iron binding site [ion binding]; other site 561229003630 hypothetical protein; Provisional; Region: PRK10721 561229003631 aminopeptidase B; Provisional; Region: PRK05015 561229003632 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 561229003633 interface (dimer of trimers) [polypeptide binding]; other site 561229003634 Substrate-binding/catalytic site; other site 561229003635 Zn-binding sites [ion binding]; other site 561229003636 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 561229003637 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 561229003638 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 561229003639 active site residue [active] 561229003640 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 561229003641 active site residue [active] 561229003642 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 561229003643 active site 561229003644 multimer interface [polypeptide binding]; other site 561229003645 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 561229003646 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 561229003647 FeS/SAM binding site; other site 561229003648 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 561229003649 binding surface 561229003650 Tetratricopeptide repeat; Region: TPR_16; pfam13432 561229003651 TPR motif; other site 561229003652 cytoskeletal protein RodZ; Provisional; Region: PRK10856 561229003653 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 561229003654 non-specific DNA binding site [nucleotide binding]; other site 561229003655 salt bridge; other site 561229003656 sequence-specific DNA binding site [nucleotide binding]; other site 561229003657 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 561229003658 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 561229003659 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 561229003660 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 561229003661 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 561229003662 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 561229003663 dimer interface [polypeptide binding]; other site 561229003664 motif 1; other site 561229003665 active site 561229003666 motif 2; other site 561229003667 motif 3; other site 561229003668 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 561229003669 anticodon binding site; other site 561229003670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 561229003671 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 561229003672 binding surface 561229003673 TPR motif; other site 561229003674 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 561229003675 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 561229003676 Trp docking motif [polypeptide binding]; other site 561229003677 GTP-binding protein Der; Reviewed; Region: PRK00093 561229003678 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 561229003679 G1 box; other site 561229003680 GTP/Mg2+ binding site [chemical binding]; other site 561229003681 Switch I region; other site 561229003682 G2 box; other site 561229003683 Switch II region; other site 561229003684 G3 box; other site 561229003685 G4 box; other site 561229003686 G5 box; other site 561229003687 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 561229003688 G1 box; other site 561229003689 GTP/Mg2+ binding site [chemical binding]; other site 561229003690 Switch I region; other site 561229003691 G2 box; other site 561229003692 G3 box; other site 561229003693 Switch II region; other site 561229003694 G4 box; other site 561229003695 G5 box; other site 561229003696 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 561229003697 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 561229003698 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 561229003699 active site 561229003700 Zn binding site [ion binding]; other site 561229003701 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 561229003702 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 561229003703 generic binding surface II; other site 561229003704 generic binding surface I; other site 561229003705 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 561229003706 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 561229003707 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 561229003708 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 561229003709 active site 561229003710 GMP synthase; Reviewed; Region: guaA; PRK00074 561229003711 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 561229003712 AMP/PPi binding site [chemical binding]; other site 561229003713 candidate oxyanion hole; other site 561229003714 catalytic triad [active] 561229003715 potential glutamine specificity residues [chemical binding]; other site 561229003716 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 561229003717 ATP Binding subdomain [chemical binding]; other site 561229003718 Ligand Binding sites [chemical binding]; other site 561229003719 Dimerization subdomain; other site 561229003720 integrase; Provisional; Region: PRK09692 561229003721 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561229003722 active site 561229003723 Int/Topo IB signature motif; other site 561229003724 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 561229003725 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 561229003726 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561229003727 MPN+ (JAMM) motif; other site 561229003728 Zinc-binding site [ion binding]; other site 561229003729 Uncharacterized conserved protein [Function unknown]; Region: COG5489 561229003730 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 561229003731 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 561229003732 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 561229003733 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229003734 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229003735 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229003736 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 561229003737 Helix-turn-helix domain; Region: HTH_17; cl17695 561229003738 Replication initiator protein A; Region: RPA; pfam10134 561229003739 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 561229003740 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 561229003741 conjugal transfer protein TrbL; Provisional; Region: PRK13875 561229003742 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 561229003743 conjugal transfer protein TrbF; Provisional; Region: PRK13872 561229003744 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 561229003745 VirB7 interaction site; other site 561229003746 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 561229003747 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561229003748 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561229003749 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561229003750 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229003751 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 561229003752 non-specific DNA binding site [nucleotide binding]; other site 561229003753 salt bridge; other site 561229003754 sequence-specific DNA binding site [nucleotide binding]; other site 561229003755 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229003756 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 561229003757 non-specific DNA binding site [nucleotide binding]; other site 561229003758 salt bridge; other site 561229003759 sequence-specific DNA binding site [nucleotide binding]; other site 561229003760 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229003761 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561229003762 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561229003763 PAAR motif; Region: PAAR_motif; pfam05488 561229003764 RHS Repeat; Region: RHS_repeat; pfam05593 561229003765 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561229003766 RHS Repeat; Region: RHS_repeat; pfam05593 561229003767 RHS Repeat; Region: RHS_repeat; pfam05593 561229003768 RHS Repeat; Region: RHS_repeat; cl11982 561229003769 RHS Repeat; Region: RHS_repeat; pfam05593 561229003770 RHS Repeat; Region: RHS_repeat; pfam05593 561229003771 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561229003772 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 561229003773 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561229003774 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561229003775 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561229003776 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561229003777 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229003778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229003779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229003780 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 561229003781 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 561229003782 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 561229003783 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 561229003784 active site 561229003785 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229003786 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 561229003787 putative DNA binding site [nucleotide binding]; other site 561229003788 dimerization interface [polypeptide binding]; other site 561229003789 putative Zn2+ binding site [ion binding]; other site 561229003790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229003791 NmrA-like family; Region: NmrA; pfam05368 561229003792 NAD(P) binding site [chemical binding]; other site 561229003793 active site 561229003794 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 561229003795 active site clefts [active] 561229003796 zinc binding site [ion binding]; other site 561229003797 dimer interface [polypeptide binding]; other site 561229003798 Protein of unknown function (DUF523); Region: DUF523; pfam04463 561229003799 Uncharacterized conserved protein [Function unknown]; Region: COG3272 561229003800 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 561229003801 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 561229003802 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 561229003803 S-adenosylmethionine binding site [chemical binding]; other site 561229003804 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 561229003805 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 561229003806 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 561229003807 short chain dehydrogenase; Provisional; Region: PRK06101 561229003808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229003809 NAD(P) binding site [chemical binding]; other site 561229003810 active site 561229003811 SnoaL-like domain; Region: SnoaL_2; pfam12680 561229003812 transcriptional regulator MirA; Provisional; Region: PRK15043 561229003813 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 561229003814 DNA binding residues [nucleotide binding] 561229003815 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 561229003816 Protein of unknown function (DUF969); Region: DUF969; pfam06149 561229003817 Predicted membrane protein [Function unknown]; Region: COG3817 561229003818 Protein of unknown function (DUF979); Region: DUF979; pfam06166 561229003819 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 561229003820 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_19; cd07262 561229003821 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561229003822 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229003823 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 561229003824 dimer interface [polypeptide binding]; other site 561229003825 conserved gate region; other site 561229003826 putative PBP binding loops; other site 561229003827 ABC-ATPase subunit interface; other site 561229003828 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229003829 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229003830 Walker A/P-loop; other site 561229003831 ATP binding site [chemical binding]; other site 561229003832 Q-loop/lid; other site 561229003833 ABC transporter signature motif; other site 561229003834 Walker B; other site 561229003835 D-loop; other site 561229003836 H-loop/switch region; other site 561229003837 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229003838 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 561229003839 dimer interface [polypeptide binding]; other site 561229003840 conserved gate region; other site 561229003841 putative PBP binding loops; other site 561229003842 ABC-ATPase subunit interface; other site 561229003843 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229003844 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 561229003845 substrate binding pocket [chemical binding]; other site 561229003846 membrane-bound complex binding site; other site 561229003847 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 561229003848 substrate binding site [chemical binding]; other site 561229003849 multimerization interface [polypeptide binding]; other site 561229003850 ATP binding site [chemical binding]; other site 561229003851 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 561229003852 dimer interface [polypeptide binding]; other site 561229003853 substrate binding site [chemical binding]; other site 561229003854 ATP binding site [chemical binding]; other site 561229003855 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561229003856 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229003857 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229003858 DNA binding site [nucleotide binding] 561229003859 domain linker motif; other site 561229003860 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 561229003861 dimerization interface [polypeptide binding]; other site 561229003862 ligand binding site [chemical binding]; other site 561229003863 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561229003864 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229003865 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561229003866 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 561229003867 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 561229003868 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 561229003869 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 561229003870 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 561229003871 putative protease; Provisional; Region: PRK15452 561229003872 Peptidase family U32; Region: Peptidase_U32; pfam01136 561229003873 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 561229003874 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 561229003875 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 561229003876 putative dimer interface [polypeptide binding]; other site 561229003877 N-terminal domain interface [polypeptide binding]; other site 561229003878 putative substrate binding pocket (H-site) [chemical binding]; other site 561229003879 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 561229003880 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 561229003881 active site 561229003882 phosphorylation site [posttranslational modification] 561229003883 intermolecular recognition site; other site 561229003884 dimerization interface [polypeptide binding]; other site 561229003885 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 561229003886 DNA binding site [nucleotide binding] 561229003887 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 561229003888 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 561229003889 dimerization interface [polypeptide binding]; other site 561229003890 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 561229003891 dimer interface [polypeptide binding]; other site 561229003892 phosphorylation site [posttranslational modification] 561229003893 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 561229003894 ATP binding site [chemical binding]; other site 561229003895 Mg2+ binding site [ion binding]; other site 561229003896 G-X-G motif; other site 561229003897 putative transporter; Provisional; Region: PRK10504 561229003898 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 561229003899 putative substrate translocation pore; other site 561229003900 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 561229003901 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 561229003902 Protein export membrane protein; Region: SecD_SecF; cl14618 561229003903 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 561229003904 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229003905 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229003906 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 561229003907 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 561229003908 Nucleoside recognition; Region: Gate; pfam07670 561229003909 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 561229003910 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 561229003911 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229003912 active site 561229003913 catalytic tetrad [active] 561229003914 outer membrane protein A; Reviewed; Region: PRK10808 561229003915 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 561229003916 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561229003917 ligand binding site [chemical binding]; other site 561229003918 SOS cell division inhibitor; Provisional; Region: PRK10595 561229003919 TfoX N-terminal domain; Region: TfoX_N; pfam04993 561229003920 TfoX C-terminal domain; Region: TfoX_C; pfam04994 561229003921 TIGR01666 family membrane protein; Region: YCCS 561229003922 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 561229003923 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 561229003924 hypothetical protein; Provisional; Region: PRK11770 561229003925 Domain of unknown function (DUF307); Region: DUF307; pfam03733 561229003926 Domain of unknown function (DUF307); Region: DUF307; pfam03733 561229003927 DNA helicase IV; Provisional; Region: helD; PRK11054 561229003928 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 561229003929 Part of AAA domain; Region: AAA_19; pfam13245 561229003930 Family description; Region: UvrD_C_2; pfam13538 561229003931 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 561229003932 active site 561229003933 dimer interfaces [polypeptide binding]; other site 561229003934 catalytic residues [active] 561229003935 hypothetical protein; Provisional; Region: PRK03641 561229003936 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 561229003937 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 561229003938 heat shock protein HspQ; Provisional; Region: PRK14129 561229003939 acylphosphatase; Provisional; Region: PRK14426 561229003940 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 561229003941 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 561229003942 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 561229003943 YccA-like proteins; Region: YccA_like; cd10433 561229003944 Homeodomain-like domain; Region: HTH_23; cl17451 561229003945 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 561229003946 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229003947 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 561229003948 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 561229003949 Transposase; Region: HTH_Tnp_1; cl17663 561229003950 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 561229003951 Isochorismatase family; Region: Isochorismatase; pfam00857 561229003952 catalytic triad [active] 561229003953 conserved cis-peptide bond; other site 561229003954 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 561229003955 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 561229003956 Ligand Binding Site [chemical binding]; other site 561229003957 hypothetical protein; Provisional; Region: PRK11019 561229003958 exopolyphosphatase; Provisional; Region: PRK10854 561229003959 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229003960 nucleotide binding site [chemical binding]; other site 561229003961 polyphosphate kinase; Provisional; Region: PRK05443 561229003962 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 561229003963 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 561229003964 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 561229003965 domain interface [polypeptide binding]; other site 561229003966 active site 561229003967 catalytic site [active] 561229003968 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 561229003969 domain interface [polypeptide binding]; other site 561229003970 active site 561229003971 catalytic site [active] 561229003972 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 561229003973 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 561229003974 conserved gate region; other site 561229003975 putative PBP binding loops; other site 561229003976 ABC-ATPase subunit interface; other site 561229003977 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 561229003978 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 561229003979 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 561229003980 ABC-ATPase subunit interface; other site 561229003981 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 561229003982 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 561229003983 Walker A/P-loop; other site 561229003984 ATP binding site [chemical binding]; other site 561229003985 Q-loop/lid; other site 561229003986 ABC transporter signature motif; other site 561229003987 Walker B; other site 561229003988 D-loop; other site 561229003989 H-loop/switch region; other site 561229003990 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229003991 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 561229003992 non-specific DNA binding site [nucleotide binding]; other site 561229003993 salt bridge; other site 561229003994 sequence-specific DNA binding site [nucleotide binding]; other site 561229003995 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 561229003996 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 561229003997 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 561229003998 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 561229003999 serine transporter; Region: stp; TIGR00814 561229004000 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 561229004001 ATP-grasp domain; Region: ATP-grasp; pfam02222 561229004002 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 561229004003 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 561229004004 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561229004005 putative active site [active] 561229004006 putative metal binding site [ion binding]; other site 561229004007 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 561229004008 substrate binding site [chemical binding]; other site 561229004009 DoxX; Region: DoxX; pfam07681 561229004010 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 561229004011 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 561229004012 active site 561229004013 HIGH motif; other site 561229004014 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 561229004015 KMSKS motif; other site 561229004016 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 561229004017 tRNA binding surface [nucleotide binding]; other site 561229004018 anticodon binding site; other site 561229004019 ribosome-associated protein; Provisional; Region: PRK11507 561229004020 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 561229004021 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 561229004022 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 561229004023 homodimer interface [polypeptide binding]; other site 561229004024 NADP binding site [chemical binding]; other site 561229004025 substrate binding site [chemical binding]; other site 561229004026 Nitrate and nitrite sensing; Region: NIT; pfam08376 561229004027 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229004028 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229004029 dimer interface [polypeptide binding]; other site 561229004030 putative CheW interface [polypeptide binding]; other site 561229004031 N-formylglutamate amidohydrolase; Region: FGase; cl01522 561229004032 imidazolonepropionase; Validated; Region: PRK09356 561229004033 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 561229004034 active site 561229004035 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 561229004036 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 561229004037 active site 561229004038 HutD; Region: HutD; pfam05962 561229004039 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229004040 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 561229004041 substrate binding pocket [chemical binding]; other site 561229004042 membrane-bound complex binding site; other site 561229004043 hinge residues; other site 561229004044 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229004045 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 561229004046 dimer interface [polypeptide binding]; other site 561229004047 conserved gate region; other site 561229004048 putative PBP binding loops; other site 561229004049 ABC-ATPase subunit interface; other site 561229004050 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229004051 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 561229004052 dimer interface [polypeptide binding]; other site 561229004053 conserved gate region; other site 561229004054 putative PBP binding loops; other site 561229004055 ABC-ATPase subunit interface; other site 561229004056 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 561229004057 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229004058 Walker A/P-loop; other site 561229004059 ATP binding site [chemical binding]; other site 561229004060 Q-loop/lid; other site 561229004061 ABC transporter signature motif; other site 561229004062 Walker B; other site 561229004063 D-loop; other site 561229004064 H-loop/switch region; other site 561229004065 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 561229004066 active sites [active] 561229004067 tetramer interface [polypeptide binding]; other site 561229004068 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 561229004069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229004070 DNA-binding site [nucleotide binding]; DNA binding site 561229004071 UTRA domain; Region: UTRA; pfam07702 561229004072 Flagellin N-methylase; Region: FliB; pfam03692 561229004073 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 561229004074 active sites [active] 561229004075 tetramer interface [polypeptide binding]; other site 561229004076 urocanate hydratase; Provisional; Region: PRK05414 561229004077 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561229004078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229004079 DNA-binding site [nucleotide binding]; DNA binding site 561229004080 FCD domain; Region: FCD; pfam07729 561229004081 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 561229004082 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561229004083 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561229004084 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 561229004085 metabolite-proton symporter; Region: 2A0106; TIGR00883 561229004086 putative substrate translocation pore; other site 561229004087 putative oxidoreductase; Provisional; Region: PRK10083 561229004088 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 561229004089 putative NAD(P) binding site [chemical binding]; other site 561229004090 catalytic Zn binding site [ion binding]; other site 561229004091 structural Zn binding site [ion binding]; other site 561229004092 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 561229004093 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 561229004094 putative active site pocket [active] 561229004095 putative metal binding site [ion binding]; other site 561229004096 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 561229004097 metal binding site [ion binding]; metal-binding site 561229004098 Pectate lyase; Region: Pectate_lyase; pfam03211 561229004099 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 561229004100 catalytic motif [active] 561229004101 Catalytic residue [active] 561229004102 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 561229004103 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 561229004104 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561229004105 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561229004106 Walker A/P-loop; other site 561229004107 ATP binding site [chemical binding]; other site 561229004108 Q-loop/lid; other site 561229004109 ABC transporter signature motif; other site 561229004110 Walker B; other site 561229004111 D-loop; other site 561229004112 H-loop/switch region; other site 561229004113 TOBE domain; Region: TOBE; pfam03459 561229004114 TOBE domain; Region: TOBE_2; pfam08402 561229004115 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 561229004116 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561229004117 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 561229004118 dimer interface [polypeptide binding]; other site 561229004119 conserved gate region; other site 561229004120 ABC-ATPase subunit interface; other site 561229004121 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229004122 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 561229004123 dimer interface [polypeptide binding]; other site 561229004124 conserved gate region; other site 561229004125 putative PBP binding loops; other site 561229004126 ABC-ATPase subunit interface; other site 561229004127 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 561229004128 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 561229004129 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 561229004130 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 561229004131 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 561229004132 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 561229004133 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561229004134 active site turn [active] 561229004135 phosphorylation site [posttranslational modification] 561229004136 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561229004137 trimer interface; other site 561229004138 sugar binding site [chemical binding]; other site 561229004139 lac repressor; Reviewed; Region: lacI; PRK09526 561229004140 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229004141 DNA binding site [nucleotide binding] 561229004142 domain linker motif; other site 561229004143 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 561229004144 ligand binding site [chemical binding]; other site 561229004145 dimerization interface (open form) [polypeptide binding]; other site 561229004146 dimerization interface (closed form) [polypeptide binding]; other site 561229004147 Putative motility protein; Region: YjfB_motility; pfam14070 561229004148 Uncharacterized conserved protein [Function unknown]; Region: COG2850 561229004149 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 561229004150 dimerization interface [polypeptide binding]; other site 561229004151 putative DNA binding site [nucleotide binding]; other site 561229004152 putative Zn2+ binding site [ion binding]; other site 561229004153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229004154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229004155 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229004156 putative effector binding pocket; other site 561229004157 dimerization interface [polypeptide binding]; other site 561229004158 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 561229004159 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 561229004160 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229004161 active site 561229004162 catalytic tetrad [active] 561229004163 Cache domain; Region: Cache_1; pfam02743 561229004164 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229004165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229004166 metal binding site [ion binding]; metal-binding site 561229004167 active site 561229004168 I-site; other site 561229004169 Abhydrolase family; Region: Abhydrolase_7; pfam12715 561229004170 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229004171 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 561229004172 catalytic site [active] 561229004173 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 561229004174 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 561229004175 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561229004176 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561229004177 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 561229004178 homodimer interface [polypeptide binding]; other site 561229004179 substrate-cofactor binding pocket; other site 561229004180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229004181 catalytic residue [active] 561229004182 aminotransferase; Validated; Region: PRK08175 561229004183 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 561229004184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229004185 homodimer interface [polypeptide binding]; other site 561229004186 catalytic residue [active] 561229004187 lipoprotein, PulS/OutS family; Region: PulS_OutS; TIGR01004 561229004188 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 561229004189 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 561229004190 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 561229004191 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229004192 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229004193 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229004194 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 561229004195 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561229004196 type II secretion system protein E; Region: type_II_gspE; TIGR02533 561229004197 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 561229004198 Walker A motif; other site 561229004199 ATP binding site [chemical binding]; other site 561229004200 Walker B motif; other site 561229004201 type II secretion system protein F; Region: GspF; TIGR02120 561229004202 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229004203 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229004204 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 561229004205 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 561229004206 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 561229004207 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 561229004208 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 561229004209 type II secretion system protein I; Region: gspI; TIGR01707 561229004210 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 561229004211 type II secretion system protein J; Region: gspJ; TIGR01711 561229004212 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 561229004213 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 561229004214 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 561229004215 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 561229004216 GspL periplasmic domain; Region: GspL_C; pfam12693 561229004217 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 561229004218 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 561229004219 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 561229004220 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 561229004221 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 561229004222 Serine hydrolase; Region: Ser_hydrolase; pfam06821 561229004223 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561229004224 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 561229004225 FMN binding site [chemical binding]; other site 561229004226 active site 561229004227 substrate binding site [chemical binding]; other site 561229004228 catalytic residue [active] 561229004229 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 561229004230 CoenzymeA binding site [chemical binding]; other site 561229004231 subunit interaction site [polypeptide binding]; other site 561229004232 PHB binding site; other site 561229004233 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 561229004234 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 561229004235 putative NAD(P) binding site [chemical binding]; other site 561229004236 active site 561229004237 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 561229004238 hydrophobic substrate binding pocket; other site 561229004239 Isochorismatase family; Region: Isochorismatase; pfam00857 561229004240 active site 561229004241 conserved cis-peptide bond; other site 561229004242 Phosphopantetheine attachment site; Region: PP-binding; cl09936 561229004243 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 561229004244 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 561229004245 acyl-activating enzyme (AAE) consensus motif; other site 561229004246 active site 561229004247 AMP binding site [chemical binding]; other site 561229004248 substrate binding site [chemical binding]; other site 561229004249 isochorismate synthase EntC; Provisional; Region: PRK15016 561229004250 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 561229004251 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 561229004252 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 561229004253 N-terminal plug; other site 561229004254 ligand-binding site [chemical binding]; other site 561229004255 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 561229004256 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 561229004257 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561229004258 MbtH-like protein; Region: MbtH; cl01279 561229004259 Condensation domain; Region: Condensation; pfam00668 561229004260 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561229004261 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561229004262 acyl-activating enzyme (AAE) consensus motif; other site 561229004263 AMP binding site [chemical binding]; other site 561229004264 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561229004265 Condensation domain; Region: Condensation; pfam00668 561229004266 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 561229004267 Condensation domain; Region: Condensation; pfam00668 561229004268 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561229004269 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561229004270 acyl-activating enzyme (AAE) consensus motif; other site 561229004271 AMP binding site [chemical binding]; other site 561229004272 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561229004273 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 561229004274 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561229004275 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561229004276 Walker A/P-loop; other site 561229004277 ATP binding site [chemical binding]; other site 561229004278 Q-loop/lid; other site 561229004279 ABC transporter signature motif; other site 561229004280 Walker B; other site 561229004281 D-loop; other site 561229004282 H-loop/switch region; other site 561229004283 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 561229004284 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 561229004285 ABC-ATPase subunit interface; other site 561229004286 dimer interface [polypeptide binding]; other site 561229004287 putative PBP binding regions; other site 561229004288 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561229004289 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 561229004290 ABC-ATPase subunit interface; other site 561229004291 dimer interface [polypeptide binding]; other site 561229004292 putative PBP binding regions; other site 561229004293 enterobactin exporter EntS; Provisional; Region: PRK10489 561229004294 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 561229004295 putative substrate translocation pore; other site 561229004296 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 561229004297 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 561229004298 siderophore binding site; other site 561229004299 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 561229004300 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 561229004301 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 561229004302 putative trimer interface [polypeptide binding]; other site 561229004303 putative CoA binding site [chemical binding]; other site 561229004304 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 561229004305 Necrosis inducing protein (NPP1); Region: NPP1; pfam05630 561229004306 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 561229004307 trimer interface [polypeptide binding]; other site 561229004308 active site 561229004309 substrate binding site [chemical binding]; other site 561229004310 CoA binding site [chemical binding]; other site 561229004311 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 561229004312 malate:quinone oxidoreductase; Validated; Region: PRK05257 561229004313 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 561229004314 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 561229004315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 561229004316 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 561229004317 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 561229004318 dimer interface [polypeptide binding]; other site 561229004319 active site 561229004320 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 561229004321 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 561229004322 substrate binding site [chemical binding]; other site 561229004323 oxyanion hole (OAH) forming residues; other site 561229004324 trimer interface [polypeptide binding]; other site 561229004325 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561229004326 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561229004327 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561229004328 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 561229004329 catalytic core [active] 561229004330 hypothetical protein; Provisional; Region: PRK04946 561229004331 Smr domain; Region: Smr; pfam01713 561229004332 HemK family putative methylases; Region: hemK_fam; TIGR00536 561229004333 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 561229004334 S-adenosylmethionine binding site [chemical binding]; other site 561229004335 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 561229004336 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 561229004337 Tetramer interface [polypeptide binding]; other site 561229004338 active site 561229004339 FMN-binding site [chemical binding]; other site 561229004340 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 561229004341 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 561229004342 hypothetical protein; Provisional; Region: PRK10621 561229004343 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561229004344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 561229004345 YfcL protein; Region: YfcL; pfam08891 561229004346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229004347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229004348 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 561229004349 dimerization interface [polypeptide binding]; other site 561229004350 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 561229004351 NAD(P) binding site [chemical binding]; other site 561229004352 catalytic residues [active] 561229004353 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 561229004354 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 561229004355 potential catalytic triad [active] 561229004356 conserved cys residue [active] 561229004357 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 561229004358 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561229004359 putative C-terminal domain interface [polypeptide binding]; other site 561229004360 putative GSH binding site (G-site) [chemical binding]; other site 561229004361 putative dimer interface [polypeptide binding]; other site 561229004362 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 561229004363 N-terminal domain interface [polypeptide binding]; other site 561229004364 dimer interface [polypeptide binding]; other site 561229004365 substrate binding pocket (H-site) [chemical binding]; other site 561229004366 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 561229004367 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 561229004368 AzlC protein; Region: AzlC; cl00570 561229004369 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561229004370 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561229004371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229004372 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229004373 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 561229004374 Uncharacterized conserved protein [Function unknown]; Region: COG4121 561229004375 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229004376 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229004377 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 561229004378 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 561229004379 dimer interface [polypeptide binding]; other site 561229004380 active site 561229004381 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 561229004382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 561229004383 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 561229004384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 561229004385 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 561229004386 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 561229004387 active site 561229004388 phosphorylation site [posttranslational modification] 561229004389 intermolecular recognition site; other site 561229004390 dimerization interface [polypeptide binding]; other site 561229004391 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 561229004392 DNA binding site [nucleotide binding] 561229004393 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 561229004394 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 561229004395 dimer interface [polypeptide binding]; other site 561229004396 phosphorylation site [posttranslational modification] 561229004397 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 561229004398 ATP binding site [chemical binding]; other site 561229004399 Mg2+ binding site [ion binding]; other site 561229004400 G-X-G motif; other site 561229004401 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 561229004402 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 561229004403 ligand binding site [chemical binding]; other site 561229004404 NAD binding site [chemical binding]; other site 561229004405 catalytic site [active] 561229004406 homodimer interface [polypeptide binding]; other site 561229004407 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 561229004408 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561229004409 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 561229004410 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 561229004411 dimerization interface 3.5A [polypeptide binding]; other site 561229004412 active site 561229004413 hypothetical protein; Provisional; Region: PRK10847 561229004414 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561229004415 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 561229004416 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 561229004417 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 561229004418 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 561229004419 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 561229004420 cell division protein DedD; Provisional; Region: PRK11633 561229004421 Sporulation related domain; Region: SPOR; pfam05036 561229004422 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 561229004423 colicin V production protein; Provisional; Region: PRK10845 561229004424 amidophosphoribosyltransferase; Provisional; Region: PRK09246 561229004425 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 561229004426 active site 561229004427 tetramer interface [polypeptide binding]; other site 561229004428 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229004429 active site 561229004430 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 561229004431 Flavoprotein; Region: Flavoprotein; pfam02441 561229004432 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 561229004433 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 561229004434 substrate binding pocket [chemical binding]; other site 561229004435 membrane-bound complex binding site; other site 561229004436 hinge residues; other site 561229004437 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229004438 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 561229004439 dimer interface [polypeptide binding]; other site 561229004440 conserved gate region; other site 561229004441 putative PBP binding loops; other site 561229004442 ABC-ATPase subunit interface; other site 561229004443 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229004444 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 561229004445 dimer interface [polypeptide binding]; other site 561229004446 conserved gate region; other site 561229004447 putative PBP binding loops; other site 561229004448 ABC-ATPase subunit interface; other site 561229004449 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 561229004450 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229004451 Walker A/P-loop; other site 561229004452 ATP binding site [chemical binding]; other site 561229004453 Q-loop/lid; other site 561229004454 ABC transporter signature motif; other site 561229004455 Walker B; other site 561229004456 D-loop; other site 561229004457 H-loop/switch region; other site 561229004458 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 561229004459 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 561229004460 putative NAD(P) binding site [chemical binding]; other site 561229004461 putative active site [active] 561229004462 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 561229004463 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 561229004464 C-terminal domain interface [polypeptide binding]; other site 561229004465 GSH binding site (G-site) [chemical binding]; other site 561229004466 dimer interface [polypeptide binding]; other site 561229004467 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 561229004468 N-terminal domain interface [polypeptide binding]; other site 561229004469 putative dimer interface [polypeptide binding]; other site 561229004470 active site 561229004471 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 561229004472 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561229004473 active site 561229004474 metal binding site [ion binding]; metal-binding site 561229004475 homotetramer interface [polypeptide binding]; other site 561229004476 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 561229004477 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 561229004478 nudix motif; other site 561229004479 phosphate acetyltransferase; Reviewed; Region: PRK05632 561229004480 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 561229004481 DRTGG domain; Region: DRTGG; pfam07085 561229004482 phosphate acetyltransferase; Region: pta; TIGR00651 561229004483 propionate/acetate kinase; Provisional; Region: PRK12379 561229004484 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 561229004485 hypothetical protein; Provisional; Region: PRK01816 561229004486 hypothetical protein; Validated; Region: PRK05445 561229004487 putative phosphatase; Provisional; Region: PRK11587 561229004488 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 561229004489 motif II; other site 561229004490 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 561229004491 transmembrane helices; other site 561229004492 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561229004493 TrkA-C domain; Region: TrkA_C; pfam02080 561229004494 TrkA-C domain; Region: TrkA_C; pfam02080 561229004495 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 561229004496 5'-nucleotidase; Provisional; Region: PRK03826 561229004497 aminotransferase AlaT; Validated; Region: PRK09265 561229004498 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 561229004499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229004500 homodimer interface [polypeptide binding]; other site 561229004501 catalytic residue [active] 561229004502 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 561229004503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229004504 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 561229004505 putative dimerization interface [polypeptide binding]; other site 561229004506 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 561229004507 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 561229004508 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 561229004509 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 561229004510 NADH dehydrogenase subunit D; Validated; Region: PRK06075 561229004511 NADH dehydrogenase subunit E; Validated; Region: PRK07539 561229004512 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 561229004513 putative dimer interface [polypeptide binding]; other site 561229004514 [2Fe-2S] cluster binding site [ion binding]; other site 561229004515 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 561229004516 SLBB domain; Region: SLBB; pfam10531 561229004517 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 561229004518 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 561229004519 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229004520 catalytic loop [active] 561229004521 iron binding site [ion binding]; other site 561229004522 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 561229004523 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 561229004524 [4Fe-4S] binding site [ion binding]; other site 561229004525 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 561229004526 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 561229004527 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 561229004528 4Fe-4S binding domain; Region: Fer4; cl02805 561229004529 4Fe-4S binding domain; Region: Fer4; pfam00037 561229004530 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 561229004531 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 561229004532 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 561229004533 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 561229004534 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 561229004535 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561229004536 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 561229004537 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561229004538 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 561229004539 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561229004540 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 561229004541 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 561229004542 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 561229004543 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 561229004544 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 561229004545 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 561229004546 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229004547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229004548 Walker A/P-loop; other site 561229004549 ATP binding site [chemical binding]; other site 561229004550 ABC transporter signature motif; other site 561229004551 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229004552 Walker B; other site 561229004553 ABC transporter; Region: ABC_tran_2; pfam12848 561229004554 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229004555 hydrogenase 2 small subunit; Provisional; Region: PRK10468 561229004556 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 561229004557 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 561229004558 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 561229004559 4Fe-4S binding domain; Region: Fer4_6; pfam12837 561229004560 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 561229004561 hydrogenase 2 large subunit; Provisional; Region: PRK10467 561229004562 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 561229004563 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 561229004564 nickel binding site [ion binding]; other site 561229004565 putative substrate-binding site; other site 561229004566 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 561229004567 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 561229004568 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 561229004569 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 561229004570 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 561229004571 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 561229004572 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 561229004573 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 561229004574 dimerization interface [polypeptide binding]; other site 561229004575 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 561229004576 ATP binding site [chemical binding]; other site 561229004577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229004578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229004579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229004580 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 561229004581 Acylphosphatase; Region: Acylphosphatase; pfam00708 561229004582 HypF finger; Region: zf-HYPF; pfam07503 561229004583 HypF finger; Region: zf-HYPF; pfam07503 561229004584 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 561229004585 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 561229004586 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 561229004587 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 561229004588 catalytic triad [active] 561229004589 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 561229004590 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229004591 DNA-binding site [nucleotide binding]; DNA binding site 561229004592 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 561229004593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229004594 homodimer interface [polypeptide binding]; other site 561229004595 catalytic residue [active] 561229004596 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 561229004597 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 561229004598 [4Fe-4S] binding site [ion binding]; other site 561229004599 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 561229004600 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 561229004601 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 561229004602 molybdopterin cofactor binding site; other site 561229004603 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 561229004604 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 561229004605 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 561229004606 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 561229004607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229004608 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229004609 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229004610 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 561229004611 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 561229004612 putative substrate translocation pore; other site 561229004613 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 561229004614 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 561229004615 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561229004616 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229004617 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 561229004618 Pectic acid lyase; Region: Pec_lyase; pfam09492 561229004619 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 561229004620 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 561229004621 active site 561229004622 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 561229004623 Nitrate and nitrite sensing; Region: NIT; pfam08376 561229004624 ANTAR domain; Region: ANTAR; pfam03861 561229004625 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561229004626 NMT1-like family; Region: NMT1_2; pfam13379 561229004627 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229004628 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 561229004629 dimer interface [polypeptide binding]; other site 561229004630 conserved gate region; other site 561229004631 putative PBP binding loops; other site 561229004632 ABC-ATPase subunit interface; other site 561229004633 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561229004634 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561229004635 Walker A/P-loop; other site 561229004636 ATP binding site [chemical binding]; other site 561229004637 Q-loop/lid; other site 561229004638 ABC transporter signature motif; other site 561229004639 Walker B; other site 561229004640 D-loop; other site 561229004641 H-loop/switch region; other site 561229004642 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 561229004643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229004644 nitrite reductase subunit NirD; Provisional; Region: PRK14989 561229004645 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229004646 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561229004647 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 561229004648 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 561229004649 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 561229004650 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 561229004651 [4Fe-4S] binding site [ion binding]; other site 561229004652 molybdopterin cofactor binding site; other site 561229004653 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 561229004654 molybdopterin cofactor binding site; other site 561229004655 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 561229004656 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 561229004657 active site 561229004658 SAM binding site [chemical binding]; other site 561229004659 homodimer interface [polypeptide binding]; other site 561229004660 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561229004661 Predicted flavoprotein [General function prediction only]; Region: COG0431 561229004662 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 561229004663 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229004664 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 561229004665 substrate binding pocket [chemical binding]; other site 561229004666 membrane-bound complex binding site; other site 561229004667 hinge residues; other site 561229004668 putative aminotransferase; Provisional; Region: PRK12414 561229004669 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 561229004670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229004671 homodimer interface [polypeptide binding]; other site 561229004672 catalytic residue [active] 561229004673 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 561229004674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229004675 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 561229004676 substrate binding pocket [chemical binding]; other site 561229004677 dimerization interface [polypeptide binding]; other site 561229004678 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 561229004679 putative dimer interface [polypeptide binding]; other site 561229004680 catalytic triad [active] 561229004681 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229004682 Tar ligand binding domain homologue; Region: TarH; pfam02203 561229004683 HAMP domain; Region: HAMP; pfam00672 561229004684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229004685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229004686 dimer interface [polypeptide binding]; other site 561229004687 putative CheW interface [polypeptide binding]; other site 561229004688 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561229004689 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 561229004690 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 561229004691 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 561229004692 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 561229004693 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 561229004694 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 561229004695 homodimer interface [polypeptide binding]; other site 561229004696 active site 561229004697 TDP-binding site; other site 561229004698 acceptor substrate-binding pocket; other site 561229004699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229004700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229004701 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561229004702 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229004703 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229004704 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 561229004705 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 561229004706 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 561229004707 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 561229004708 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229004709 active site 561229004710 catalytic tetrad [active] 561229004711 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 561229004712 DEAD/DEAH box helicase; Region: DEAD; pfam00270 561229004713 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 561229004714 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 561229004715 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 561229004716 cofactor binding site; other site 561229004717 DNA binding site [nucleotide binding] 561229004718 substrate interaction site [chemical binding]; other site 561229004719 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 561229004720 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 561229004721 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 561229004722 CcdB protein; Region: CcdB; pfam01845 561229004723 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 561229004724 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 561229004725 TrbM; Region: TrbM; pfam07424 561229004726 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 561229004727 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 561229004728 Walker A motif; other site 561229004729 hexamer interface [polypeptide binding]; other site 561229004730 ATP binding site [chemical binding]; other site 561229004731 Walker B motif; other site 561229004732 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 561229004733 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 561229004734 VirB7 interaction site; other site 561229004735 VirB8 protein; Region: VirB8; pfam04335 561229004736 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 561229004737 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 561229004738 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 561229004739 Type IV secretion system proteins; Region: T4SS; pfam07996 561229004740 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 561229004741 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 561229004742 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 561229004743 TrbC/VIRB2 family; Region: TrbC; cl01583 561229004744 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 561229004745 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229004746 catalytic residue [active] 561229004747 Superfamily II helicase [General function prediction only]; Region: COG1204 561229004748 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 561229004749 ATP binding site [chemical binding]; other site 561229004750 putative Mg++ binding site [ion binding]; other site 561229004751 helicase superfamily c-terminal domain; Region: HELICc; smart00490 561229004752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 561229004753 MULE transposase domain; Region: MULE; pfam10551 561229004754 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 561229004755 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 561229004756 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561229004757 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229004758 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 561229004759 non-specific DNA binding site [nucleotide binding]; other site 561229004760 salt bridge; other site 561229004761 sequence-specific DNA binding site [nucleotide binding]; other site 561229004762 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229004763 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 561229004764 non-specific DNA binding site [nucleotide binding]; other site 561229004765 salt bridge; other site 561229004766 sequence-specific DNA binding site [nucleotide binding]; other site 561229004767 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229004768 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 561229004769 non-specific DNA binding site [nucleotide binding]; other site 561229004770 salt bridge; other site 561229004771 sequence-specific DNA binding site [nucleotide binding]; other site 561229004772 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229004773 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561229004774 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561229004775 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561229004776 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 561229004777 PAAR motif; Region: PAAR_motif; pfam05488 561229004778 RHS Repeat; Region: RHS_repeat; pfam05593 561229004779 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561229004780 RHS Repeat; Region: RHS_repeat; pfam05593 561229004781 RHS Repeat; Region: RHS_repeat; pfam05593 561229004782 RHS Repeat; Region: RHS_repeat; cl11982 561229004783 RHS Repeat; Region: RHS_repeat; pfam05593 561229004784 RHS Repeat; Region: RHS_repeat; pfam05593 561229004785 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561229004786 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 561229004787 GIY-YIG motif/motif A; other site 561229004788 active site 561229004789 catalytic site [active] 561229004790 metal binding site [ion binding]; metal-binding site 561229004791 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 561229004792 Uncharacterized conserved protein [Function unknown]; Region: COG5489 561229004793 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229004794 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 561229004795 sequence-specific DNA binding site [nucleotide binding]; other site 561229004796 salt bridge; other site 561229004797 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229004798 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 561229004799 non-specific DNA binding site [nucleotide binding]; other site 561229004800 salt bridge; other site 561229004801 sequence-specific DNA binding site [nucleotide binding]; other site 561229004802 integrase; Provisional; Region: PRK09692 561229004803 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561229004804 active site 561229004805 Int/Topo IB signature motif; other site 561229004806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229004807 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 561229004808 hypothetical protein; Provisional; Region: PRK10613 561229004809 response regulator; Provisional; Region: PRK09483 561229004810 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 561229004811 active site 561229004812 phosphorylation site [posttranslational modification] 561229004813 intermolecular recognition site; other site 561229004814 dimerization interface [polypeptide binding]; other site 561229004815 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 561229004816 DNA binding residues [nucleotide binding] 561229004817 dimerization interface [polypeptide binding]; other site 561229004818 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 561229004819 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 561229004820 GIY-YIG motif/motif A; other site 561229004821 active site 561229004822 catalytic site [active] 561229004823 putative DNA binding site [nucleotide binding]; other site 561229004824 metal binding site [ion binding]; metal-binding site 561229004825 UvrB/uvrC motif; Region: UVR; pfam02151 561229004826 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 561229004827 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 561229004828 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 561229004829 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 561229004830 integrase; Provisional; Region: int; PHA02601 561229004831 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 561229004832 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 561229004833 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229004834 catalytic residue [active] 561229004835 Phage holin family 2; Region: Phage_holin_2; pfam04550 561229004836 Right handed beta helix region; Region: Beta_helix; pfam13229 561229004837 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 561229004838 Cellulose-binding domain, chitinase and related proteins; Region: CBD_like; cd12204 561229004839 aromatic chitin/cellulose binding site residues [chemical binding]; other site 561229004840 ligand binding site [chemical binding]; other site 561229004841 Cytochrome b562; Region: Cytochrom_B562; cl01546 561229004842 MATE family multidrug exporter; Provisional; Region: PRK10189 561229004843 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 561229004844 hypothetical protein; Provisional; Region: PRK10708 561229004845 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229004846 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229004847 dimer interface [polypeptide binding]; other site 561229004848 ligand binding site [chemical binding]; other site 561229004849 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229004850 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 561229004851 dimerization interface [polypeptide binding]; other site 561229004852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229004853 dimer interface [polypeptide binding]; other site 561229004854 putative CheW interface [polypeptide binding]; other site 561229004855 transcriptional activator FlhD; Provisional; Region: PRK02909 561229004856 transcriptional activator FlhC; Provisional; Region: PRK12722 561229004857 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 561229004858 flagellar motor protein MotA; Validated; Region: PRK09110 561229004859 flagellar motor protein MotB; Reviewed; Region: motB; PRK12799 561229004860 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 561229004861 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561229004862 ligand binding site [chemical binding]; other site 561229004863 chemotaxis protein CheA; Provisional; Region: PRK10547 561229004864 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 561229004865 putative binding surface; other site 561229004866 active site 561229004867 CheY binding; Region: CheY-binding; pfam09078 561229004868 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 561229004869 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 561229004870 ATP binding site [chemical binding]; other site 561229004871 Mg2+ binding site [ion binding]; other site 561229004872 G-X-G motif; other site 561229004873 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 561229004874 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 561229004875 putative CheA interaction surface; other site 561229004876 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561229004877 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229004878 dimer interface [polypeptide binding]; other site 561229004879 ligand binding site [chemical binding]; other site 561229004880 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 561229004881 dimerization interface [polypeptide binding]; other site 561229004882 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229004883 dimer interface [polypeptide binding]; other site 561229004884 putative CheW interface [polypeptide binding]; other site 561229004885 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 561229004886 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 561229004887 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 561229004888 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 561229004889 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 561229004890 active site 561229004891 phosphorylation site [posttranslational modification] 561229004892 intermolecular recognition site; other site 561229004893 dimerization interface [polypeptide binding]; other site 561229004894 CheB methylesterase; Region: CheB_methylest; pfam01339 561229004895 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 561229004896 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 561229004897 active site 561229004898 phosphorylation site [posttranslational modification] 561229004899 intermolecular recognition site; other site 561229004900 dimerization interface [polypeptide binding]; other site 561229004901 chemotaxis regulator CheZ; Provisional; Region: PRK11166 561229004902 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 561229004903 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 561229004904 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 561229004905 FHIPEP family; Region: FHIPEP; pfam00771 561229004906 Flagellar protein FlhE; Region: FlhE; pfam06366 561229004907 FlgN protein; Region: FlgN; cl09176 561229004908 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 561229004909 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 561229004910 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 561229004911 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 561229004912 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 561229004913 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 561229004914 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 561229004915 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561229004916 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561229004917 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 561229004918 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 561229004919 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 561229004920 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 561229004921 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561229004922 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 561229004923 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561229004924 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 561229004925 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561229004926 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 561229004927 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 561229004928 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561229004929 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561229004930 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 561229004931 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 561229004932 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 561229004933 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 561229004934 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 561229004935 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 561229004936 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 561229004937 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 561229004938 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 561229004939 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 561229004940 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 561229004941 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 561229004942 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 561229004943 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 561229004944 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 561229004945 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 561229004946 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 561229004947 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 561229004948 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 561229004949 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 561229004950 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 561229004951 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 561229004952 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 561229004953 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 561229004954 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 561229004955 Walker A motif/ATP binding site; other site 561229004956 Walker B motif; other site 561229004957 flagellar assembly protein H; Validated; Region: fliH; PRK05687 561229004958 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 561229004959 Flagellar assembly protein FliH; Region: FliH; pfam02108 561229004960 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 561229004961 Uncharacterized conserved protein [Function unknown]; Region: COG3334 561229004962 FliG C-terminal domain; Region: FliG_C; pfam01706 561229004963 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 561229004964 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 561229004965 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 561229004966 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 561229004967 Flagellar protein FliT; Region: FliT; cl05125 561229004968 flagellar protein FliS; Validated; Region: fliS; PRK05685 561229004969 flagellar capping protein; Reviewed; Region: fliD; PRK08032 561229004970 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 561229004971 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 561229004972 flagellin; Provisional; Region: PRK12802 561229004973 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 561229004974 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 561229004975 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561229004976 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 561229004977 S-adenosylmethionine binding site [chemical binding]; other site 561229004978 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 561229004979 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 561229004980 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 561229004981 binding surface 561229004982 TPR motif; other site 561229004983 TPR repeat; Region: TPR_11; pfam13414 561229004984 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 561229004985 binding surface 561229004986 TPR motif; other site 561229004987 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561229004988 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 561229004989 inhibitor-cofactor binding pocket; inhibition site 561229004990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229004991 catalytic residue [active] 561229004992 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 561229004993 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229004994 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561229004995 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561229004996 Homeodomain-like domain; Region: HTH_23; pfam13384 561229004997 Winged helix-turn helix; Region: HTH_29; pfam13551 561229004998 Winged helix-turn helix; Region: HTH_33; pfam13592 561229004999 DDE superfamily endonuclease; Region: DDE_3; pfam13358 561229005000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 561229005001 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 561229005002 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 561229005003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561229005004 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561229005005 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 561229005006 DNA binding residues [nucleotide binding] 561229005007 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 561229005008 hypothetical protein; Provisional; Region: PRK10536 561229005009 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229005010 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; cl01054 561229005011 dimerization interface [polypeptide binding]; other site 561229005012 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229005013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005014 dimer interface [polypeptide binding]; other site 561229005015 putative CheW interface [polypeptide binding]; other site 561229005016 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229005017 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229005018 hypothetical protein; Provisional; Region: PRK09273 561229005019 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 561229005020 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 561229005021 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 561229005022 active site 1 [active] 561229005023 dimer interface [polypeptide binding]; other site 561229005024 active site 2 [active] 561229005025 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 561229005026 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 561229005027 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 561229005028 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 561229005029 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229005030 HAMP domain; Region: HAMP; pfam00672 561229005031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005032 dimer interface [polypeptide binding]; other site 561229005033 putative CheW interface [polypeptide binding]; other site 561229005034 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 561229005035 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 561229005036 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 561229005037 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 561229005038 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 561229005039 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561229005040 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 561229005041 Ligand binding site; other site 561229005042 DXD motif; other site 561229005043 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561229005044 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561229005045 putative acyl-acceptor binding pocket; other site 561229005046 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 561229005047 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 561229005048 active site residue [active] 561229005049 hypothetical protein; Provisional; Region: PRK03757 561229005050 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 561229005051 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 561229005052 DNA damage-inducible protein I; Provisional; Region: PRK10597 561229005053 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 561229005054 active site 561229005055 substrate binding pocket [chemical binding]; other site 561229005056 dimer interface [polypeptide binding]; other site 561229005057 Uncharacterized conserved protein [Function unknown]; Region: COG1359 561229005058 ribonuclease E; Reviewed; Region: rne; PRK10811 561229005059 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 561229005060 homodimer interface [polypeptide binding]; other site 561229005061 oligonucleotide binding site [chemical binding]; other site 561229005062 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 561229005063 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 561229005064 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 561229005065 RNA binding surface [nucleotide binding]; other site 561229005066 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 561229005067 active site 561229005068 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 561229005069 active site 561229005070 dimer interface [polypeptide binding]; other site 561229005071 hypothetical protein; Provisional; Region: PRK11193 561229005072 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 561229005073 putative phosphate acyltransferase; Provisional; Region: PRK05331 561229005074 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 561229005075 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 561229005076 dimer interface [polypeptide binding]; other site 561229005077 active site 561229005078 CoA binding pocket [chemical binding]; other site 561229005079 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 561229005080 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 561229005081 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 561229005082 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 561229005083 NAD(P) binding site [chemical binding]; other site 561229005084 homotetramer interface [polypeptide binding]; other site 561229005085 homodimer interface [polypeptide binding]; other site 561229005086 active site 561229005087 acyl carrier protein; Provisional; Region: acpP; PRK00982 561229005088 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 561229005089 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 561229005090 dimer interface [polypeptide binding]; other site 561229005091 active site 561229005092 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561229005093 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 561229005094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229005095 catalytic residue [active] 561229005096 YceG-like family; Region: YceG; pfam02618 561229005097 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 561229005098 dimerization interface [polypeptide binding]; other site 561229005099 thymidylate kinase; Validated; Region: tmk; PRK00698 561229005100 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 561229005101 TMP-binding site; other site 561229005102 ATP-binding site [chemical binding]; other site 561229005103 DNA polymerase III subunit delta'; Validated; Region: PRK07993 561229005104 DNA polymerase III subunit delta'; Validated; Region: PRK08485 561229005105 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 561229005106 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561229005107 active site 561229005108 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 561229005109 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561229005110 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561229005111 active site turn [active] 561229005112 phosphorylation site [posttranslational modification] 561229005113 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 561229005114 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 561229005115 nucleotide binding site/active site [active] 561229005116 HIT family signature motif; other site 561229005117 catalytic residue [active] 561229005118 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 561229005119 putative dimer interface [polypeptide binding]; other site 561229005120 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 561229005121 thiamine kinase; Region: ycfN_thiK; TIGR02721 561229005122 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 561229005123 active site 561229005124 substrate binding site [chemical binding]; other site 561229005125 ATP binding site [chemical binding]; other site 561229005126 substrate binding site [chemical binding]; other site 561229005127 beta-hexosaminidase; Provisional; Region: PRK05337 561229005128 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 561229005129 hypothetical protein; Provisional; Region: PRK04940 561229005130 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 561229005131 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229005132 hypothetical protein; Provisional; Region: PRK11280 561229005133 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229005134 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229005135 DNA binding site [nucleotide binding] 561229005136 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 561229005137 ligand binding site [chemical binding]; other site 561229005138 dimerization interface [polypeptide binding]; other site 561229005139 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 561229005140 D-galactonate transporter; Region: 2A0114; TIGR00893 561229005141 putative substrate translocation pore; other site 561229005142 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 561229005143 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 561229005144 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 561229005145 putative active site [active] 561229005146 putative catalytic site [active] 561229005147 N-acetyltransferase; Region: Acetyltransf_2; cl00949 561229005148 putative chaperone; Provisional; Region: PRK11678 561229005149 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 561229005150 nucleotide binding site [chemical binding]; other site 561229005151 putative NEF/HSP70 interaction site [polypeptide binding]; other site 561229005152 SBD interface [polypeptide binding]; other site 561229005153 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 561229005154 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 561229005155 transcription-repair coupling factor; Provisional; Region: PRK10689 561229005156 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 561229005157 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 561229005158 ATP binding site [chemical binding]; other site 561229005159 putative Mg++ binding site [ion binding]; other site 561229005160 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 561229005161 nucleotide binding region [chemical binding]; other site 561229005162 ATP-binding site [chemical binding]; other site 561229005163 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 561229005164 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 561229005165 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229005166 FtsX-like permease family; Region: FtsX; pfam02687 561229005167 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 561229005168 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561229005169 Walker A/P-loop; other site 561229005170 ATP binding site [chemical binding]; other site 561229005171 Q-loop/lid; other site 561229005172 ABC transporter signature motif; other site 561229005173 Walker B; other site 561229005174 D-loop; other site 561229005175 H-loop/switch region; other site 561229005176 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 561229005177 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229005178 FtsX-like permease family; Region: FtsX; pfam02687 561229005179 fructokinase; Reviewed; Region: PRK09557 561229005180 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229005181 nucleotide binding site [chemical binding]; other site 561229005182 NAD-dependent deacetylase; Provisional; Region: PRK00481 561229005183 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 561229005184 NAD+ binding site [chemical binding]; other site 561229005185 substrate binding site [chemical binding]; other site 561229005186 Zn binding site [ion binding]; other site 561229005187 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561229005188 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 561229005189 dimer interface [polypeptide binding]; other site 561229005190 putative PBP binding regions; other site 561229005191 ABC-ATPase subunit interface; other site 561229005192 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 561229005193 catalytic residues [active] 561229005194 dimer interface [polypeptide binding]; other site 561229005195 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 561229005196 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561229005197 Walker A/P-loop; other site 561229005198 ATP binding site [chemical binding]; other site 561229005199 Q-loop/lid; other site 561229005200 ABC transporter signature motif; other site 561229005201 Walker B; other site 561229005202 D-loop; other site 561229005203 H-loop/switch region; other site 561229005204 NlpC/P60 family; Region: NLPC_P60; pfam00877 561229005205 EAL domain; Region: EAL; pfam00563 561229005206 hypothetical protein; Validated; Region: PRK00029 561229005207 Uncharacterized conserved protein [Function unknown]; Region: COG0397 561229005208 murein L,D-transpeptidase; Provisional; Region: PRK10594 561229005209 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561229005210 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561229005211 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561229005212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 561229005213 Peptidase M15; Region: Peptidase_M15_3; cl01194 561229005214 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 561229005215 hypothetical protein; Provisional; Region: PRK01254 561229005216 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 561229005217 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 561229005218 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 561229005219 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 561229005220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229005221 homodimer interface [polypeptide binding]; other site 561229005222 catalytic residue [active] 561229005223 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 561229005224 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 561229005225 trimer interface [polypeptide binding]; other site 561229005226 eyelet of channel; other site 561229005227 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 561229005228 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 561229005229 eyelet of channel; other site 561229005230 trimer interface [polypeptide binding]; other site 561229005231 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 561229005232 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 561229005233 putative dimer interface [polypeptide binding]; other site 561229005234 putative anticodon binding site; other site 561229005235 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 561229005236 homodimer interface [polypeptide binding]; other site 561229005237 motif 1; other site 561229005238 motif 2; other site 561229005239 active site 561229005240 motif 3; other site 561229005241 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 561229005242 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 561229005243 active site 561229005244 aminopeptidase N; Provisional; Region: pepN; PRK14015 561229005245 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 561229005246 active site 561229005247 Zn binding site [ion binding]; other site 561229005248 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 561229005249 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 561229005250 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 561229005251 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 561229005252 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561229005253 Walker A/P-loop; other site 561229005254 ATP binding site [chemical binding]; other site 561229005255 Q-loop/lid; other site 561229005256 ABC transporter signature motif; other site 561229005257 Walker B; other site 561229005258 D-loop; other site 561229005259 H-loop/switch region; other site 561229005260 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229005261 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 561229005262 dimer interface [polypeptide binding]; other site 561229005263 conserved gate region; other site 561229005264 putative PBP binding loops; other site 561229005265 ABC-ATPase subunit interface; other site 561229005266 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 561229005267 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 561229005268 active site 561229005269 dimer interface [polypeptide binding]; other site 561229005270 non-prolyl cis peptide bond; other site 561229005271 insertion regions; other site 561229005272 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 561229005273 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 561229005274 substrate binding pocket [chemical binding]; other site 561229005275 membrane-bound complex binding site; other site 561229005276 hinge residues; other site 561229005277 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 561229005278 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561229005279 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 561229005280 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 561229005281 quinone interaction residues [chemical binding]; other site 561229005282 active site 561229005283 catalytic residues [active] 561229005284 FMN binding site [chemical binding]; other site 561229005285 substrate binding site [chemical binding]; other site 561229005286 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 561229005287 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 561229005288 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 561229005289 MOSC domain; Region: MOSC; pfam03473 561229005290 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229005291 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561229005292 catalytic loop [active] 561229005293 iron binding site [ion binding]; other site 561229005294 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 561229005295 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 561229005296 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 561229005297 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 561229005298 S-adenosylmethionine binding site [chemical binding]; other site 561229005299 ABC transporter ATPase component; Reviewed; Region: PRK11147 561229005300 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229005301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229005302 Walker A/P-loop; other site 561229005303 ATP binding site [chemical binding]; other site 561229005304 Q-loop/lid; other site 561229005305 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229005306 ABC transporter signature motif; other site 561229005307 Walker B; other site 561229005308 D-loop; other site 561229005309 ABC transporter; Region: ABC_tran_2; pfam12848 561229005310 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229005311 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 561229005312 Paraquat-inducible protein A; Region: PqiA; pfam04403 561229005313 Paraquat-inducible protein A; Region: PqiA; pfam04403 561229005314 paraquat-inducible protein B; Provisional; Region: PRK10807 561229005315 mce related protein; Region: MCE; pfam02470 561229005316 mce related protein; Region: MCE; pfam02470 561229005317 mce related protein; Region: MCE; pfam02470 561229005318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 561229005319 Protein of unknown function (DUF330); Region: DUF330; pfam03886 561229005320 Ribosome modulation factor; Region: RMF; pfam04957 561229005321 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 561229005322 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561229005323 PEP synthetase regulatory protein; Provisional; Region: PRK05339 561229005324 phosphoenolpyruvate synthase; Validated; Region: PRK06464 561229005325 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 561229005326 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561229005327 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561229005328 putative inner membrane protein; Provisional; Region: PRK10983 561229005329 Domain of unknown function DUF20; Region: UPF0118; pfam01594 561229005330 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 561229005331 FAD binding domain; Region: FAD_binding_4; pfam01565 561229005332 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 561229005333 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 561229005334 CoenzymeA binding site [chemical binding]; other site 561229005335 subunit interaction site [polypeptide binding]; other site 561229005336 PHB binding site; other site 561229005337 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 561229005338 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 561229005339 putative ABC transporter; Region: ycf24; CHL00085 561229005340 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 561229005341 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 561229005342 Walker A/P-loop; other site 561229005343 ATP binding site [chemical binding]; other site 561229005344 Q-loop/lid; other site 561229005345 ABC transporter signature motif; other site 561229005346 Walker B; other site 561229005347 D-loop; other site 561229005348 H-loop/switch region; other site 561229005349 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 561229005350 FeS assembly protein SufD; Region: sufD; TIGR01981 561229005351 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561229005352 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 561229005353 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229005354 catalytic residue [active] 561229005355 cysteine desufuration protein SufE; Provisional; Region: PRK09296 561229005356 L,D-transpeptidase; Provisional; Region: PRK10190 561229005357 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561229005358 murein lipoprotein; Provisional; Region: PRK15396 561229005359 pyruvate kinase; Provisional; Region: PRK09206 561229005360 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 561229005361 domain interfaces; other site 561229005362 active site 561229005363 transcriptional antiterminator BglG; Provisional; Region: PRK09772 561229005364 CAT RNA binding domain; Region: CAT_RBD; pfam03123 561229005365 PRD domain; Region: PRD; pfam00874 561229005366 PRD domain; Region: PRD; pfam00874 561229005367 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 561229005368 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561229005369 active site turn [active] 561229005370 phosphorylation site [posttranslational modification] 561229005371 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561229005372 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 561229005373 HPr interaction site; other site 561229005374 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561229005375 active site 561229005376 phosphorylation site [posttranslational modification] 561229005377 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561229005378 beta-galactosidase; Region: BGL; TIGR03356 561229005379 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 561229005380 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561229005381 trimer interface; other site 561229005382 sugar binding site [chemical binding]; other site 561229005383 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 561229005384 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 561229005385 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 561229005386 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 561229005387 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 561229005388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229005389 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561229005390 NAD(P) binding site [chemical binding]; other site 561229005391 active site 561229005392 Cupin; Region: Cupin_6; pfam12852 561229005393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229005394 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229005395 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229005396 multidrug efflux protein; Reviewed; Region: PRK01766 561229005397 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 561229005398 cation binding site [ion binding]; other site 561229005399 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 561229005400 Lumazine binding domain; Region: Lum_binding; pfam00677 561229005401 Lumazine binding domain; Region: Lum_binding; pfam00677 561229005402 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 561229005403 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 561229005404 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 561229005405 S-adenosylmethionine binding site [chemical binding]; other site 561229005406 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 561229005407 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229005408 DNA binding site [nucleotide binding] 561229005409 domain linker motif; other site 561229005410 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 561229005411 dimerization interface [polypeptide binding]; other site 561229005412 ligand binding site [chemical binding]; other site 561229005413 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 561229005414 NlpC/P60 family; Region: NLPC_P60; pfam00877 561229005415 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 561229005416 putative GSH binding site [chemical binding]; other site 561229005417 catalytic residues [active] 561229005418 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 561229005419 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 561229005420 dimer interface [polypeptide binding]; other site 561229005421 catalytic site [active] 561229005422 putative active site [active] 561229005423 putative substrate binding site [chemical binding]; other site 561229005424 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561229005425 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 561229005426 dimer interface [polypeptide binding]; other site 561229005427 active site 561229005428 metal binding site [ion binding]; metal-binding site 561229005429 glutathione binding site [chemical binding]; other site 561229005430 transcriptional regulator SlyA; Provisional; Region: PRK03573 561229005431 MarR family; Region: MarR; pfam01047 561229005432 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 561229005433 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 561229005434 lysozyme inhibitor; Provisional; Region: PRK11372 561229005435 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 561229005436 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 561229005437 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 561229005438 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 561229005439 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 561229005440 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 561229005441 active site 561229005442 HIGH motif; other site 561229005443 dimer interface [polypeptide binding]; other site 561229005444 KMSKS motif; other site 561229005445 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 561229005446 RNA binding surface [nucleotide binding]; other site 561229005447 pyridoxamine kinase; Validated; Region: PRK05756 561229005448 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 561229005449 dimer interface [polypeptide binding]; other site 561229005450 pyridoxal binding site [chemical binding]; other site 561229005451 ATP binding site [chemical binding]; other site 561229005452 glutathionine S-transferase; Provisional; Region: PRK10542 561229005453 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 561229005454 C-terminal domain interface [polypeptide binding]; other site 561229005455 GSH binding site (G-site) [chemical binding]; other site 561229005456 dimer interface [polypeptide binding]; other site 561229005457 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 561229005458 N-terminal domain interface [polypeptide binding]; other site 561229005459 dimer interface [polypeptide binding]; other site 561229005460 substrate binding pocket (H-site) [chemical binding]; other site 561229005461 aconitate hydratase; Validated; Region: PRK09277 561229005462 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 561229005463 substrate binding site [chemical binding]; other site 561229005464 ligand binding site [chemical binding]; other site 561229005465 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 561229005466 substrate binding site [chemical binding]; other site 561229005467 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561229005468 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561229005469 peptide binding site [polypeptide binding]; other site 561229005470 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 561229005471 dimerization interface [polypeptide binding]; other site 561229005472 active site 561229005473 phosphatidylglycerophosphatase B; Provisional; Region: PRK10699 561229005474 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561229005475 active site 561229005476 Predicted membrane protein [Function unknown]; Region: COG3771 561229005477 tetratricopeptide repeat protein; Provisional; Region: PRK11788 561229005478 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 561229005479 TPR motif; other site 561229005480 binding surface 561229005481 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 561229005482 binding surface 561229005483 TPR motif; other site 561229005484 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 561229005485 active site 561229005486 dimer interface [polypeptide binding]; other site 561229005487 translation initiation factor Sui1; Validated; Region: PRK06824 561229005488 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 561229005489 putative rRNA binding site [nucleotide binding]; other site 561229005490 lipoprotein; Provisional; Region: PRK10540 561229005491 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 561229005492 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 561229005493 intersubunit interface [polypeptide binding]; other site 561229005494 active site 561229005495 Zn2+ binding site [ion binding]; other site 561229005496 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 561229005497 carbon starvation protein A; Provisional; Region: PRK15015 561229005498 Carbon starvation protein CstA; Region: CstA; pfam02554 561229005499 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 561229005500 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 561229005501 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229005502 active site 561229005503 catalytic tetrad [active] 561229005504 exoribonuclease II; Provisional; Region: PRK05054 561229005505 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 561229005506 RNB domain; Region: RNB; pfam00773 561229005507 S1 RNA binding domain; Region: S1; pfam00575 561229005508 RNA binding site [nucleotide binding]; other site 561229005509 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 561229005510 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 561229005511 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 561229005512 putative molybdopterin cofactor binding site [chemical binding]; other site 561229005513 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 561229005514 putative molybdopterin cofactor binding site; other site 561229005515 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 561229005516 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 561229005517 NAD binding site [chemical binding]; other site 561229005518 homotetramer interface [polypeptide binding]; other site 561229005519 homodimer interface [polypeptide binding]; other site 561229005520 substrate binding site [chemical binding]; other site 561229005521 active site 561229005522 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 561229005523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229005524 Walker A/P-loop; other site 561229005525 ATP binding site [chemical binding]; other site 561229005526 Q-loop/lid; other site 561229005527 ABC transporter signature motif; other site 561229005528 Walker B; other site 561229005529 D-loop; other site 561229005530 H-loop/switch region; other site 561229005531 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229005532 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 561229005533 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229005534 Walker A/P-loop; other site 561229005535 ATP binding site [chemical binding]; other site 561229005536 Q-loop/lid; other site 561229005537 ABC transporter signature motif; other site 561229005538 Walker B; other site 561229005539 D-loop; other site 561229005540 H-loop/switch region; other site 561229005541 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229005542 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 561229005543 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561229005544 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 561229005545 dimer interface [polypeptide binding]; other site 561229005546 conserved gate region; other site 561229005547 putative PBP binding loops; other site 561229005548 ABC-ATPase subunit interface; other site 561229005549 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 561229005550 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 561229005551 dimer interface [polypeptide binding]; other site 561229005552 conserved gate region; other site 561229005553 putative PBP binding loops; other site 561229005554 ABC-ATPase subunit interface; other site 561229005555 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 561229005556 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561229005557 peptide binding site [polypeptide binding]; other site 561229005558 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 561229005559 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 561229005560 Walker A motif; other site 561229005561 ATP binding site [chemical binding]; other site 561229005562 Walker B motif; other site 561229005563 arginine finger; other site 561229005564 phage shock protein PspA; Provisional; Region: PRK10698 561229005565 phage shock protein B; Provisional; Region: pspB; PRK09458 561229005566 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 561229005567 phage shock protein C; Region: phageshock_pspC; TIGR02978 561229005568 Predicted ATPase [General function prediction only]; Region: COG3106 561229005569 hypothetical protein; Provisional; Region: PRK05415 561229005570 Domain of unknown function (DUF697); Region: DUF697; cl12064 561229005571 benzoate transport; Region: 2A0115; TIGR00895 561229005572 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 561229005573 putative substrate translocation pore; other site 561229005574 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 561229005575 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 561229005576 hypothetical protein; Provisional; Region: PRK06446 561229005577 metal binding site [ion binding]; metal-binding site 561229005578 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 561229005579 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 561229005580 putative aromatic amino acid binding site; other site 561229005581 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 561229005582 putative active site [active] 561229005583 heme pocket [chemical binding]; other site 561229005584 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 561229005585 Walker A motif; other site 561229005586 ATP binding site [chemical binding]; other site 561229005587 Walker B motif; other site 561229005588 arginine finger; other site 561229005589 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561229005590 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561229005591 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 561229005592 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 561229005593 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 561229005594 active site 561229005595 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 561229005596 salt bridge; other site 561229005597 non-specific DNA binding site [nucleotide binding]; other site 561229005598 sequence-specific DNA binding site [nucleotide binding]; other site 561229005599 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 561229005600 putative substrate translocation pore; other site 561229005601 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 561229005602 dimer interface [polypeptide binding]; other site 561229005603 catalytic triad [active] 561229005604 peroxidatic and resolving cysteines [active] 561229005605 murein peptide amidase A; Provisional; Region: PRK10602 561229005606 active site 561229005607 Zn binding site [ion binding]; other site 561229005608 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561229005609 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561229005610 peptide binding site [polypeptide binding]; other site 561229005611 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 561229005612 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 561229005613 Cl binding site [ion binding]; other site 561229005614 oligomer interface [polypeptide binding]; other site 561229005615 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 561229005616 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 561229005617 Ligand Binding Site [chemical binding]; other site 561229005618 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 561229005619 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229005620 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 561229005621 dimerization interface [polypeptide binding]; other site 561229005622 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005623 dimer interface [polypeptide binding]; other site 561229005624 putative CheW interface [polypeptide binding]; other site 561229005625 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 561229005626 Domain of unknown function (DUF333); Region: DUF333; pfam03891 561229005627 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 561229005628 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 561229005629 putative ligand binding site [chemical binding]; other site 561229005630 putative NAD binding site [chemical binding]; other site 561229005631 catalytic site [active] 561229005632 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 561229005633 PAS domain; Region: PAS_9; pfam13426 561229005634 putative active site [active] 561229005635 heme pocket [chemical binding]; other site 561229005636 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229005637 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005638 dimer interface [polypeptide binding]; other site 561229005639 putative CheW interface [polypeptide binding]; other site 561229005640 hypothetical protein; Provisional; Region: PRK10695 561229005641 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 561229005642 azoreductase; Reviewed; Region: PRK00170 561229005643 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561229005644 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 561229005645 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 561229005646 ATP binding site [chemical binding]; other site 561229005647 putative Mg++ binding site [ion binding]; other site 561229005648 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 561229005649 nucleotide binding region [chemical binding]; other site 561229005650 ATP-binding site [chemical binding]; other site 561229005651 Helicase associated domain (HA2); Region: HA2; pfam04408 561229005652 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 561229005653 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 561229005654 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 561229005655 L-lactate permease; Region: Lactate_perm; cl00701 561229005656 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 561229005657 sensor protein RstB; Provisional; Region: PRK10604 561229005658 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 561229005659 dimerization interface [polypeptide binding]; other site 561229005660 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 561229005661 dimer interface [polypeptide binding]; other site 561229005662 phosphorylation site [posttranslational modification] 561229005663 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 561229005664 ATP binding site [chemical binding]; other site 561229005665 G-X-G motif; other site 561229005666 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 561229005667 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 561229005668 active site 561229005669 phosphorylation site [posttranslational modification] 561229005670 intermolecular recognition site; other site 561229005671 dimerization interface [polypeptide binding]; other site 561229005672 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 561229005673 DNA binding site [nucleotide binding] 561229005674 putative transporter; Provisional; Region: PRK11660 561229005675 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 561229005676 Sulfate transporter family; Region: Sulfate_transp; pfam00916 561229005677 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 561229005678 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 561229005679 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561229005680 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 561229005681 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 561229005682 putative active site pocket [active] 561229005683 dimerization interface [polypeptide binding]; other site 561229005684 putative catalytic residue [active] 561229005685 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229005686 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 561229005687 dimer interface [polypeptide binding]; other site 561229005688 conserved gate region; other site 561229005689 putative PBP binding loops; other site 561229005690 ABC-ATPase subunit interface; other site 561229005691 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561229005692 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561229005693 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 561229005694 dimer interface [polypeptide binding]; other site 561229005695 conserved gate region; other site 561229005696 ABC-ATPase subunit interface; other site 561229005697 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229005698 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 561229005699 Walker A/P-loop; other site 561229005700 ATP binding site [chemical binding]; other site 561229005701 Q-loop/lid; other site 561229005702 ABC transporter signature motif; other site 561229005703 Walker B; other site 561229005704 D-loop; other site 561229005705 H-loop/switch region; other site 561229005706 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 561229005707 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229005708 Walker A/P-loop; other site 561229005709 ATP binding site [chemical binding]; other site 561229005710 Q-loop/lid; other site 561229005711 ABC transporter signature motif; other site 561229005712 Walker B; other site 561229005713 D-loop; other site 561229005714 H-loop/switch region; other site 561229005715 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229005716 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 561229005717 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 561229005718 active site 561229005719 metal binding site [ion binding]; metal-binding site 561229005720 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 561229005721 PAS domain; Region: PAS_9; pfam13426 561229005722 putative active site [active] 561229005723 heme pocket [chemical binding]; other site 561229005724 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229005725 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; cl01054 561229005726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005727 dimer interface [polypeptide binding]; other site 561229005728 putative CheW interface [polypeptide binding]; other site 561229005729 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 561229005730 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229005731 dimer interface [polypeptide binding]; other site 561229005732 ligand binding site [chemical binding]; other site 561229005733 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 561229005734 dimerization interface [polypeptide binding]; other site 561229005735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005736 dimer interface [polypeptide binding]; other site 561229005737 putative CheW interface [polypeptide binding]; other site 561229005738 GAF domain; Region: GAF; pfam01590 561229005739 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561229005740 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 561229005741 PAS domain; Region: PAS_9; pfam13426 561229005742 putative active site [active] 561229005743 heme pocket [chemical binding]; other site 561229005744 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 561229005745 PAS domain; Region: PAS_9; pfam13426 561229005746 putative active site [active] 561229005747 heme pocket [chemical binding]; other site 561229005748 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229005749 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229005750 metal binding site [ion binding]; metal-binding site 561229005751 active site 561229005752 I-site; other site 561229005753 guanine deaminase; Provisional; Region: PRK09228 561229005754 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 561229005755 active site 561229005756 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 561229005757 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 561229005758 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 561229005759 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 561229005760 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 561229005761 major tail tube protein; Provisional; Region: FII; PHA02600 561229005762 major tail sheath protein; Provisional; Region: FI; PHA02560 561229005763 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 561229005764 Phage Tail Collar Domain; Region: Collar; pfam07484 561229005765 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 561229005766 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 561229005767 catalytic residues [active] 561229005768 catalytic nucleophile [active] 561229005769 Presynaptic Site I dimer interface [polypeptide binding]; other site 561229005770 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 561229005771 Synaptic Flat tetramer interface [polypeptide binding]; other site 561229005772 Synaptic Site I dimer interface [polypeptide binding]; other site 561229005773 DNA binding site [nucleotide binding] 561229005774 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 561229005775 DNA-binding interface [nucleotide binding]; DNA binding site 561229005776 Phage Tail Collar Domain; Region: Collar; pfam07484 561229005777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 561229005778 Smr domain; Region: Smr; pfam01713 561229005779 benzoate transport; Region: 2A0115; TIGR00895 561229005780 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 561229005781 putative substrate translocation pore; other site 561229005782 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 561229005783 SdiA-regulated; Region: SdiA-regulated; cd09971 561229005784 putative active site [active] 561229005785 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 561229005786 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561229005787 Phage Tail Collar Domain; Region: Collar; pfam07484 561229005788 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 561229005789 baseplate assembly protein; Provisional; Region: J; PHA02568 561229005790 baseplate wedge subunit; Provisional; Region: W; PHA02516 561229005791 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 561229005792 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 561229005793 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 561229005794 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 561229005795 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 561229005796 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 561229005797 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 561229005798 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 561229005799 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 561229005800 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229005801 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 561229005802 dimerization interface [polypeptide binding]; other site 561229005803 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005804 dimer interface [polypeptide binding]; other site 561229005805 putative CheW interface [polypeptide binding]; other site 561229005806 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 561229005807 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 561229005808 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 561229005809 S-adenosylmethionine binding site [chemical binding]; other site 561229005810 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 561229005811 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 561229005812 mce related protein; Region: MCE; pfam02470 561229005813 mce related protein; Region: MCE; pfam02470 561229005814 mce related protein; Region: MCE; pfam02470 561229005815 mce related protein; Region: MCE; pfam02470 561229005816 mce related protein; Region: MCE; pfam02470 561229005817 mce related protein; Region: MCE; pfam02470 561229005818 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 561229005819 Paraquat-inducible protein A; Region: PqiA; pfam04403 561229005820 Paraquat-inducible protein A; Region: PqiA; pfam04403 561229005821 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 561229005822 GAF domain; Region: GAF_2; pfam13185 561229005823 ProP expression regulator; Provisional; Region: PRK04950 561229005824 ProQ/FINO family; Region: ProQ; pfam04352 561229005825 carboxy-terminal protease; Provisional; Region: PRK11186 561229005826 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 561229005827 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 561229005828 protein binding site [polypeptide binding]; other site 561229005829 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 561229005830 Catalytic dyad [active] 561229005831 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 561229005832 Protein of unknown function, DUF481; Region: DUF481; pfam04338 561229005833 Acyltransferase family; Region: Acyl_transf_3; pfam01757 561229005834 transcriptional regulator NarL; Provisional; Region: PRK10651 561229005835 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 561229005836 active site 561229005837 phosphorylation site [posttranslational modification] 561229005838 intermolecular recognition site; other site 561229005839 dimerization interface [polypeptide binding]; other site 561229005840 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 561229005841 DNA binding residues [nucleotide binding] 561229005842 dimerization interface [polypeptide binding]; other site 561229005843 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 561229005844 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 561229005845 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 561229005846 dimerization interface [polypeptide binding]; other site 561229005847 Histidine kinase; Region: HisKA_3; pfam07730 561229005848 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 561229005849 ATP binding site [chemical binding]; other site 561229005850 Mg2+ binding site [ion binding]; other site 561229005851 G-X-G motif; other site 561229005852 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 561229005853 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561229005854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229005855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229005856 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229005857 putative effector binding pocket; other site 561229005858 dimerization interface [polypeptide binding]; other site 561229005859 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 561229005860 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 561229005861 [4Fe-4S] binding site [ion binding]; other site 561229005862 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 561229005863 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 561229005864 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 561229005865 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 561229005866 molybdopterin cofactor binding site; other site 561229005867 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 561229005868 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 561229005869 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 561229005870 putative alcohol dehydrogenase; Provisional; Region: PRK09860 561229005871 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 561229005872 dimer interface [polypeptide binding]; other site 561229005873 active site 561229005874 metal binding site [ion binding]; metal-binding site 561229005875 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 561229005876 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 561229005877 EcsC protein family; Region: EcsC; pfam12787 561229005878 methionine synthase; Provisional; Region: PRK01207 561229005879 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 561229005880 substrate binding site [chemical binding]; other site 561229005881 THF binding site; other site 561229005882 zinc-binding site [ion binding]; other site 561229005883 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 561229005884 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 561229005885 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561229005886 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 561229005887 Walker A/P-loop; other site 561229005888 ATP binding site [chemical binding]; other site 561229005889 Q-loop/lid; other site 561229005890 ABC transporter signature motif; other site 561229005891 Walker B; other site 561229005892 D-loop; other site 561229005893 H-loop/switch region; other site 561229005894 TOBE domain; Region: TOBE_2; pfam08402 561229005895 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 561229005896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229005897 DNA-binding site [nucleotide binding]; DNA binding site 561229005898 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 561229005899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229005900 homodimer interface [polypeptide binding]; other site 561229005901 catalytic residue [active] 561229005902 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 561229005903 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 561229005904 inhibitor-cofactor binding pocket; inhibition site 561229005905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229005906 catalytic residue [active] 561229005907 succinic semialdehyde dehydrogenase; Region: PLN02278 561229005908 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 561229005909 tetramerization interface [polypeptide binding]; other site 561229005910 NAD(P) binding site [chemical binding]; other site 561229005911 catalytic residues [active] 561229005912 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 561229005913 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561229005914 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 561229005915 dimer interface [polypeptide binding]; other site 561229005916 conserved gate region; other site 561229005917 putative PBP binding loops; other site 561229005918 ABC-ATPase subunit interface; other site 561229005919 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561229005920 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 561229005921 dimer interface [polypeptide binding]; other site 561229005922 conserved gate region; other site 561229005923 putative PBP binding loops; other site 561229005924 ABC-ATPase subunit interface; other site 561229005925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229005926 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 561229005927 putative effector binding pocket; other site 561229005928 putative dimerization interface [polypeptide binding]; other site 561229005929 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561229005930 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 561229005931 C-terminal domain interface [polypeptide binding]; other site 561229005932 GSH binding site (G-site) [chemical binding]; other site 561229005933 dimer interface [polypeptide binding]; other site 561229005934 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 561229005935 putative N-terminal domain interface [polypeptide binding]; other site 561229005936 putative dimer interface [polypeptide binding]; other site 561229005937 putative substrate binding pocket (H-site) [chemical binding]; other site 561229005938 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 561229005939 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561229005940 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561229005941 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229005942 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561229005943 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 561229005944 active site 561229005945 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 561229005946 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 561229005947 active site 561229005948 motif I; other site 561229005949 motif II; other site 561229005950 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 561229005951 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229005952 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 561229005953 dimerization interface [polypeptide binding]; other site 561229005954 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229005955 dimer interface [polypeptide binding]; other site 561229005956 putative CheW interface [polypeptide binding]; other site 561229005957 microcin B17 transporter; Reviewed; Region: PRK11098 561229005958 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 561229005959 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 561229005960 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 561229005961 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 561229005962 type III secretion system protein YscR; Provisional; Region: PRK12797 561229005963 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 561229005964 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 561229005965 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 561229005966 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 561229005967 Walker A motif; other site 561229005968 ATP binding site [chemical binding]; other site 561229005969 Walker B motif; other site 561229005970 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 561229005971 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 561229005972 FHIPEP family; Region: FHIPEP; pfam00771 561229005973 HrpJ-like domain; Region: HrpJ; cl15454 561229005974 TyeA; Region: TyeA; cl07611 561229005975 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 561229005976 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561229005977 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 561229005978 DNA binding residues [nucleotide binding] 561229005979 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 561229005980 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 561229005981 putative active site [active] 561229005982 heme pocket [chemical binding]; other site 561229005983 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 561229005984 putative active site [active] 561229005985 heme pocket [chemical binding]; other site 561229005986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 561229005987 Histidine kinase; Region: HisKA_3; pfam07730 561229005988 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 561229005989 ATP binding site [chemical binding]; other site 561229005990 Mg2+ binding site [ion binding]; other site 561229005991 G-X-G motif; other site 561229005992 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561229005993 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 561229005994 active site 561229005995 phosphorylation site [posttranslational modification] 561229005996 intermolecular recognition site; other site 561229005997 dimerization interface [polypeptide binding]; other site 561229005998 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 561229005999 DNA binding residues [nucleotide binding] 561229006000 dimerization interface [polypeptide binding]; other site 561229006001 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 561229006002 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 561229006003 Walker A motif; other site 561229006004 ATP binding site [chemical binding]; other site 561229006005 Walker B motif; other site 561229006006 arginine finger; other site 561229006007 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 561229006008 Type III secretion needle MxiH like; Region: MxiH; pfam09392 561229006009 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 561229006010 HrpE/YscL/FliH and V-type ATPase subunit E; Region: HrpE; pfam06188 561229006011 Transglycosylase SLT domain; Region: SLT_2; pfam13406 561229006012 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 561229006013 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229006014 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561229006015 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229006016 HrpF protein; Region: HrpF; pfam06266 561229006017 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 561229006018 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229006019 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561229006020 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 561229006021 HrpZ; Region: Hairpins; pfam04877 561229006022 Cupin domain; Region: Cupin_2; cl17218 561229006023 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 561229006024 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 561229006025 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 561229006026 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561229006027 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561229006028 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561229006029 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561229006030 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 561229006031 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561229006032 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 561229006033 non-specific DNA binding site [nucleotide binding]; other site 561229006034 salt bridge; other site 561229006035 sequence-specific DNA binding site [nucleotide binding]; other site 561229006036 CHC2 zinc finger; Region: zf-CHC2; cl17510 561229006037 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 561229006038 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 561229006039 active site 561229006040 metal binding site [ion binding]; metal-binding site 561229006041 interdomain interaction site; other site 561229006042 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 561229006043 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 561229006044 active site 561229006045 DNA binding site [nucleotide binding] 561229006046 Int/Topo IB signature motif; other site 561229006047 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 561229006048 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 561229006049 non-specific DNA binding site [nucleotide binding]; other site 561229006050 salt bridge; other site 561229006051 sequence-specific DNA binding site [nucleotide binding]; other site 561229006052 CHC2 zinc finger; Region: zf-CHC2; cl17510 561229006053 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 561229006054 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 561229006055 active site 561229006056 metal binding site [ion binding]; metal-binding site 561229006057 interdomain interaction site; other site 561229006058 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 561229006059 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 561229006060 active site 561229006061 DNA binding site [nucleotide binding] 561229006062 Int/Topo IB signature motif; other site 561229006063 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 561229006064 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561229006065 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 561229006066 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561229006067 FeoA domain; Region: FeoA; pfam04023 561229006068 FeoA domain; Region: FeoA; pfam04023 561229006069 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 561229006070 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 561229006071 G1 box; other site 561229006072 GTP/Mg2+ binding site [chemical binding]; other site 561229006073 Switch I region; other site 561229006074 G2 box; other site 561229006075 G3 box; other site 561229006076 Switch II region; other site 561229006077 G4 box; other site 561229006078 G5 box; other site 561229006079 Nucleoside recognition; Region: Gate; pfam07670 561229006080 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 561229006081 Nucleoside recognition; Region: Gate; pfam07670 561229006082 FeoC like transcriptional regulator; Region: FeoC; pfam09012 561229006083 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 561229006084 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 561229006085 metal binding site [ion binding]; metal-binding site 561229006086 dimer interface [polypeptide binding]; other site 561229006087 Uncharacterized conserved protein [Function unknown]; Region: COG2850 561229006088 sensor protein PhoQ; Provisional; Region: PRK10815 561229006089 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 561229006090 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 561229006091 dimer interface [polypeptide binding]; other site 561229006092 phosphorylation site [posttranslational modification] 561229006093 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 561229006094 ATP binding site [chemical binding]; other site 561229006095 Mg2+ binding site [ion binding]; other site 561229006096 G-X-G motif; other site 561229006097 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 561229006098 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 561229006099 active site 561229006100 phosphorylation site [posttranslational modification] 561229006101 intermolecular recognition site; other site 561229006102 dimerization interface [polypeptide binding]; other site 561229006103 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 561229006104 DNA binding site [nucleotide binding] 561229006105 adenylosuccinate lyase; Provisional; Region: PRK09285 561229006106 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 561229006107 tetramer interface [polypeptide binding]; other site 561229006108 active site 561229006109 putative lysogenization regulator; Reviewed; Region: PRK00218 561229006110 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 561229006111 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 561229006112 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 561229006113 nudix motif; other site 561229006114 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 561229006115 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 561229006116 probable active site [active] 561229006117 isocitrate dehydrogenase; Validated; Region: PRK07362 561229006118 isocitrate dehydrogenase; Reviewed; Region: PRK07006 561229006119 GAF domain; Region: GAF; pfam01590 561229006120 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561229006121 PAS domain S-box; Region: sensory_box; TIGR00229 561229006122 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 561229006123 putative active site [active] 561229006124 heme pocket [chemical binding]; other site 561229006125 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229006126 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229006127 metal binding site [ion binding]; metal-binding site 561229006128 active site 561229006129 I-site; other site 561229006130 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 561229006131 heat shock protein HtpX; Provisional; Region: PRK05457 561229006132 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 561229006133 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561229006134 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 561229006135 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 561229006136 dimerization interface [polypeptide binding]; other site 561229006137 putative Zn2+ binding site [ion binding]; other site 561229006138 putative DNA binding site [nucleotide binding]; other site 561229006139 Bacterial transcriptional regulator; Region: IclR; pfam01614 561229006140 YebO-like protein; Region: YebO; pfam13974 561229006141 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 561229006142 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 561229006143 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 561229006144 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 561229006145 active site 561229006146 dimer interface [polypeptide binding]; other site 561229006147 motif 1; other site 561229006148 motif 2; other site 561229006149 motif 3; other site 561229006150 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 561229006151 anticodon binding site; other site 561229006152 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 561229006153 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 561229006154 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 561229006155 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 561229006156 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 561229006157 23S rRNA binding site [nucleotide binding]; other site 561229006158 L21 binding site [polypeptide binding]; other site 561229006159 L13 binding site [polypeptide binding]; other site 561229006160 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 561229006161 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 561229006162 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 561229006163 dimer interface [polypeptide binding]; other site 561229006164 motif 1; other site 561229006165 active site 561229006166 motif 2; other site 561229006167 motif 3; other site 561229006168 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 561229006169 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 561229006170 putative tRNA-binding site [nucleotide binding]; other site 561229006171 B3/4 domain; Region: B3_4; pfam03483 561229006172 tRNA synthetase B5 domain; Region: B5; smart00874 561229006173 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 561229006174 dimer interface [polypeptide binding]; other site 561229006175 motif 1; other site 561229006176 motif 3; other site 561229006177 motif 2; other site 561229006178 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 561229006179 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 561229006180 IHF dimer interface [polypeptide binding]; other site 561229006181 IHF - DNA interface [nucleotide binding]; other site 561229006182 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 561229006183 aromatic amino acid exporter; Provisional; Region: PRK11689 561229006184 EamA-like transporter family; Region: EamA; pfam00892 561229006185 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 561229006186 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 561229006187 homodimer interface [polypeptide binding]; other site 561229006188 NAD binding pocket [chemical binding]; other site 561229006189 ATP binding pocket [chemical binding]; other site 561229006190 Mg binding site [ion binding]; other site 561229006191 active-site loop [active] 561229006192 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 561229006193 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 561229006194 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561229006195 inner membrane protein; Provisional; Region: PRK11648 561229006196 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 561229006197 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229006198 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; pfam06178 561229006199 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561229006200 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561229006201 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561229006202 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561229006203 Walker A/P-loop; other site 561229006204 ATP binding site [chemical binding]; other site 561229006205 Q-loop/lid; other site 561229006206 ABC transporter signature motif; other site 561229006207 Walker B; other site 561229006208 D-loop; other site 561229006209 H-loop/switch region; other site 561229006210 TOBE domain; Region: TOBE_2; pfam08402 561229006211 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229006212 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 561229006213 dimer interface [polypeptide binding]; other site 561229006214 conserved gate region; other site 561229006215 putative PBP binding loops; other site 561229006216 ABC-ATPase subunit interface; other site 561229006217 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 561229006218 dimer interface [polypeptide binding]; other site 561229006219 conserved gate region; other site 561229006220 putative PBP binding loops; other site 561229006221 ABC-ATPase subunit interface; other site 561229006222 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 561229006223 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 561229006224 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 561229006225 NADP binding site [chemical binding]; other site 561229006226 homodimer interface [polypeptide binding]; other site 561229006227 active site 561229006228 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 561229006229 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 561229006230 YniB-like protein; Region: YniB; pfam14002 561229006231 Phosphotransferase enzyme family; Region: APH; pfam01636 561229006232 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 561229006233 active site 561229006234 ATP binding site [chemical binding]; other site 561229006235 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 561229006236 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 561229006237 DNA-binding site [nucleotide binding]; DNA binding site 561229006238 RNA-binding motif; other site 561229006239 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 561229006240 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 561229006241 S-adenosylmethionine binding site [chemical binding]; other site 561229006242 hypothetical protein; Provisional; Region: PRK11469 561229006243 Domain of unknown function DUF; Region: DUF204; pfam02659 561229006244 Domain of unknown function DUF; Region: DUF204; pfam02659 561229006245 hypothetical protein; Provisional; Region: PRK02913 561229006246 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 561229006247 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 561229006248 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 561229006249 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 561229006250 active pocket/dimerization site; other site 561229006251 active site 561229006252 phosphorylation site [posttranslational modification] 561229006253 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 561229006254 active site 561229006255 phosphorylation site [posttranslational modification] 561229006256 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561229006257 FOG: CBS domain [General function prediction only]; Region: COG0517 561229006258 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 561229006259 Transporter associated domain; Region: CorC_HlyC; smart01091 561229006260 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 561229006261 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 561229006262 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 561229006263 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 561229006264 putative active site [active] 561229006265 putative CoA binding site [chemical binding]; other site 561229006266 nudix motif; other site 561229006267 metal binding site [ion binding]; metal-binding site 561229006268 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 561229006269 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 561229006270 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561229006271 hypothetical protein; Provisional; Region: PRK05114 561229006272 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 561229006273 homotrimer interaction site [polypeptide binding]; other site 561229006274 putative active site [active] 561229006275 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 561229006276 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 561229006277 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 561229006278 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 561229006279 Glycoprotease family; Region: Peptidase_M22; pfam00814 561229006280 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 561229006281 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 561229006282 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 561229006283 acyl-activating enzyme (AAE) consensus motif; other site 561229006284 putative AMP binding site [chemical binding]; other site 561229006285 putative active site [active] 561229006286 putative CoA binding site [chemical binding]; other site 561229006287 ribonuclease D; Provisional; Region: PRK10829 561229006288 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 561229006289 catalytic site [active] 561229006290 putative active site [active] 561229006291 putative substrate binding site [chemical binding]; other site 561229006292 HRDC domain; Region: HRDC; pfam00570 561229006293 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 561229006294 cell division inhibitor MinD; Provisional; Region: PRK10818 561229006295 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 561229006296 Switch I; other site 561229006297 Switch II; other site 561229006298 septum formation inhibitor; Reviewed; Region: minC; PRK03511 561229006299 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 561229006300 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 561229006301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 561229006302 hypothetical protein; Provisional; Region: PRK10691 561229006303 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 561229006304 hypothetical protein; Provisional; Region: PRK05170 561229006305 disulfide bond formation protein B; Provisional; Region: PRK01749 561229006306 fatty acid metabolism regulator; Provisional; Region: PRK04984 561229006307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229006308 DNA-binding site [nucleotide binding]; DNA binding site 561229006309 FadR C-terminal domain; Region: FadR_C; pfam07840 561229006310 SpoVR family protein; Provisional; Region: PRK11767 561229006311 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 561229006312 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 561229006313 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561229006314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 561229006315 MULE transposase domain; Region: MULE; pfam10551 561229006316 haemagglutination activity domain; Region: Haemagg_act; pfam05860 561229006317 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561229006318 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561229006319 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 561229006320 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561229006321 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 561229006322 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561229006323 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229006324 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 561229006325 C factor cell-cell signaling protein; Provisional; Region: PRK09009 561229006326 NADP binding site [chemical binding]; other site 561229006327 homodimer interface [polypeptide binding]; other site 561229006328 active site 561229006329 Pectate lyase; Region: Pectate_lyase; pfam03211 561229006330 Pathogenicity factor; Region: AvrE; pfam11725 561229006331 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 561229006332 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 561229006333 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 561229006334 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 561229006335 Part of AAA domain; Region: AAA_19; pfam13245 561229006336 Family description; Region: UvrD_C_2; pfam13538 561229006337 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 561229006338 AAA domain; Region: AAA_30; pfam13604 561229006339 Family description; Region: UvrD_C_2; pfam13538 561229006340 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 561229006341 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 561229006342 ATP binding site [chemical binding]; other site 561229006343 Mg++ binding site [ion binding]; other site 561229006344 motif III; other site 561229006345 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 561229006346 nucleotide binding region [chemical binding]; other site 561229006347 ATP-binding site [chemical binding]; other site 561229006348 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 561229006349 putative RNA binding site [nucleotide binding]; other site 561229006350 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561229006351 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 561229006352 FMN binding site [chemical binding]; other site 561229006353 active site 561229006354 substrate binding site [chemical binding]; other site 561229006355 catalytic residue [active] 561229006356 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 561229006357 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229006358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229006359 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 561229006360 putative effector binding pocket; other site 561229006361 putative dimerization interface [polypeptide binding]; other site 561229006362 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 561229006363 TPR motif; other site 561229006364 binding surface 561229006365 short chain dehydrogenase; Provisional; Region: PRK09072 561229006366 classical (c) SDRs; Region: SDR_c; cd05233 561229006367 NAD(P) binding site [chemical binding]; other site 561229006368 active site 561229006369 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 561229006370 heme binding pocket [chemical binding]; other site 561229006371 heme ligand [chemical binding]; other site 561229006372 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 561229006373 AMP-binding enzyme; Region: AMP-binding; pfam00501 561229006374 acyl-activating enzyme (AAE) consensus motif; other site 561229006375 AMP binding site [chemical binding]; other site 561229006376 active site 561229006377 CoA binding site [chemical binding]; other site 561229006378 Thermostable hemolysin; Region: T_hemolysin; pfam12261 561229006379 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 561229006380 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561229006381 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561229006382 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561229006383 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 561229006384 active site 561229006385 phosphorylation site [posttranslational modification] 561229006386 intermolecular recognition site; other site 561229006387 dimerization interface [polypeptide binding]; other site 561229006388 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 561229006389 DNA binding site [nucleotide binding] 561229006390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561229006391 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 561229006392 dimer interface [polypeptide binding]; other site 561229006393 phosphorylation site [posttranslational modification] 561229006394 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 561229006395 ATP binding site [chemical binding]; other site 561229006396 Mg2+ binding site [ion binding]; other site 561229006397 G-X-G motif; other site 561229006398 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 561229006399 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 561229006400 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 561229006401 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 561229006402 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561229006403 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 561229006404 Type IV pili component [Cell motility and secretion]; Region: COG5461 561229006405 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 561229006406 active site 561229006407 phosphorylation site [posttranslational modification] 561229006408 intermolecular recognition site; other site 561229006409 dimerization interface [polypeptide binding]; other site 561229006410 AAA domain; Region: AAA_31; pfam13614 561229006411 Type II/IV secretion system protein; Region: T2SE; pfam00437 561229006412 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 561229006413 ATP binding site [chemical binding]; other site 561229006414 Walker A motif; other site 561229006415 hexamer interface [polypeptide binding]; other site 561229006416 Walker B motif; other site 561229006417 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 561229006418 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229006419 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 561229006420 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229006421 Tetratricopeptide repeat; Region: TPR_12; pfam13424 561229006422 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 561229006423 binding surface 561229006424 TPR motif; other site 561229006425 TPR repeat; Region: TPR_11; pfam13414 561229006426 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 561229006427 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 561229006428 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229006429 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561229006430 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561229006431 Cadherin repeat-like domain; Region: CA_like; cl15786 561229006432 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229006433 Ca2+ binding site [ion binding]; other site 561229006434 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 561229006435 Outer membrane efflux protein; Region: OEP; pfam02321 561229006436 Outer membrane efflux protein; Region: OEP; pfam02321 561229006437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229006438 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229006439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229006440 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229006441 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 561229006442 active site 561229006443 putative substrate binding region [chemical binding]; other site 561229006444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229006445 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229006446 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229006447 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 561229006448 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561229006449 FMN binding site [chemical binding]; other site 561229006450 active site 561229006451 substrate binding site [chemical binding]; other site 561229006452 catalytic residue [active] 561229006453 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 561229006454 classical (c) SDRs; Region: SDR_c; cd05233 561229006455 NAD(P) binding site [chemical binding]; other site 561229006456 active site 561229006457 short chain dehydrogenase; Provisional; Region: PRK06179 561229006458 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561229006459 NADP binding site [chemical binding]; other site 561229006460 active site 561229006461 steroid binding site; other site 561229006462 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561229006463 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 561229006464 putative NAD(P) binding site [chemical binding]; other site 561229006465 GTP-binding protein YchF; Reviewed; Region: PRK09601 561229006466 YchF GTPase; Region: YchF; cd01900 561229006467 G1 box; other site 561229006468 GTP/Mg2+ binding site [chemical binding]; other site 561229006469 Switch I region; other site 561229006470 G2 box; other site 561229006471 Switch II region; other site 561229006472 G3 box; other site 561229006473 G4 box; other site 561229006474 G5 box; other site 561229006475 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 561229006476 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 561229006477 putative active site [active] 561229006478 catalytic residue [active] 561229006479 hypothetical protein; Provisional; Region: PRK10692 561229006480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229006481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229006482 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561229006483 putative effector binding pocket; other site 561229006484 putative dimerization interface [polypeptide binding]; other site 561229006485 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 561229006486 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 561229006487 potential catalytic triad [active] 561229006488 conserved cys residue [active] 561229006489 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 561229006490 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 561229006491 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229006492 active site 561229006493 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 561229006494 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561229006495 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 561229006496 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 561229006497 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 561229006498 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 561229006499 tRNA; other site 561229006500 putative tRNA binding site [nucleotide binding]; other site 561229006501 putative NADP binding site [chemical binding]; other site 561229006502 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 561229006503 peptide chain release factor 1; Validated; Region: prfA; PRK00591 561229006504 This domain is found in peptide chain release factors; Region: PCRF; smart00937 561229006505 RF-1 domain; Region: RF-1; pfam00472 561229006506 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 561229006507 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 561229006508 hypothetical protein; Provisional; Region: PRK10941 561229006509 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 561229006510 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 561229006511 binding surface 561229006512 TPR motif; other site 561229006513 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561229006514 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 561229006515 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561229006516 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561229006517 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561229006518 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 561229006519 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 561229006520 ligand binding site [chemical binding]; other site 561229006521 homodimer interface [polypeptide binding]; other site 561229006522 NAD(P) binding site [chemical binding]; other site 561229006523 trimer interface B [polypeptide binding]; other site 561229006524 trimer interface A [polypeptide binding]; other site 561229006525 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 561229006526 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 561229006527 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 561229006528 universal stress protein UspE; Provisional; Region: PRK11175 561229006529 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 561229006530 Ligand Binding Site [chemical binding]; other site 561229006531 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 561229006532 Ligand Binding Site [chemical binding]; other site 561229006533 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 561229006534 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 561229006535 ligand binding site [chemical binding]; other site 561229006536 flexible hinge region; other site 561229006537 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 561229006538 putative switch regulator; other site 561229006539 non-specific DNA interactions [nucleotide binding]; other site 561229006540 DNA binding site [nucleotide binding] 561229006541 sequence specific DNA binding site [nucleotide binding]; other site 561229006542 putative cAMP binding site [chemical binding]; other site 561229006543 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 561229006544 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 561229006545 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 561229006546 DNA binding site [nucleotide binding] 561229006547 active site 561229006548 FIST N domain; Region: FIST; smart00897 561229006549 FIST C domain; Region: FIST_C; pfam10442 561229006550 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229006551 dimer interface [polypeptide binding]; other site 561229006552 putative CheW interface [polypeptide binding]; other site 561229006553 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229006554 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 561229006555 dimerization interface [polypeptide binding]; other site 561229006556 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229006557 dimer interface [polypeptide binding]; other site 561229006558 putative CheW interface [polypeptide binding]; other site 561229006559 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 561229006560 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 561229006561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229006562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229006563 LysR substrate binding domain; Region: LysR_substrate; pfam03466 561229006564 dimerization interface [polypeptide binding]; other site 561229006565 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561229006566 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561229006567 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 561229006568 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561229006569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229006570 Walker A/P-loop; other site 561229006571 ATP binding site [chemical binding]; other site 561229006572 Q-loop/lid; other site 561229006573 ABC transporter signature motif; other site 561229006574 Walker B; other site 561229006575 D-loop; other site 561229006576 H-loop/switch region; other site 561229006577 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 561229006578 dimer interface [polypeptide binding]; other site 561229006579 conserved gate region; other site 561229006580 putative PBP binding loops; other site 561229006581 ABC-ATPase subunit interface; other site 561229006582 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561229006583 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 561229006584 dimer interface [polypeptide binding]; other site 561229006585 conserved gate region; other site 561229006586 putative PBP binding loops; other site 561229006587 ABC-ATPase subunit interface; other site 561229006588 hypothetical protein; Provisional; Region: PRK11622 561229006589 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561229006590 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 561229006591 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 561229006592 active site 561229006593 catalytic site [active] 561229006594 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 561229006595 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 561229006596 active site 561229006597 Ferritin-like; Region: Ferritin-like; pfam12902 561229006598 SnoaL-like domain; Region: SnoaL_2; pfam12680 561229006599 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 561229006600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 561229006601 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 561229006602 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 561229006603 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 561229006604 Virulence factor SrfB; Region: SrfB; pfam07520 561229006605 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561229006606 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 561229006607 NADP binding site [chemical binding]; other site 561229006608 Protease inhibitor Inh; Region: Inh; pfam02974 561229006609 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 561229006610 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 561229006611 Walker A/P-loop; other site 561229006612 ATP binding site [chemical binding]; other site 561229006613 Q-loop/lid; other site 561229006614 ABC transporter signature motif; other site 561229006615 Walker B; other site 561229006616 D-loop; other site 561229006617 H-loop/switch region; other site 561229006618 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 561229006619 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229006620 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229006621 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 561229006622 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 561229006623 active site 561229006624 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 561229006625 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 561229006626 active site 561229006627 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 561229006628 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 561229006629 active site 561229006630 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 561229006631 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229006632 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229006633 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 561229006634 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 561229006635 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 561229006636 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 561229006637 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 561229006638 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 561229006639 gating phenylalanine in ion channel; other site 561229006640 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 561229006641 Acyltransferase family; Region: Acyl_transf_3; pfam01757 561229006642 Protein of unknown function (DUF419); Region: DUF419; cl15265 561229006643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229006644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229006645 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561229006646 putative effector binding pocket; other site 561229006647 putative dimerization interface [polypeptide binding]; other site 561229006648 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 561229006649 Winged helix-turn helix; Region: HTH_29; pfam13551 561229006650 Helix-turn-helix domain; Region: HTH_28; pfam13518 561229006651 Homeodomain-like domain; Region: HTH_32; pfam13565 561229006652 Integrase core domain; Region: rve; pfam00665 561229006653 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 561229006654 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229006655 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561229006656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229006657 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561229006658 NAD(P) binding site [chemical binding]; other site 561229006659 active site 561229006660 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 561229006661 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 561229006662 active site 561229006663 motif I; other site 561229006664 motif II; other site 561229006665 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 561229006666 malonic semialdehyde reductase; Provisional; Region: PRK10538 561229006667 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 561229006668 putative NAD(P) binding site [chemical binding]; other site 561229006669 homotetramer interface [polypeptide binding]; other site 561229006670 homodimer interface [polypeptide binding]; other site 561229006671 active site 561229006672 hypothetical protein; Provisional; Region: PRK13659 561229006673 putative dithiobiotin synthetase; Provisional; Region: PRK12374 561229006674 AAA domain; Region: AAA_26; pfam13500 561229006675 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 561229006676 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561229006677 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229006678 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 561229006679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229006680 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 561229006681 dimerization interface [polypeptide binding]; other site 561229006682 substrate binding pocket [chemical binding]; other site 561229006683 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561229006684 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 561229006685 putative substrate translocation pore; other site 561229006686 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 561229006687 fumarate hydratase; Reviewed; Region: fumC; PRK00485 561229006688 Class II fumarases; Region: Fumarase_classII; cd01362 561229006689 active site 561229006690 tetramer interface [polypeptide binding]; other site 561229006691 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 561229006692 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 561229006693 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 561229006694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 561229006695 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 561229006696 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561229006697 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 561229006698 dimerization interface [polypeptide binding]; other site 561229006699 putative DNA binding site [nucleotide binding]; other site 561229006700 putative Zn2+ binding site [ion binding]; other site 561229006701 AsnC family; Region: AsnC_trans_reg; pfam01037 561229006702 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561229006703 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 561229006704 adenosine deaminase; Provisional; Region: PRK09358 561229006705 active site 561229006706 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 561229006707 SnoaL-like domain; Region: SnoaL_3; pfam13474 561229006708 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 561229006709 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 561229006710 putative oxidoreductase; Provisional; Region: PRK11579 561229006711 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229006712 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561229006713 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 561229006714 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561229006715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229006716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229006717 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229006718 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229006719 TM-ABC transporter signature motif; other site 561229006720 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 561229006721 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229006722 Walker A/P-loop; other site 561229006723 ATP binding site [chemical binding]; other site 561229006724 Q-loop/lid; other site 561229006725 ABC transporter signature motif; other site 561229006726 Walker B; other site 561229006727 D-loop; other site 561229006728 H-loop/switch region; other site 561229006729 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229006730 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 561229006731 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 561229006732 ligand binding site [chemical binding]; other site 561229006733 ribulokinase; Provisional; Region: PRK04123 561229006734 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 561229006735 N- and C-terminal domain interface [polypeptide binding]; other site 561229006736 active site 561229006737 MgATP binding site [chemical binding]; other site 561229006738 catalytic site [active] 561229006739 metal binding site [ion binding]; metal-binding site 561229006740 carbohydrate binding site [chemical binding]; other site 561229006741 homodimer interface [polypeptide binding]; other site 561229006742 L-arabinose isomerase; Provisional; Region: PRK02929 561229006743 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 561229006744 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 561229006745 trimer interface [polypeptide binding]; other site 561229006746 putative substrate binding site [chemical binding]; other site 561229006747 putative metal binding site [ion binding]; other site 561229006748 N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_N; cd10320 561229006749 active site 561229006750 catalytic site [active] 561229006751 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 561229006752 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 561229006753 Ca binding site [ion binding]; other site 561229006754 substrate binding site [chemical binding]; other site 561229006755 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 561229006756 electron transport complex protein RsxA; Provisional; Region: PRK05151 561229006757 electron transport complex protein RnfB; Provisional; Region: PRK05113 561229006758 Putative Fe-S cluster; Region: FeS; pfam04060 561229006759 4Fe-4S binding domain; Region: Fer4; pfam00037 561229006760 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 561229006761 SLBB domain; Region: SLBB; pfam10531 561229006762 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 561229006763 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 561229006764 electron transport complex protein RnfG; Validated; Region: PRK01908 561229006765 electron transport complex RsxE subunit; Provisional; Region: PRK12405 561229006766 endonuclease III; Provisional; Region: PRK10702 561229006767 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561229006768 minor groove reading motif; other site 561229006769 helix-hairpin-helix signature motif; other site 561229006770 substrate binding pocket [chemical binding]; other site 561229006771 active site 561229006772 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 561229006773 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 561229006774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229006775 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 561229006776 substrate binding site [chemical binding]; other site 561229006777 putative dimerization interface [polypeptide binding]; other site 561229006778 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 561229006779 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 561229006780 active site 561229006781 interdomain interaction site; other site 561229006782 putative metal-binding site [ion binding]; other site 561229006783 nucleotide binding site [chemical binding]; other site 561229006784 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 561229006785 domain I; other site 561229006786 DNA binding groove [nucleotide binding] 561229006787 phosphate binding site [ion binding]; other site 561229006788 domain II; other site 561229006789 domain III; other site 561229006790 nucleotide binding site [chemical binding]; other site 561229006791 catalytic site [active] 561229006792 domain IV; other site 561229006793 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561229006794 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 561229006795 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 561229006796 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 561229006797 hypothetical protein; Provisional; Region: PRK11037 561229006798 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 561229006799 putative inner membrane peptidase; Provisional; Region: PRK11778 561229006800 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 561229006801 tandem repeat interface [polypeptide binding]; other site 561229006802 oligomer interface [polypeptide binding]; other site 561229006803 active site residues [active] 561229006804 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 561229006805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229006806 NAD(P) binding site [chemical binding]; other site 561229006807 active site 561229006808 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 561229006809 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 561229006810 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 561229006811 homodimer interface [polypeptide binding]; other site 561229006812 Walker A motif; other site 561229006813 ATP binding site [chemical binding]; other site 561229006814 hydroxycobalamin binding site [chemical binding]; other site 561229006815 Walker B motif; other site 561229006816 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 561229006817 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 561229006818 RNA binding surface [nucleotide binding]; other site 561229006819 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 561229006820 probable active site [active] 561229006821 hypothetical protein; Provisional; Region: PRK11630 561229006822 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 561229006823 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 561229006824 active site 561229006825 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 561229006826 anthranilate synthase component I; Provisional; Region: PRK13564 561229006827 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 561229006828 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 561229006829 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 561229006830 Glutamine amidotransferase class-I; Region: GATase; pfam00117 561229006831 glutamine binding [chemical binding]; other site 561229006832 catalytic triad [active] 561229006833 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 561229006834 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561229006835 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 561229006836 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 561229006837 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 561229006838 active site 561229006839 ribulose/triose binding site [chemical binding]; other site 561229006840 phosphate binding site [ion binding]; other site 561229006841 substrate (anthranilate) binding pocket [chemical binding]; other site 561229006842 product (indole) binding pocket [chemical binding]; other site 561229006843 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 561229006844 active site 561229006845 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 561229006846 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 561229006847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229006848 catalytic residue [active] 561229006849 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 561229006850 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 561229006851 substrate binding site [chemical binding]; other site 561229006852 active site 561229006853 catalytic residues [active] 561229006854 heterodimer interface [polypeptide binding]; other site 561229006855 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 561229006856 outer membrane protein W; Provisional; Region: PRK10959 561229006857 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 561229006858 hypothetical protein; Provisional; Region: PRK02868 561229006859 intracellular septation protein A; Reviewed; Region: PRK00259 561229006860 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 561229006861 transport protein TonB; Provisional; Region: PRK10819 561229006862 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561229006863 YciI-like protein; Reviewed; Region: PRK11370 561229006864 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561229006865 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229006866 dimer interface [polypeptide binding]; other site 561229006867 ligand binding site [chemical binding]; other site 561229006868 HAMP domain; Region: HAMP; pfam00672 561229006869 dimerization interface [polypeptide binding]; other site 561229006870 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229006871 dimer interface [polypeptide binding]; other site 561229006872 putative CheW interface [polypeptide binding]; other site 561229006873 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 561229006874 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 561229006875 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 561229006876 putative active site [active] 561229006877 catalytic site [active] 561229006878 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 561229006879 putative active site [active] 561229006880 catalytic site [active] 561229006881 dsDNA-mimic protein; Reviewed; Region: PRK05094 561229006882 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 561229006883 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229006884 Walker A/P-loop; other site 561229006885 ATP binding site [chemical binding]; other site 561229006886 Q-loop/lid; other site 561229006887 ABC transporter signature motif; other site 561229006888 Walker B; other site 561229006889 D-loop; other site 561229006890 H-loop/switch region; other site 561229006891 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561229006892 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 561229006893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229006894 Walker A/P-loop; other site 561229006895 ATP binding site [chemical binding]; other site 561229006896 Q-loop/lid; other site 561229006897 ABC transporter signature motif; other site 561229006898 Walker B; other site 561229006899 D-loop; other site 561229006900 H-loop/switch region; other site 561229006901 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561229006902 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 561229006903 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561229006904 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 561229006905 dimer interface [polypeptide binding]; other site 561229006906 conserved gate region; other site 561229006907 ABC-ATPase subunit interface; other site 561229006908 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 561229006909 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 561229006910 dimer interface [polypeptide binding]; other site 561229006911 conserved gate region; other site 561229006912 putative PBP binding loops; other site 561229006913 ABC-ATPase subunit interface; other site 561229006914 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 561229006915 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 561229006916 peptide binding site [polypeptide binding]; other site 561229006917 hypothetical protein; Provisional; Region: PRK11111 561229006918 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 561229006919 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 561229006920 putative catalytic cysteine [active] 561229006921 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 561229006922 putative active site [active] 561229006923 metal binding site [ion binding]; metal-binding site 561229006924 thymidine kinase; Provisional; Region: PRK04296 561229006925 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 561229006926 ATP binding site [chemical binding]; other site 561229006927 Walker A motif; other site 561229006928 Walker B motif; other site 561229006929 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561229006930 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561229006931 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 561229006932 active site 561229006933 tetramer interface; other site 561229006934 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 561229006935 active site 561229006936 response regulator of RpoS; Provisional; Region: PRK10693 561229006937 phosphorylation site [posttranslational modification] 561229006938 intermolecular recognition site; other site 561229006939 dimerization interface [polypeptide binding]; other site 561229006940 hypothetical protein; Provisional; Region: PRK10279 561229006941 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 561229006942 active site 561229006943 nucleophile elbow; other site 561229006944 SEC-C motif; Region: SEC-C; pfam02810 561229006945 hypothetical protein; Provisional; Region: PRK04233 561229006946 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 561229006947 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 561229006948 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 561229006949 putative active site [active] 561229006950 putative substrate binding site [chemical binding]; other site 561229006951 putative cosubstrate binding site; other site 561229006952 catalytic site [active] 561229006953 Predicted membrane protein [Function unknown]; Region: COG2860 561229006954 UPF0126 domain; Region: UPF0126; pfam03458 561229006955 UPF0126 domain; Region: UPF0126; pfam03458 561229006956 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 561229006957 putative catalytic site [active] 561229006958 putative phosphate binding site [ion binding]; other site 561229006959 active site 561229006960 metal binding site A [ion binding]; metal-binding site 561229006961 DNA binding site [nucleotide binding] 561229006962 putative AP binding site [nucleotide binding]; other site 561229006963 putative metal binding site B [ion binding]; other site 561229006964 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 561229006965 DNA topoisomerase III; Provisional; Region: PRK07726 561229006966 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 561229006967 active site 561229006968 putative interdomain interaction site [polypeptide binding]; other site 561229006969 putative metal-binding site [ion binding]; other site 561229006970 putative nucleotide binding site [chemical binding]; other site 561229006971 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 561229006972 domain I; other site 561229006973 DNA binding groove [nucleotide binding] 561229006974 phosphate binding site [ion binding]; other site 561229006975 domain II; other site 561229006976 domain III; other site 561229006977 nucleotide binding site [chemical binding]; other site 561229006978 catalytic site [active] 561229006979 domain IV; other site 561229006980 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 561229006981 putative FMN binding site [chemical binding]; other site 561229006982 protease 4; Provisional; Region: PRK10949 561229006983 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 561229006984 tandem repeat interface [polypeptide binding]; other site 561229006985 oligomer interface [polypeptide binding]; other site 561229006986 active site residues [active] 561229006987 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 561229006988 tandem repeat interface [polypeptide binding]; other site 561229006989 oligomer interface [polypeptide binding]; other site 561229006990 active site residues [active] 561229006991 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 561229006992 active site 561229006993 homodimer interface [polypeptide binding]; other site 561229006994 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 561229006995 Isochorismatase family; Region: Isochorismatase; pfam00857 561229006996 catalytic triad [active] 561229006997 metal binding site [ion binding]; metal-binding site 561229006998 conserved cis-peptide bond; other site 561229006999 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 561229007000 methionine sulfoxide reductase B; Provisional; Region: PRK00222 561229007001 SelR domain; Region: SelR; pfam01641 561229007002 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 561229007003 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 561229007004 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 561229007005 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 561229007006 active site 561229007007 phosphate binding residues; other site 561229007008 catalytic residues [active] 561229007009 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 561229007010 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229007011 active site 561229007012 catalytic tetrad [active] 561229007013 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 561229007014 PrkA family serine protein kinase; Provisional; Region: PRK15455 561229007015 AAA ATPase domain; Region: AAA_16; pfam13191 561229007016 Walker A motif; other site 561229007017 ATP binding site [chemical binding]; other site 561229007018 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 561229007019 hypothetical protein; Provisional; Region: PRK05325 561229007020 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229007021 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229007022 Walker A/P-loop; other site 561229007023 ATP binding site [chemical binding]; other site 561229007024 Q-loop/lid; other site 561229007025 ABC transporter signature motif; other site 561229007026 Walker B; other site 561229007027 D-loop; other site 561229007028 H-loop/switch region; other site 561229007029 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229007030 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229007031 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229007032 Walker A/P-loop; other site 561229007033 ATP binding site [chemical binding]; other site 561229007034 Q-loop/lid; other site 561229007035 ABC transporter signature motif; other site 561229007036 Walker B; other site 561229007037 D-loop; other site 561229007038 H-loop/switch region; other site 561229007039 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 561229007040 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 561229007041 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229007042 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561229007043 hypothetical protein; Provisional; Region: PRK10457 561229007044 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 561229007045 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 561229007046 active site 561229007047 substrate binding site [chemical binding]; other site 561229007048 Mg2+ binding site [ion binding]; other site 561229007049 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 561229007050 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 561229007051 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 561229007052 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 561229007053 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 561229007054 Ferritin-like domain; Region: Ferritin; pfam00210 561229007055 ferroxidase diiron center [ion binding]; other site 561229007056 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 561229007057 CopC domain; Region: CopC; pfam04234 561229007058 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 561229007059 protease 2; Provisional; Region: PRK10115 561229007060 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229007061 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 561229007062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229007063 ATP-grasp domain; Region: ATP-grasp; pfam02222 561229007064 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 561229007065 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 561229007066 active site 561229007067 intersubunit interface [polypeptide binding]; other site 561229007068 catalytic residue [active] 561229007069 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 561229007070 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 561229007071 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 561229007072 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 561229007073 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561229007074 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 561229007075 putative active site [active] 561229007076 pyruvate kinase; Provisional; Region: PRK05826 561229007077 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 561229007078 domain interfaces; other site 561229007079 active site 561229007080 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561229007081 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561229007082 putative acyl-acceptor binding pocket; other site 561229007083 putative peptidase; Provisional; Region: PRK11649 561229007084 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 561229007085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 561229007086 Peptidase family M23; Region: Peptidase_M23; pfam01551 561229007087 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 561229007088 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 561229007089 metal binding site [ion binding]; metal-binding site 561229007090 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 561229007091 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561229007092 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561229007093 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 561229007094 ABC-ATPase subunit interface; other site 561229007095 dimer interface [polypeptide binding]; other site 561229007096 putative PBP binding regions; other site 561229007097 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 561229007098 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 561229007099 Walker A motif; other site 561229007100 ATP binding site [chemical binding]; other site 561229007101 Walker B motif; other site 561229007102 arginine finger; other site 561229007103 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 561229007104 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 561229007105 RuvA N terminal domain; Region: RuvA_N; pfam01330 561229007106 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 561229007107 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229007108 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229007109 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 561229007110 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 561229007111 active site 561229007112 putative DNA-binding cleft [nucleotide binding]; other site 561229007113 dimer interface [polypeptide binding]; other site 561229007114 hypothetical protein; Validated; Region: PRK00110 561229007115 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_7; cd04664 561229007116 nudix motif; other site 561229007117 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 561229007118 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 561229007119 dimer interface [polypeptide binding]; other site 561229007120 anticodon binding site; other site 561229007121 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 561229007122 homodimer interface [polypeptide binding]; other site 561229007123 motif 1; other site 561229007124 active site 561229007125 motif 2; other site 561229007126 GAD domain; Region: GAD; pfam02938 561229007127 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 561229007128 active site 561229007129 motif 3; other site 561229007130 hypothetical protein; Provisional; Region: PRK10302 561229007131 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 561229007132 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 561229007133 S-adenosylmethionine binding site [chemical binding]; other site 561229007134 Methyltransferase domain; Region: Methyltransf_23; pfam13489 561229007135 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 561229007136 S-adenosylmethionine binding site [chemical binding]; other site 561229007137 copper homeostasis protein CutC; Provisional; Region: PRK11572 561229007138 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_4; cd07268 561229007139 putative metal binding site [ion binding]; other site 561229007140 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 561229007141 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 561229007142 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 561229007143 active site 561229007144 HIGH motif; other site 561229007145 KMSK motif region; other site 561229007146 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 561229007147 tRNA binding surface [nucleotide binding]; other site 561229007148 anticodon binding site; other site 561229007149 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229007150 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229007151 HAMP domain; Region: HAMP; pfam00672 561229007152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007153 dimer interface [polypeptide binding]; other site 561229007154 putative CheW interface [polypeptide binding]; other site 561229007155 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 561229007156 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 561229007157 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561229007158 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229007159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 561229007160 hypothetical protein; Provisional; Region: PRK11239 561229007161 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 561229007162 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561229007163 multidrug resistance protein MdtH; Provisional; Region: PRK11646 561229007164 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 561229007165 putative substrate translocation pore; other site 561229007166 glutaredoxin 2; Provisional; Region: PRK10387 561229007167 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 561229007168 C-terminal domain interface [polypeptide binding]; other site 561229007169 GSH binding site (G-site) [chemical binding]; other site 561229007170 catalytic residues [active] 561229007171 putative dimer interface [polypeptide binding]; other site 561229007172 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 561229007173 N-terminal domain interface [polypeptide binding]; other site 561229007174 lipoprotein; Provisional; Region: PRK10598 561229007175 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 561229007176 putative hydrolase; Validated; Region: PRK09248 561229007177 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 561229007178 active site 561229007179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229007180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229007181 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 561229007182 NmrA-like family; Region: NmrA; pfam05368 561229007183 NADP binding site [chemical binding]; other site 561229007184 active site 561229007185 regulatory binding site [polypeptide binding]; other site 561229007186 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 561229007187 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229007188 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229007189 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 561229007190 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561229007191 putative active site [active] 561229007192 putative FMN binding site [chemical binding]; other site 561229007193 putative substrate binding site [chemical binding]; other site 561229007194 putative catalytic residue [active] 561229007195 short chain dehydrogenase; Validated; Region: PRK08264 561229007196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229007197 NAD(P) binding site [chemical binding]; other site 561229007198 active site 561229007199 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 561229007200 Predicted amidohydrolase [General function prediction only]; Region: COG0388 561229007201 putative active site [active] 561229007202 catalytic triad [active] 561229007203 putative dimer interface [polypeptide binding]; other site 561229007204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229007205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007206 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 561229007207 putative substrate binding pocket [chemical binding]; other site 561229007208 putative dimerization interface [polypeptide binding]; other site 561229007209 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561229007210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229007211 DNA-binding site [nucleotide binding]; DNA binding site 561229007212 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229007213 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 561229007214 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 561229007215 dimer interface [polypeptide binding]; other site 561229007216 ADP-ribose binding site [chemical binding]; other site 561229007217 active site 561229007218 nudix motif; other site 561229007219 metal binding site [ion binding]; metal-binding site 561229007220 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 561229007221 B1 nucleotide binding pocket [chemical binding]; other site 561229007222 B2 nucleotide binding pocket [chemical binding]; other site 561229007223 CAS motifs; other site 561229007224 active site 561229007225 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 561229007226 nudix motif; other site 561229007227 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 561229007228 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561229007229 putative active site [active] 561229007230 putative FMN binding site [chemical binding]; other site 561229007231 putative substrate binding site [chemical binding]; other site 561229007232 putative catalytic residue [active] 561229007233 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229007234 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 561229007235 dimerization interface [polypeptide binding]; other site 561229007236 putative DNA binding site [nucleotide binding]; other site 561229007237 putative Zn2+ binding site [ion binding]; other site 561229007238 multicopper oxidase; Provisional; Region: PRK10965 561229007239 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 561229007240 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 561229007241 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 561229007242 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 561229007243 cell division protein MukB; Provisional; Region: mukB; PRK04863 561229007244 P-loop containing region of AAA domain; Region: AAA_29; cl17516 561229007245 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 561229007246 condesin subunit E; Provisional; Region: PRK05256 561229007247 condesin subunit F; Provisional; Region: PRK05260 561229007248 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 561229007249 Methyltransferase domain; Region: Methyltransf_31; pfam13847 561229007250 S-adenosylmethionine binding site [chemical binding]; other site 561229007251 Uncharacterized conserved protein [Function unknown]; Region: COG1434 561229007252 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 561229007253 putative active site [active] 561229007254 hypothetical protein; Provisional; Region: PRK10593 561229007255 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 561229007256 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 561229007257 Ligand binding site; other site 561229007258 oligomer interface; other site 561229007259 Trm112p-like protein; Region: Trm112p; cl01066 561229007260 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 561229007261 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 561229007262 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 561229007263 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561229007264 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 561229007265 Walker A/P-loop; other site 561229007266 ATP binding site [chemical binding]; other site 561229007267 Q-loop/lid; other site 561229007268 ABC transporter signature motif; other site 561229007269 Walker B; other site 561229007270 D-loop; other site 561229007271 H-loop/switch region; other site 561229007272 ComEC family competence protein; Provisional; Region: PRK11539 561229007273 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 561229007274 Competence protein; Region: Competence; pfam03772 561229007275 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 561229007276 hypothetical protein; Provisional; Region: PRK05423 561229007277 exonuclease I; Provisional; Region: sbcB; PRK11779 561229007278 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 561229007279 active site 561229007280 catalytic site [active] 561229007281 substrate binding site [chemical binding]; other site 561229007282 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 561229007283 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 561229007284 Flagellar regulator YcgR; Region: YcgR; pfam07317 561229007285 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 561229007286 PilZ domain; Region: PilZ; pfam07238 561229007287 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 561229007288 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 561229007289 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 561229007290 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 561229007291 citrate lyase subunit gamma; Provisional; Region: PRK13253 561229007292 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 561229007293 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 561229007294 putative active site [active] 561229007295 (T/H)XGH motif; other site 561229007296 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 561229007297 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 561229007298 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561229007299 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 561229007300 PAS domain; Region: PAS; smart00091 561229007301 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 561229007302 ATP binding site [chemical binding]; other site 561229007303 Mg2+ binding site [ion binding]; other site 561229007304 G-X-G motif; other site 561229007305 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 561229007306 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 561229007307 active site 561229007308 phosphorylation site [posttranslational modification] 561229007309 intermolecular recognition site; other site 561229007310 dimerization interface [polypeptide binding]; other site 561229007311 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 561229007312 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 561229007313 dimerization interface [polypeptide binding]; other site 561229007314 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229007315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007316 dimer interface [polypeptide binding]; other site 561229007317 putative CheW interface [polypeptide binding]; other site 561229007318 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561229007319 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 561229007320 putative NAD(P) binding site [chemical binding]; other site 561229007321 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 561229007322 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 561229007323 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 561229007324 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 561229007325 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 561229007326 NAD binding site [chemical binding]; other site 561229007327 dimerization interface [polypeptide binding]; other site 561229007328 product binding site; other site 561229007329 substrate binding site [chemical binding]; other site 561229007330 zinc binding site [ion binding]; other site 561229007331 catalytic residues [active] 561229007332 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 561229007333 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 561229007334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229007335 homodimer interface [polypeptide binding]; other site 561229007336 catalytic residue [active] 561229007337 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 561229007338 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 561229007339 active site 561229007340 motif I; other site 561229007341 motif II; other site 561229007342 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 561229007343 putative active site pocket [active] 561229007344 4-fold oligomerization interface [polypeptide binding]; other site 561229007345 metal binding residues [ion binding]; metal-binding site 561229007346 3-fold/trimer interface [polypeptide binding]; other site 561229007347 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 561229007348 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 561229007349 putative active site [active] 561229007350 oxyanion strand; other site 561229007351 catalytic triad [active] 561229007352 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 561229007353 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 561229007354 catalytic residues [active] 561229007355 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 561229007356 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 561229007357 substrate binding site [chemical binding]; other site 561229007358 glutamase interaction surface [polypeptide binding]; other site 561229007359 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 561229007360 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 561229007361 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 561229007362 metal binding site [ion binding]; metal-binding site 561229007363 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 561229007364 IHF dimer interface [polypeptide binding]; other site 561229007365 IHF - DNA interface [nucleotide binding]; other site 561229007366 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 561229007367 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 561229007368 RNA binding site [nucleotide binding]; other site 561229007369 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 561229007370 RNA binding site [nucleotide binding]; other site 561229007371 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 561229007372 RNA binding site [nucleotide binding]; other site 561229007373 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 561229007374 RNA binding site [nucleotide binding]; other site 561229007375 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 561229007376 RNA binding site [nucleotide binding]; other site 561229007377 cytidylate kinase; Provisional; Region: cmk; PRK00023 561229007378 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 561229007379 CMP-binding site; other site 561229007380 The sites determining sugar specificity; other site 561229007381 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 561229007382 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 561229007383 hinge; other site 561229007384 active site 561229007385 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 561229007386 homodimer interface [polypeptide binding]; other site 561229007387 substrate-cofactor binding pocket; other site 561229007388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229007389 catalytic residue [active] 561229007390 uncharacterized domain; Region: TIGR00702 561229007391 YcaO-like family; Region: YcaO; pfam02624 561229007392 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 561229007393 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 561229007394 Pyruvate formate lyase 1; Region: PFL1; cd01678 561229007395 coenzyme A binding site [chemical binding]; other site 561229007396 active site 561229007397 catalytic residues [active] 561229007398 glycine loop; other site 561229007399 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 561229007400 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 561229007401 FeS/SAM binding site; other site 561229007402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229007403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007404 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 561229007405 dimerization interface [polypeptide binding]; other site 561229007406 putative MFS family transporter protein; Provisional; Region: PRK03633 561229007407 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 561229007408 putative substrate translocation pore; other site 561229007409 transcriptional regulator; Provisional; Region: PRK10632 561229007410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007411 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229007412 putative effector binding pocket; other site 561229007413 dimerization interface [polypeptide binding]; other site 561229007414 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 561229007415 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 561229007416 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 561229007417 catalytic residues [active] 561229007418 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 561229007419 seryl-tRNA synthetase; Provisional; Region: PRK05431 561229007420 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 561229007421 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 561229007422 dimer interface [polypeptide binding]; other site 561229007423 active site 561229007424 motif 1; other site 561229007425 motif 2; other site 561229007426 motif 3; other site 561229007427 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561229007428 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 561229007429 MULE transposase domain; Region: MULE; pfam10551 561229007430 recombination factor protein RarA; Reviewed; Region: PRK13342 561229007431 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 561229007432 Walker A motif; other site 561229007433 ATP binding site [chemical binding]; other site 561229007434 Walker B motif; other site 561229007435 arginine finger; other site 561229007436 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 561229007437 recombination factor protein RarA; Reviewed; Region: PRK13342 561229007438 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 561229007439 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 561229007440 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 561229007441 DNA translocase FtsK; Provisional; Region: PRK10263 561229007442 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 561229007443 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 561229007444 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 561229007445 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 561229007446 putative DNA binding site [nucleotide binding]; other site 561229007447 putative Zn2+ binding site [ion binding]; other site 561229007448 AsnC family; Region: AsnC_trans_reg; pfam01037 561229007449 thioredoxin reductase; Provisional; Region: PRK10262 561229007450 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229007451 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229007452 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 561229007453 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561229007454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229007455 Walker A/P-loop; other site 561229007456 ATP binding site [chemical binding]; other site 561229007457 Q-loop/lid; other site 561229007458 ABC transporter signature motif; other site 561229007459 Walker B; other site 561229007460 D-loop; other site 561229007461 H-loop/switch region; other site 561229007462 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 561229007463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229007464 Walker A/P-loop; other site 561229007465 ATP binding site [chemical binding]; other site 561229007466 Q-loop/lid; other site 561229007467 ABC transporter signature motif; other site 561229007468 Walker B; other site 561229007469 D-loop; other site 561229007470 H-loop/switch region; other site 561229007471 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 561229007472 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 561229007473 rRNA binding site [nucleotide binding]; other site 561229007474 predicted 30S ribosome binding site; other site 561229007475 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 561229007476 Clp amino terminal domain; Region: Clp_N; pfam02861 561229007477 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 561229007478 Walker A motif; other site 561229007479 ATP binding site [chemical binding]; other site 561229007480 Walker B motif; other site 561229007481 arginine finger; other site 561229007482 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 561229007483 Walker A motif; other site 561229007484 ATP binding site [chemical binding]; other site 561229007485 Walker B motif; other site 561229007486 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 561229007487 Uncharacterized conserved protein [Function unknown]; Region: COG2127 561229007488 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 561229007489 DNA-binding site [nucleotide binding]; DNA binding site 561229007490 RNA-binding motif; other site 561229007491 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 561229007492 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 561229007493 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 561229007494 putative active site [active] 561229007495 putative metal-binding site [ion binding]; other site 561229007496 hybrid cluster protein; Provisional; Region: PRK05290 561229007497 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 561229007498 ACS interaction site; other site 561229007499 CODH interaction site; other site 561229007500 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 561229007501 hybrid metal cluster; other site 561229007502 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 561229007503 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 561229007504 FAD binding pocket [chemical binding]; other site 561229007505 FAD binding motif [chemical binding]; other site 561229007506 phosphate binding motif [ion binding]; other site 561229007507 beta-alpha-beta structure motif; other site 561229007508 NAD binding pocket [chemical binding]; other site 561229007509 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229007510 catalytic loop [active] 561229007511 iron binding site [ion binding]; other site 561229007512 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 561229007513 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 561229007514 putative NAD(P) binding site [chemical binding]; other site 561229007515 putative active site [active] 561229007516 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 561229007517 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 561229007518 substrate binding site [chemical binding]; other site 561229007519 amidase catalytic site [active] 561229007520 Zn binding residues [ion binding]; other site 561229007521 hypothetical protein; Provisional; Region: PRK02877 561229007522 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 561229007523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229007524 Walker A/P-loop; other site 561229007525 ATP binding site [chemical binding]; other site 561229007526 Q-loop/lid; other site 561229007527 ABC transporter signature motif; other site 561229007528 Walker B; other site 561229007529 D-loop; other site 561229007530 H-loop/switch region; other site 561229007531 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 561229007532 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 561229007533 substrate binding pocket [chemical binding]; other site 561229007534 membrane-bound complex binding site; other site 561229007535 hinge residues; other site 561229007536 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229007537 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 561229007538 dimer interface [polypeptide binding]; other site 561229007539 conserved gate region; other site 561229007540 putative PBP binding loops; other site 561229007541 ABC-ATPase subunit interface; other site 561229007542 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 561229007543 dimer interface [polypeptide binding]; other site 561229007544 conserved gate region; other site 561229007545 putative PBP binding loops; other site 561229007546 ABC-ATPase subunit interface; other site 561229007547 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 561229007548 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 561229007549 substrate binding pocket [chemical binding]; other site 561229007550 membrane-bound complex binding site; other site 561229007551 hinge residues; other site 561229007552 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 561229007553 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 561229007554 S-adenosylmethionine binding site [chemical binding]; other site 561229007555 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 561229007556 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561229007557 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 561229007558 dimer interface [polypeptide binding]; other site 561229007559 conserved gate region; other site 561229007560 putative PBP binding loops; other site 561229007561 ABC-ATPase subunit interface; other site 561229007562 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 561229007563 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 561229007564 dimer interface [polypeptide binding]; other site 561229007565 conserved gate region; other site 561229007566 putative PBP binding loops; other site 561229007567 ABC-ATPase subunit interface; other site 561229007568 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 561229007569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229007570 Walker A/P-loop; other site 561229007571 ATP binding site [chemical binding]; other site 561229007572 Q-loop/lid; other site 561229007573 ABC transporter signature motif; other site 561229007574 Walker B; other site 561229007575 D-loop; other site 561229007576 H-loop/switch region; other site 561229007577 TOBE domain; Region: TOBE_2; pfam08402 561229007578 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 561229007579 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561229007580 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 561229007581 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 561229007582 RimK-like ATP-grasp domain; Region: RimK; pfam08443 561229007583 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 561229007584 dimer interface [polypeptide binding]; other site 561229007585 FMN binding site [chemical binding]; other site 561229007586 NADPH bind site [chemical binding]; other site 561229007587 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 561229007588 GSH binding site [chemical binding]; other site 561229007589 catalytic residues [active] 561229007590 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 561229007591 putative transporter; Provisional; Region: PRK04972 561229007592 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 561229007593 TrkA-C domain; Region: TrkA_C; pfam02080 561229007594 TrkA-C domain; Region: TrkA_C; pfam02080 561229007595 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 561229007596 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 561229007597 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 561229007598 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229007599 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 561229007600 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 561229007601 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 561229007602 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229007603 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 561229007604 dimer interface [polypeptide binding]; other site 561229007605 conserved gate region; other site 561229007606 ABC-ATPase subunit interface; other site 561229007607 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 561229007608 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561229007609 Walker A/P-loop; other site 561229007610 ATP binding site [chemical binding]; other site 561229007611 Q-loop/lid; other site 561229007612 ABC transporter signature motif; other site 561229007613 Walker B; other site 561229007614 D-loop; other site 561229007615 H-loop/switch region; other site 561229007616 NIL domain; Region: NIL; pfam09383 561229007617 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561229007618 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561229007619 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561229007620 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 561229007621 putative C-terminal domain interface [polypeptide binding]; other site 561229007622 putative GSH binding site (G-site) [chemical binding]; other site 561229007623 putative dimer interface [polypeptide binding]; other site 561229007624 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 561229007625 putative N-terminal domain interface [polypeptide binding]; other site 561229007626 putative dimer interface [polypeptide binding]; other site 561229007627 putative substrate binding pocket (H-site) [chemical binding]; other site 561229007628 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 561229007629 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 561229007630 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 561229007631 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 561229007632 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 561229007633 FeS/SAM binding site; other site 561229007634 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 561229007635 putative active site [active] 561229007636 hypothetical protein; Provisional; Region: PRK10835 561229007637 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 561229007638 active site 561229007639 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229007640 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007641 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229007642 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007643 dimer interface [polypeptide binding]; other site 561229007644 putative CheW interface [polypeptide binding]; other site 561229007645 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561229007646 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229007647 dimer interface [polypeptide binding]; other site 561229007648 ligand binding site [chemical binding]; other site 561229007649 HAMP domain; Region: HAMP; pfam00672 561229007650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007651 dimer interface [polypeptide binding]; other site 561229007652 putative CheW interface [polypeptide binding]; other site 561229007653 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229007654 dimer interface [polypeptide binding]; other site 561229007655 ligand binding site [chemical binding]; other site 561229007656 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229007657 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007658 dimer interface [polypeptide binding]; other site 561229007659 putative CheW interface [polypeptide binding]; other site 561229007660 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561229007661 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229007662 HAMP domain; Region: HAMP; pfam00672 561229007663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229007664 dimer interface [polypeptide binding]; other site 561229007665 putative CheW interface [polypeptide binding]; other site 561229007666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229007667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007668 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 561229007669 dimerization interface [polypeptide binding]; other site 561229007670 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 561229007671 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 561229007672 substrate binding site [chemical binding]; other site 561229007673 catalytic Zn binding site [ion binding]; other site 561229007674 NAD binding site [chemical binding]; other site 561229007675 structural Zn binding site [ion binding]; other site 561229007676 dimer interface [polypeptide binding]; other site 561229007677 S-formylglutathione hydrolase; Region: PLN02442 561229007678 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 561229007679 KTSC domain; Region: KTSC; pfam13619 561229007680 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 561229007681 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 561229007682 putative active site [active] 561229007683 metal binding site [ion binding]; metal-binding site 561229007684 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561229007685 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229007686 Walker A/P-loop; other site 561229007687 ATP binding site [chemical binding]; other site 561229007688 Q-loop/lid; other site 561229007689 ABC transporter signature motif; other site 561229007690 Walker B; other site 561229007691 D-loop; other site 561229007692 H-loop/switch region; other site 561229007693 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229007694 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229007695 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229007696 TM-ABC transporter signature motif; other site 561229007697 putative arabinose transporter; Provisional; Region: PRK03545 561229007698 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 561229007699 putative substrate translocation pore; other site 561229007700 lysine transporter; Provisional; Region: PRK10836 561229007701 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 561229007702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007703 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 561229007704 putative dimerization interface [polypeptide binding]; other site 561229007705 Predicted membrane protein [Function unknown]; Region: COG2855 561229007706 endonuclease IV; Provisional; Region: PRK01060 561229007707 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 561229007708 AP (apurinic/apyrimidinic) site pocket; other site 561229007709 DNA interaction; other site 561229007710 Metal-binding active site; metal-binding site 561229007711 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229007712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229007713 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 561229007714 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 561229007715 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 561229007716 active site 561229007717 P-loop; other site 561229007718 phosphorylation site [posttranslational modification] 561229007719 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 561229007720 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 561229007721 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 561229007722 putative substrate binding site [chemical binding]; other site 561229007723 putative ATP binding site [chemical binding]; other site 561229007724 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 561229007725 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561229007726 active site 561229007727 phosphorylation site [posttranslational modification] 561229007728 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 561229007729 dimerization domain swap beta strand [polypeptide binding]; other site 561229007730 regulatory protein interface [polypeptide binding]; other site 561229007731 active site 561229007732 regulatory phosphorylation site [posttranslational modification]; other site 561229007733 sugar efflux transporter B; Provisional; Region: PRK15011 561229007734 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 561229007735 putative substrate translocation pore; other site 561229007736 Flagellin N-methylase; Region: FliB; cl00497 561229007737 elongation factor P; Provisional; Region: PRK04542 561229007738 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 561229007739 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 561229007740 RNA binding site [nucleotide binding]; other site 561229007741 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 561229007742 RNA binding site [nucleotide binding]; other site 561229007743 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 561229007744 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 561229007745 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 561229007746 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 561229007747 NlpC/P60 family; Region: NLPC_P60; pfam00877 561229007748 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 561229007749 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 561229007750 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 561229007751 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 561229007752 dimer interface [polypeptide binding]; other site 561229007753 conserved gate region; other site 561229007754 putative PBP binding loops; other site 561229007755 ABC-ATPase subunit interface; other site 561229007756 microcin C ABC transporter permease; Provisional; Region: PRK15021 561229007757 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 561229007758 dimer interface [polypeptide binding]; other site 561229007759 conserved gate region; other site 561229007760 putative PBP binding loops; other site 561229007761 ABC-ATPase subunit interface; other site 561229007762 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 561229007763 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229007764 Walker A/P-loop; other site 561229007765 ATP binding site [chemical binding]; other site 561229007766 Q-loop/lid; other site 561229007767 ABC transporter signature motif; other site 561229007768 Walker B; other site 561229007769 D-loop; other site 561229007770 H-loop/switch region; other site 561229007771 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229007772 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229007773 Walker A/P-loop; other site 561229007774 ATP binding site [chemical binding]; other site 561229007775 Q-loop/lid; other site 561229007776 ABC transporter signature motif; other site 561229007777 Walker B; other site 561229007778 D-loop; other site 561229007779 H-loop/switch region; other site 561229007780 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229007781 hypothetical protein; Provisional; Region: PRK11835 561229007782 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 561229007783 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 561229007784 putative substrate translocation pore; other site 561229007785 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 561229007786 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 561229007787 RNA binding surface [nucleotide binding]; other site 561229007788 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 561229007789 active site 561229007790 uracil binding [chemical binding]; other site 561229007791 probable metal-binding protein; Region: matur_matur; TIGR03853 561229007792 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 561229007793 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 561229007794 ATP binding site [chemical binding]; other site 561229007795 putative Mg++ binding site [ion binding]; other site 561229007796 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 561229007797 nucleotide binding region [chemical binding]; other site 561229007798 ATP-binding site [chemical binding]; other site 561229007799 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 561229007800 5S rRNA interface [nucleotide binding]; other site 561229007801 CTC domain interface [polypeptide binding]; other site 561229007802 L16 interface [polypeptide binding]; other site 561229007803 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 561229007804 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 561229007805 putative substrate translocation pore; other site 561229007806 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 561229007807 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 561229007808 active site 561229007809 phosphorylation site [posttranslational modification] 561229007810 intermolecular recognition site; other site 561229007811 dimerization interface [polypeptide binding]; other site 561229007812 LytTr DNA-binding domain; Region: LytTR; pfam04397 561229007813 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 561229007814 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 561229007815 GAF domain; Region: GAF_3; pfam13492 561229007816 Histidine kinase; Region: His_kinase; pfam06580 561229007817 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 561229007818 ATP binding site [chemical binding]; other site 561229007819 Mg2+ binding site [ion binding]; other site 561229007820 G-X-G motif; other site 561229007821 Nucleoid-associated protein [General function prediction only]; Region: COG3081 561229007822 nucleoid-associated protein NdpA; Validated; Region: PRK00378 561229007823 hypothetical protein; Provisional; Region: PRK13689 561229007824 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 561229007825 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 561229007826 Sulfatase; Region: Sulfatase; cl17466 561229007827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229007828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007829 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229007830 putative effector binding pocket; other site 561229007831 dimerization interface [polypeptide binding]; other site 561229007832 short chain dehydrogenase; Provisional; Region: PRK06500 561229007833 classical (c) SDRs; Region: SDR_c; cd05233 561229007834 NAD(P) binding site [chemical binding]; other site 561229007835 active site 561229007836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561229007837 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 561229007838 C-terminal domain interface [polypeptide binding]; other site 561229007839 GSH binding site (G-site) [chemical binding]; other site 561229007840 dimer interface [polypeptide binding]; other site 561229007841 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 561229007842 N-terminal domain interface [polypeptide binding]; other site 561229007843 dimer interface [polypeptide binding]; other site 561229007844 substrate binding pocket (H-site) [chemical binding]; other site 561229007845 Predicted transcriptional regulator [Transcription]; Region: COG3905 561229007846 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 561229007847 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 561229007848 catalytic residues [active] 561229007849 dimer interface [polypeptide binding]; other site 561229007850 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 561229007851 active site 561229007852 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 561229007853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229007854 NAD(P) binding site [chemical binding]; other site 561229007855 active site 561229007856 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229007857 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229007858 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 561229007859 ArsC family; Region: ArsC; pfam03960 561229007860 catalytic residues [active] 561229007861 arsenical pump membrane protein; Provisional; Region: PRK15445 561229007862 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 561229007863 transmembrane helices; other site 561229007864 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 561229007865 dimerization interface [polypeptide binding]; other site 561229007866 putative DNA binding site [nucleotide binding]; other site 561229007867 putative Zn2+ binding site [ion binding]; other site 561229007868 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 561229007869 GlpM protein; Region: GlpM; pfam06942 561229007870 acyl-CoA thioesterase; Provisional; Region: PRK10531 561229007871 putative pectinesterase; Region: PLN02432; cl01911 561229007872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561229007873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229007874 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229007875 Outer membrane efflux protein; Region: OEP; pfam02321 561229007876 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229007877 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561229007878 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561229007879 Walker A/P-loop; other site 561229007880 ATP binding site [chemical binding]; other site 561229007881 Q-loop/lid; other site 561229007882 ABC transporter signature motif; other site 561229007883 Walker B; other site 561229007884 D-loop; other site 561229007885 H-loop/switch region; other site 561229007886 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561229007887 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 561229007888 putative dimer interface [polypeptide binding]; other site 561229007889 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561229007890 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561229007891 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 561229007892 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 561229007893 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 561229007894 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561229007895 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561229007896 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561229007897 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 561229007898 carboxyltransferase (CT) interaction site; other site 561229007899 biotinylation site [posttranslational modification]; other site 561229007900 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 561229007901 putative active site [active] 561229007902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229007903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229007904 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 561229007905 putative substrate binding pocket [chemical binding]; other site 561229007906 dimerization interface [polypeptide binding]; other site 561229007907 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 561229007908 MarR family; Region: MarR_2; cl17246 561229007909 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229007910 outer membrane protein X; Provisional; Region: ompX; PRK09408 561229007911 threonine and homoserine efflux system; Provisional; Region: PRK10532 561229007912 EamA-like transporter family; Region: EamA; pfam00892 561229007913 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 561229007914 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 561229007915 dimerization interface [polypeptide binding]; other site 561229007916 DPS ferroxidase diiron center [ion binding]; other site 561229007917 ion pore; other site 561229007918 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 561229007919 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 561229007920 substrate binding pocket [chemical binding]; other site 561229007921 membrane-bound complex binding site; other site 561229007922 hinge residues; other site 561229007923 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229007924 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 561229007925 dimer interface [polypeptide binding]; other site 561229007926 conserved gate region; other site 561229007927 putative PBP binding loops; other site 561229007928 ABC-ATPase subunit interface; other site 561229007929 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 561229007930 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229007931 Walker A/P-loop; other site 561229007932 ATP binding site [chemical binding]; other site 561229007933 Q-loop/lid; other site 561229007934 ABC transporter signature motif; other site 561229007935 Walker B; other site 561229007936 D-loop; other site 561229007937 H-loop/switch region; other site 561229007938 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 561229007939 Interdomain contacts; other site 561229007940 Cytokine receptor motif; other site 561229007941 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 561229007942 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 561229007943 active site 561229007944 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 561229007945 active site 561229007946 Zn binding site [ion binding]; other site 561229007947 glycosyl transferase family protein; Provisional; Region: PRK08136 561229007948 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561229007949 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 561229007950 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 561229007951 DEAD_2; Region: DEAD_2; pfam06733 561229007952 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 561229007953 hypothetical protein; Provisional; Region: PRK13681 561229007954 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 561229007955 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 561229007956 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 561229007957 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 561229007958 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 561229007959 inhibitor-cofactor binding pocket; inhibition site 561229007960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229007961 catalytic residue [active] 561229007962 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561229007963 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561229007964 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229007965 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 561229007966 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 561229007967 putative C-terminal domain interface [polypeptide binding]; other site 561229007968 putative GSH binding site (G-site) [chemical binding]; other site 561229007969 putative dimer interface [polypeptide binding]; other site 561229007970 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 561229007971 putative substrate binding pocket (H-site) [chemical binding]; other site 561229007972 putative N-terminal domain interface [polypeptide binding]; other site 561229007973 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 561229007974 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 561229007975 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 561229007976 putative active site [active] 561229007977 putative metal binding residues [ion binding]; other site 561229007978 signature motif; other site 561229007979 putative triphosphate binding site [ion binding]; other site 561229007980 dimer interface [polypeptide binding]; other site 561229007981 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 561229007982 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 561229007983 active site 561229007984 metal binding site [ion binding]; metal-binding site 561229007985 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 561229007986 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 561229007987 FMN binding site [chemical binding]; other site 561229007988 active site 561229007989 catalytic residues [active] 561229007990 substrate binding site [chemical binding]; other site 561229007991 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229007992 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561229007993 peptide binding site [polypeptide binding]; other site 561229007994 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 561229007995 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 561229007996 metal binding site [ion binding]; metal-binding site 561229007997 dimer interface [polypeptide binding]; other site 561229007998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229007999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229008000 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561229008001 EamA-like transporter family; Region: EamA; pfam00892 561229008002 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561229008003 EamA-like transporter family; Region: EamA; pfam00892 561229008004 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 561229008005 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 561229008006 ATP binding site [chemical binding]; other site 561229008007 Mg++ binding site [ion binding]; other site 561229008008 motif III; other site 561229008009 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 561229008010 nucleotide binding region [chemical binding]; other site 561229008011 ATP-binding site [chemical binding]; other site 561229008012 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 561229008013 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229008014 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229008015 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 561229008016 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561229008017 Walker A/P-loop; other site 561229008018 ATP binding site [chemical binding]; other site 561229008019 Q-loop/lid; other site 561229008020 ABC transporter signature motif; other site 561229008021 Walker B; other site 561229008022 D-loop; other site 561229008023 H-loop/switch region; other site 561229008024 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 561229008025 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 561229008026 Walker A/P-loop; other site 561229008027 ATP binding site [chemical binding]; other site 561229008028 Q-loop/lid; other site 561229008029 ABC transporter signature motif; other site 561229008030 Walker B; other site 561229008031 D-loop; other site 561229008032 H-loop/switch region; other site 561229008033 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561229008034 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 561229008035 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 561229008036 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 561229008037 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 561229008038 putative catalytic site [active] 561229008039 putative metal binding site [ion binding]; other site 561229008040 putative phosphate binding site [ion binding]; other site 561229008041 cardiolipin synthase 2; Provisional; Region: PRK11263 561229008042 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 561229008043 putative active site [active] 561229008044 catalytic site [active] 561229008045 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 561229008046 putative active site [active] 561229008047 catalytic site [active] 561229008048 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229008049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229008050 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229008051 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 561229008052 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 561229008053 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 561229008054 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 561229008055 Walker A/P-loop; other site 561229008056 ATP binding site [chemical binding]; other site 561229008057 Q-loop/lid; other site 561229008058 ABC transporter signature motif; other site 561229008059 Walker B; other site 561229008060 D-loop; other site 561229008061 H-loop/switch region; other site 561229008062 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 561229008063 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 561229008064 dimer interface [polypeptide binding]; other site 561229008065 conserved gate region; other site 561229008066 putative PBP binding loops; other site 561229008067 ABC-ATPase subunit interface; other site 561229008068 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 561229008069 dimer interface [polypeptide binding]; other site 561229008070 conserved gate region; other site 561229008071 putative PBP binding loops; other site 561229008072 ABC-ATPase subunit interface; other site 561229008073 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 561229008074 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 561229008075 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 561229008076 MoaE homodimer interface [polypeptide binding]; other site 561229008077 MoaD interaction [polypeptide binding]; other site 561229008078 active site residues [active] 561229008079 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 561229008080 MoaE interaction surface [polypeptide binding]; other site 561229008081 MoeB interaction surface [polypeptide binding]; other site 561229008082 thiocarboxylated glycine; other site 561229008083 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 561229008084 trimer interface [polypeptide binding]; other site 561229008085 dimer interface [polypeptide binding]; other site 561229008086 putative active site [active] 561229008087 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 561229008088 MPT binding site; other site 561229008089 trimer interface [polypeptide binding]; other site 561229008090 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 561229008091 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 561229008092 FeS/SAM binding site; other site 561229008093 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 561229008094 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 561229008095 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 561229008096 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 561229008097 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 561229008098 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 561229008099 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 561229008100 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 561229008101 phosphate binding site [ion binding]; other site 561229008102 putative substrate binding pocket [chemical binding]; other site 561229008103 dimer interface [polypeptide binding]; other site 561229008104 excinuclease ABC subunit B; Provisional; Region: PRK05298 561229008105 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 561229008106 ATP binding site [chemical binding]; other site 561229008107 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 561229008108 nucleotide binding region [chemical binding]; other site 561229008109 ATP-binding site [chemical binding]; other site 561229008110 Ultra-violet resistance protein B; Region: UvrB; pfam12344 561229008111 UvrB/uvrC motif; Region: UVR; pfam02151 561229008112 AAA domain; Region: AAA_26; pfam13500 561229008113 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 561229008114 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 561229008115 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 561229008116 S-adenosylmethionine binding site [chemical binding]; other site 561229008117 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 561229008118 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 561229008119 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229008120 catalytic residue [active] 561229008121 biotin synthase; Provisional; Region: PRK15108 561229008122 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 561229008123 FeS/SAM binding site; other site 561229008124 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 561229008125 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 561229008126 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 561229008127 inhibitor-cofactor binding pocket; inhibition site 561229008128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229008129 catalytic residue [active] 561229008130 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 561229008131 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 561229008132 hypothetical protein; Provisional; Region: PRK01821 561229008133 hypothetical protein; Provisional; Region: PRK10711 561229008134 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 561229008135 cytidine deaminase; Provisional; Region: PRK09027 561229008136 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 561229008137 active site 561229008138 catalytic motif [active] 561229008139 Zn binding site [ion binding]; other site 561229008140 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 561229008141 active site 561229008142 catalytic motif [active] 561229008143 Zn binding site [ion binding]; other site 561229008144 malate dehydrogenase; Provisional; Region: PRK13529 561229008145 Malic enzyme, N-terminal domain; Region: malic; pfam00390 561229008146 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 561229008147 NAD(P) binding site [chemical binding]; other site 561229008148 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 561229008149 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 561229008150 dimer interface [polypeptide binding]; other site 561229008151 putative functional site; other site 561229008152 putative MPT binding site; other site 561229008153 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 561229008154 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 561229008155 ATP binding site [chemical binding]; other site 561229008156 substrate interface [chemical binding]; other site 561229008157 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 561229008158 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 561229008159 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561229008160 putative metal binding site; other site 561229008161 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 561229008162 binding surface 561229008163 TPR motif; other site 561229008164 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 561229008165 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 561229008166 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 561229008167 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561229008168 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 561229008169 sugar binding site [chemical binding]; other site 561229008170 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 561229008171 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229008172 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561229008173 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561229008174 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561229008175 Uncharacterized conserved protein [Function unknown]; Region: COG4104 561229008176 Homeodomain-like domain; Region: HTH_32; pfam13565 561229008177 Integrase core domain; Region: rve; pfam00665 561229008178 DDE domain; Region: DDE_Tnp_IS240; pfam13610 561229008179 Integrase core domain; Region: rve_3; pfam13683 561229008180 RHS Repeat; Region: RHS_repeat; pfam05593 561229008181 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561229008182 RHS Repeat; Region: RHS_repeat; cl11982 561229008183 RHS Repeat; Region: RHS_repeat; cl11982 561229008184 RHS Repeat; Region: RHS_repeat; cl11982 561229008185 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561229008186 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 561229008187 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 561229008188 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 561229008189 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 561229008190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229008191 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 561229008192 non-specific DNA binding site [nucleotide binding]; other site 561229008193 salt bridge; other site 561229008194 sequence-specific DNA binding site [nucleotide binding]; other site 561229008195 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229008196 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 561229008197 non-specific DNA binding site [nucleotide binding]; other site 561229008198 salt bridge; other site 561229008199 sequence-specific DNA binding site [nucleotide binding]; other site 561229008200 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 561229008201 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 561229008202 Protein of unknown function, DUF606; Region: DUF606; pfam04657 561229008203 Protein of unknown function, DUF606; Region: DUF606; pfam04657 561229008204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229008205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008206 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229008207 putative effector binding pocket; other site 561229008208 dimerization interface [polypeptide binding]; other site 561229008209 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 561229008210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229008211 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229008212 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229008213 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229008214 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229008215 Walker A/P-loop; other site 561229008216 ATP binding site [chemical binding]; other site 561229008217 Q-loop/lid; other site 561229008218 ABC transporter signature motif; other site 561229008219 Walker B; other site 561229008220 D-loop; other site 561229008221 H-loop/switch region; other site 561229008222 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 561229008223 dimer interface [polypeptide binding]; other site 561229008224 conserved gate region; other site 561229008225 putative PBP binding loops; other site 561229008226 ABC-ATPase subunit interface; other site 561229008227 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 561229008228 dimer interface [polypeptide binding]; other site 561229008229 conserved gate region; other site 561229008230 putative PBP binding loops; other site 561229008231 ABC-ATPase subunit interface; other site 561229008232 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 561229008233 classical (c) SDRs; Region: SDR_c; cd05233 561229008234 NAD(P) binding site [chemical binding]; other site 561229008235 active site 561229008236 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 561229008237 Peptidase; Region: DUF3663; pfam12404 561229008238 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 561229008239 lipoyl-biotinyl attachment site [posttranslational modification]; other site 561229008240 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 561229008241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008242 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 561229008243 putative dimerization interface [polypeptide binding]; other site 561229008244 aspartate aminotransferase; Provisional; Region: PRK05764 561229008245 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 561229008246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229008247 homodimer interface [polypeptide binding]; other site 561229008248 catalytic residue [active] 561229008249 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 561229008250 putative active site [active] 561229008251 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 561229008252 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 561229008253 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 561229008254 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229008255 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 561229008256 substrate binding pocket [chemical binding]; other site 561229008257 membrane-bound complex binding site; other site 561229008258 hinge residues; other site 561229008259 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561229008260 EamA-like transporter family; Region: EamA; pfam00892 561229008261 EamA-like transporter family; Region: EamA; pfam00892 561229008262 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 561229008263 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229008264 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229008265 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 561229008266 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 561229008267 dimer interface [polypeptide binding]; other site 561229008268 active site 561229008269 metal binding site [ion binding]; metal-binding site 561229008270 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 561229008271 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 561229008272 metal binding site [ion binding]; metal-binding site 561229008273 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 561229008274 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 561229008275 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561229008276 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 561229008277 ABC-ATPase subunit interface; other site 561229008278 dimer interface [polypeptide binding]; other site 561229008279 putative PBP binding regions; other site 561229008280 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 561229008281 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 561229008282 ABC-ATPase subunit interface; other site 561229008283 dimer interface [polypeptide binding]; other site 561229008284 putative PBP binding regions; other site 561229008285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229008286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008287 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 561229008288 dimerization interface [polypeptide binding]; other site 561229008289 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 561229008290 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 561229008291 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 561229008292 Membrane transport protein; Region: Mem_trans; cl09117 561229008293 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 561229008294 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 561229008295 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 561229008296 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 561229008297 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 561229008298 Coenzyme A transferase; Region: CoA_trans; cl17247 561229008299 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 561229008300 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 561229008301 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 561229008302 active site 561229008303 phosphorylation site [posttranslational modification] 561229008304 intermolecular recognition site; other site 561229008305 dimerization interface [polypeptide binding]; other site 561229008306 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561229008307 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229008308 Walker A/P-loop; other site 561229008309 ATP binding site [chemical binding]; other site 561229008310 Q-loop/lid; other site 561229008311 ABC transporter signature motif; other site 561229008312 Walker B; other site 561229008313 D-loop; other site 561229008314 H-loop/switch region; other site 561229008315 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229008316 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229008317 Walker A/P-loop; other site 561229008318 ATP binding site [chemical binding]; other site 561229008319 Q-loop/lid; other site 561229008320 ABC transporter signature motif; other site 561229008321 Walker B; other site 561229008322 D-loop; other site 561229008323 H-loop/switch region; other site 561229008324 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561229008325 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561229008326 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 561229008327 dimer interface [polypeptide binding]; other site 561229008328 conserved gate region; other site 561229008329 putative PBP binding loops; other site 561229008330 ABC-ATPase subunit interface; other site 561229008331 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229008332 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 561229008333 dimer interface [polypeptide binding]; other site 561229008334 conserved gate region; other site 561229008335 putative PBP binding loops; other site 561229008336 ABC-ATPase subunit interface; other site 561229008337 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 561229008338 active site 561229008339 tetramer interface [polypeptide binding]; other site 561229008340 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 561229008341 active site 561229008342 tetramer interface [polypeptide binding]; other site 561229008343 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229008344 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 561229008345 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 561229008346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008347 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 561229008348 dimerization interface [polypeptide binding]; other site 561229008349 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 561229008350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229008351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008352 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 561229008353 dimerization interface [polypeptide binding]; other site 561229008354 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561229008355 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; cl17432 561229008356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 561229008357 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229008358 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229008359 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 561229008360 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 561229008361 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 561229008362 Walker A/P-loop; other site 561229008363 ATP binding site [chemical binding]; other site 561229008364 Q-loop/lid; other site 561229008365 ABC transporter signature motif; other site 561229008366 Walker B; other site 561229008367 D-loop; other site 561229008368 H-loop/switch region; other site 561229008369 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 561229008370 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 561229008371 catalytic residues [active] 561229008372 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 561229008373 dimer interface [polypeptide binding]; other site 561229008374 conserved gate region; other site 561229008375 ABC-ATPase subunit interface; other site 561229008376 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229008377 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 561229008378 Walker A/P-loop; other site 561229008379 ATP binding site [chemical binding]; other site 561229008380 Q-loop/lid; other site 561229008381 ABC transporter signature motif; other site 561229008382 Walker B; other site 561229008383 D-loop; other site 561229008384 H-loop/switch region; other site 561229008385 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 561229008386 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 561229008387 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 561229008388 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 561229008389 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 561229008390 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 561229008391 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229008392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008393 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 561229008394 dimerization interface [polypeptide binding]; other site 561229008395 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 561229008396 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 561229008397 N-terminal plug; other site 561229008398 ligand-binding site [chemical binding]; other site 561229008399 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 561229008400 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; cl17432 561229008401 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 561229008402 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561229008403 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 561229008404 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561229008405 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 561229008406 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229008407 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 561229008408 dimer interface [polypeptide binding]; other site 561229008409 conserved gate region; other site 561229008410 putative PBP binding loops; other site 561229008411 ABC-ATPase subunit interface; other site 561229008412 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 561229008413 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 561229008414 dimer interface [polypeptide binding]; other site 561229008415 conserved gate region; other site 561229008416 putative PBP binding loops; other site 561229008417 ABC-ATPase subunit interface; other site 561229008418 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229008419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229008420 metal binding site [ion binding]; metal-binding site 561229008421 active site 561229008422 I-site; other site 561229008423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229008424 Coenzyme A binding pocket [chemical binding]; other site 561229008425 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 561229008426 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 561229008427 active site 561229008428 Winged helix-turn helix; Region: HTH_29; pfam13551 561229008429 Helix-turn-helix domain; Region: HTH_28; pfam13518 561229008430 Homeodomain-like domain; Region: HTH_32; pfam13565 561229008431 Integrase core domain; Region: rve; pfam00665 561229008432 pantocin A family RiPP; Region: pantocin_A_pre; TIGR04310 561229008433 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 561229008434 ATP binding site [chemical binding]; other site 561229008435 substrate interface [chemical binding]; other site 561229008436 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 561229008437 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561229008438 EamA-like transporter family; Region: EamA; pfam00892 561229008439 EamA-like transporter family; Region: EamA; pfam00892 561229008440 galactoside permease; Reviewed; Region: lacY; PRK09528 561229008441 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 561229008442 putative substrate translocation pore; other site 561229008443 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 561229008444 Melibiase; Region: Melibiase; pfam02065 561229008445 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229008446 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229008447 DNA binding site [nucleotide binding] 561229008448 domain linker motif; other site 561229008449 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 561229008450 ligand binding site [chemical binding]; other site 561229008451 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 561229008452 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 561229008453 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 561229008454 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 561229008455 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 561229008456 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 561229008457 [4Fe-4S] binding site [ion binding]; other site 561229008458 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 561229008459 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 561229008460 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 561229008461 molybdopterin cofactor binding site; other site 561229008462 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 561229008463 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 561229008464 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 561229008465 HicB family; Region: HicB; pfam05534 561229008466 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 561229008467 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561229008468 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561229008469 Walker A/P-loop; other site 561229008470 ATP binding site [chemical binding]; other site 561229008471 Q-loop/lid; other site 561229008472 ABC transporter signature motif; other site 561229008473 Walker B; other site 561229008474 D-loop; other site 561229008475 H-loop/switch region; other site 561229008476 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 561229008477 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 561229008478 ABC-ATPase subunit interface; other site 561229008479 dimer interface [polypeptide binding]; other site 561229008480 putative PBP binding regions; other site 561229008481 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561229008482 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 561229008483 ABC-ATPase subunit interface; other site 561229008484 dimer interface [polypeptide binding]; other site 561229008485 putative PBP binding regions; other site 561229008486 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 561229008487 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561229008488 siderophore binding site; other site 561229008489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229008490 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229008491 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229008492 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 561229008493 IucA / IucC family; Region: IucA_IucC; pfam04183 561229008494 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561229008495 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 561229008496 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 561229008497 IucA / IucC family; Region: IucA_IucC; pfam04183 561229008498 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561229008499 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 561229008500 putative transporter; Provisional; Region: PRK10504 561229008501 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 561229008502 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 561229008503 dimer interface [polypeptide binding]; other site 561229008504 active site 561229008505 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 561229008506 catalytic residues [active] 561229008507 substrate binding site [chemical binding]; other site 561229008508 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 561229008509 IucA / IucC family; Region: IucA_IucC; pfam04183 561229008510 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 561229008511 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561229008512 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 561229008513 N-terminal plug; other site 561229008514 ligand-binding site [chemical binding]; other site 561229008515 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 561229008516 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 561229008517 inhibitor-cofactor binding pocket; inhibition site 561229008518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229008519 catalytic residue [active] 561229008520 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 561229008521 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 561229008522 dimer interface [polypeptide binding]; other site 561229008523 conserved gate region; other site 561229008524 putative PBP binding loops; other site 561229008525 ABC-ATPase subunit interface; other site 561229008526 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 561229008527 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 561229008528 dimer interface [polypeptide binding]; other site 561229008529 conserved gate region; other site 561229008530 putative PBP binding loops; other site 561229008531 ABC-ATPase subunit interface; other site 561229008532 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 561229008533 Transferrin; Region: Transferrin; cl02460 561229008534 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 561229008535 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 561229008536 Walker A/P-loop; other site 561229008537 ATP binding site [chemical binding]; other site 561229008538 Q-loop/lid; other site 561229008539 ABC transporter signature motif; other site 561229008540 Walker B; other site 561229008541 D-loop; other site 561229008542 H-loop/switch region; other site 561229008543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229008544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008545 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561229008546 putative effector binding pocket; other site 561229008547 putative dimerization interface [polypeptide binding]; other site 561229008548 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 561229008549 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229008550 active site 561229008551 catalytic tetrad [active] 561229008552 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 561229008553 putative hydrolase; Provisional; Region: PRK02113 561229008554 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 561229008555 Guanylate kinase; Region: Guanylate_kin; pfam00625 561229008556 active site 561229008557 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 561229008558 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 561229008559 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 561229008560 active site 561229008561 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 561229008562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229008563 Walker A/P-loop; other site 561229008564 ATP binding site [chemical binding]; other site 561229008565 Q-loop/lid; other site 561229008566 ABC transporter signature motif; other site 561229008567 Walker B; other site 561229008568 D-loop; other site 561229008569 H-loop/switch region; other site 561229008570 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 561229008571 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229008572 Walker A/P-loop; other site 561229008573 ATP binding site [chemical binding]; other site 561229008574 Q-loop/lid; other site 561229008575 ABC transporter signature motif; other site 561229008576 Walker B; other site 561229008577 D-loop; other site 561229008578 H-loop/switch region; other site 561229008579 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229008580 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 561229008581 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 561229008582 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 561229008583 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 561229008584 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 561229008585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229008586 DNA-binding site [nucleotide binding]; DNA binding site 561229008587 UTRA domain; Region: UTRA; pfam07702 561229008588 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229008589 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 561229008590 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 561229008591 inhibitor-cofactor binding pocket; inhibition site 561229008592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229008593 catalytic residue [active] 561229008594 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 561229008595 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 561229008596 tetrameric interface [polypeptide binding]; other site 561229008597 NAD binding site [chemical binding]; other site 561229008598 catalytic residues [active] 561229008599 substrate binding site [chemical binding]; other site 561229008600 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 561229008601 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 561229008602 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561229008603 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229008604 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 561229008605 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561229008606 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 561229008607 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 561229008608 substrate binding site [chemical binding]; other site 561229008609 dimerization interface [polypeptide binding]; other site 561229008610 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 561229008611 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 561229008612 4Fe-4S binding domain; Region: Fer4; pfam00037 561229008613 hydrogenase 4 subunit B; Validated; Region: PRK06521 561229008614 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561229008615 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 561229008616 NADH dehydrogenase; Region: NADHdh; cl00469 561229008617 hydrogenase 4 subunit D; Validated; Region: PRK06525 561229008618 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561229008619 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 561229008620 hydrogenase 4 subunit F; Validated; Region: PRK06458 561229008621 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 561229008622 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 561229008623 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 561229008624 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 561229008625 hydrogenase 4 subunit H; Validated; Region: PRK08222 561229008626 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 561229008627 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 561229008628 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 561229008629 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 561229008630 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 561229008631 nickel binding site [ion binding]; other site 561229008632 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 561229008633 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 561229008634 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 561229008635 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 561229008636 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 561229008637 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 561229008638 [4Fe-4S] binding site [ion binding]; other site 561229008639 molybdopterin cofactor binding site; other site 561229008640 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 561229008641 molybdopterin cofactor binding site; other site 561229008642 Divergent AAA domain; Region: AAA_4; pfam04326 561229008643 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 561229008644 AAA domain; Region: AAA_31; pfam13614 561229008645 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 561229008646 P-loop; other site 561229008647 Magnesium ion binding site [ion binding]; other site 561229008648 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 561229008649 Magnesium ion binding site [ion binding]; other site 561229008650 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 561229008651 GAF domain; Region: GAF_3; pfam13492 561229008652 GAF domain; Region: GAF; cl17456 561229008653 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 561229008654 Walker A motif; other site 561229008655 ATP binding site [chemical binding]; other site 561229008656 Walker B motif; other site 561229008657 arginine finger; other site 561229008658 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 561229008659 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561229008660 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 561229008661 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 561229008662 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 561229008663 putative N-terminal domain interface [polypeptide binding]; other site 561229008664 cell density-dependent motility repressor; Provisional; Region: PRK10082 561229008665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008666 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 561229008667 dimerization interface [polypeptide binding]; other site 561229008668 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 561229008669 aspartate racemase; Region: asp_race; TIGR00035 561229008670 lac repressor; Reviewed; Region: lacI; PRK09526 561229008671 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229008672 DNA binding site [nucleotide binding] 561229008673 domain linker motif; other site 561229008674 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 561229008675 ligand binding site [chemical binding]; other site 561229008676 dimerization interface (open form) [polypeptide binding]; other site 561229008677 dimerization interface (closed form) [polypeptide binding]; other site 561229008678 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 561229008679 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 561229008680 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 561229008681 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 561229008682 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 561229008683 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 561229008684 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 561229008685 classical (c) SDRs; Region: SDR_c; cd05233 561229008686 NAD(P) binding site [chemical binding]; other site 561229008687 active site 561229008688 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 561229008689 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561229008690 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 561229008691 putative substrate translocation pore; other site 561229008692 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 561229008693 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561229008694 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229008695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229008696 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 561229008697 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 561229008698 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 561229008699 putative NAD(P) binding site [chemical binding]; other site 561229008700 putative substrate binding site [chemical binding]; other site 561229008701 catalytic Zn binding site [ion binding]; other site 561229008702 structural Zn binding site [ion binding]; other site 561229008703 dimer interface [polypeptide binding]; other site 561229008704 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 561229008705 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 561229008706 Walker A/P-loop; other site 561229008707 ATP binding site [chemical binding]; other site 561229008708 Q-loop/lid; other site 561229008709 ABC transporter signature motif; other site 561229008710 Walker B; other site 561229008711 D-loop; other site 561229008712 H-loop/switch region; other site 561229008713 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 561229008714 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 561229008715 Walker A/P-loop; other site 561229008716 ATP binding site [chemical binding]; other site 561229008717 Q-loop/lid; other site 561229008718 ABC transporter signature motif; other site 561229008719 Walker B; other site 561229008720 D-loop; other site 561229008721 H-loop/switch region; other site 561229008722 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 561229008723 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 561229008724 TM-ABC transporter signature motif; other site 561229008725 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 561229008726 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229008727 TM-ABC transporter signature motif; other site 561229008728 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 561229008729 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 561229008730 putative ligand binding site [chemical binding]; other site 561229008731 Transcriptional regulators [Transcription]; Region: GntR; COG1802 561229008732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229008733 DNA-binding site [nucleotide binding]; DNA binding site 561229008734 FCD domain; Region: FCD; pfam07729 561229008735 urea carboxylase; Region: urea_carbox; TIGR02712 561229008736 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561229008737 ATP-grasp domain; Region: ATP-grasp_4; cl17255 561229008738 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561229008739 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 561229008740 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561229008741 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 561229008742 carboxyltransferase (CT) interaction site; other site 561229008743 biotinylation site [posttranslational modification]; other site 561229008744 allophanate hydrolase; Provisional; Region: PRK08186 561229008745 Amidase; Region: Amidase; cl11426 561229008746 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 561229008747 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 561229008748 Flavin Reductases; Region: FlaRed; cl00801 561229008749 hypothetical protein; Provisional; Region: PRK11667 561229008750 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229008751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229008752 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 561229008753 MarR family; Region: MarR_2; cl17246 561229008754 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229008755 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229008756 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229008757 Walker A/P-loop; other site 561229008758 ATP binding site [chemical binding]; other site 561229008759 Q-loop/lid; other site 561229008760 ABC transporter signature motif; other site 561229008761 Walker B; other site 561229008762 D-loop; other site 561229008763 H-loop/switch region; other site 561229008764 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229008765 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 561229008766 Walker A/P-loop; other site 561229008767 ATP binding site [chemical binding]; other site 561229008768 Q-loop/lid; other site 561229008769 ABC transporter signature motif; other site 561229008770 Walker B; other site 561229008771 D-loop; other site 561229008772 H-loop/switch region; other site 561229008773 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561229008774 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 561229008775 dimer interface [polypeptide binding]; other site 561229008776 conserved gate region; other site 561229008777 putative PBP binding loops; other site 561229008778 ABC-ATPase subunit interface; other site 561229008779 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 561229008780 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 561229008781 dimer interface [polypeptide binding]; other site 561229008782 conserved gate region; other site 561229008783 putative PBP binding loops; other site 561229008784 ABC-ATPase subunit interface; other site 561229008785 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 561229008786 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229008787 substrate binding site [chemical binding]; other site 561229008788 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 561229008789 S-adenosylmethionine binding site [chemical binding]; other site 561229008790 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 561229008791 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 561229008792 dimer interface [polypeptide binding]; other site 561229008793 active site 561229008794 heme binding site [chemical binding]; other site 561229008795 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 561229008796 hypothetical protein; Provisional; Region: PRK01821 561229008797 hypothetical protein; Provisional; Region: PRK10711 561229008798 Cupin domain; Region: Cupin_2; pfam07883 561229008799 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229008800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229008801 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 561229008802 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 561229008803 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 561229008804 S-adenosylmethionine binding site [chemical binding]; other site 561229008805 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 561229008806 Cysteine-rich domain; Region: CCG; pfam02754 561229008807 Cysteine-rich domain; Region: CCG; pfam02754 561229008808 iron-sulfur cluster-binding protein; Region: TIGR00273 561229008809 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 561229008810 4Fe-4S binding domain; Region: Fer4; cl02805 561229008811 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 561229008812 Uncharacterized conserved protein [Function unknown]; Region: COG1556 561229008813 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 561229008814 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229008815 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229008816 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 561229008817 Walker A/P-loop; other site 561229008818 ATP binding site [chemical binding]; other site 561229008819 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 561229008820 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561229008821 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 561229008822 dimerization interface [polypeptide binding]; other site 561229008823 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 561229008824 dimer interface [polypeptide binding]; other site 561229008825 phosphorylation site [posttranslational modification] 561229008826 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 561229008827 ATP binding site [chemical binding]; other site 561229008828 Mg2+ binding site [ion binding]; other site 561229008829 G-X-G motif; other site 561229008830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561229008831 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 561229008832 active site 561229008833 phosphorylation site [posttranslational modification] 561229008834 intermolecular recognition site; other site 561229008835 dimerization interface [polypeptide binding]; other site 561229008836 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 561229008837 DNA binding site [nucleotide binding] 561229008838 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 561229008839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229008840 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229008841 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 561229008842 N-acetyltransferase; Region: Acetyltransf_2; cl00949 561229008843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229008844 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229008845 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229008846 putative effector binding pocket; other site 561229008847 dimerization interface [polypeptide binding]; other site 561229008848 proline/glycine betaine transporter; Provisional; Region: PRK10642 561229008849 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 561229008850 putative substrate translocation pore; other site 561229008851 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 561229008852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 561229008853 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 561229008854 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 561229008855 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 561229008856 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 561229008857 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 561229008858 Imelysin; Region: Peptidase_M75; pfam09375 561229008859 Iron permease FTR1 family; Region: FTR1; cl00475 561229008860 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229008861 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229008862 metal binding site [ion binding]; metal-binding site 561229008863 active site 561229008864 I-site; other site 561229008865 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 561229008866 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 561229008867 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 561229008868 active site 561229008869 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 561229008870 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 561229008871 homodimer interface [polypeptide binding]; other site 561229008872 substrate-cofactor binding pocket; other site 561229008873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229008874 catalytic residue [active] 561229008875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229008876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229008877 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 561229008878 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 561229008879 DKNYY family; Region: DKNYY; pfam13644 561229008880 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561229008881 Sel1 repeat; Region: Sel1; cl02723 561229008882 Sel1-like repeats; Region: SEL1; smart00671 561229008883 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 561229008884 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561229008885 ImpA domain protein; Region: DUF3702; pfam12486 561229008886 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 561229008887 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 561229008888 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 561229008889 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 561229008890 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 561229008891 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 561229008892 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 561229008893 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 561229008894 Walker A motif; other site 561229008895 ATP binding site [chemical binding]; other site 561229008896 Walker B motif; other site 561229008897 arginine finger; other site 561229008898 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 561229008899 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 561229008900 Walker A motif; other site 561229008901 ATP binding site [chemical binding]; other site 561229008902 Walker B motif; other site 561229008903 arginine finger; other site 561229008904 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 561229008905 Walker A motif; other site 561229008906 ATP binding site [chemical binding]; other site 561229008907 Walker B motif; other site 561229008908 arginine finger; other site 561229008909 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561229008910 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 561229008911 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 561229008912 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 561229008913 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 561229008914 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 561229008915 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 561229008916 phosphopeptide binding site; other site 561229008917 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 561229008918 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 561229008919 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 561229008920 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 561229008921 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 561229008922 Protein of unknown function (DUF877); Region: DUF877; pfam05943 561229008923 Protein of unknown function (DUF770); Region: DUF770; pfam05591 561229008924 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 561229008925 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 561229008926 metal binding site [ion binding]; metal-binding site 561229008927 putative dimer interface [polypeptide binding]; other site 561229008928 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 561229008929 RHS Repeat; Region: RHS_repeat; cl11982 561229008930 RHS Repeat; Region: RHS_repeat; pfam05593 561229008931 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561229008932 RHS Repeat; Region: RHS_repeat; pfam05593 561229008933 RHS Repeat; Region: RHS_repeat; cl11982 561229008934 RHS Repeat; Region: RHS_repeat; pfam05593 561229008935 RHS Repeat; Region: RHS_repeat; pfam05593 561229008936 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561229008937 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229008938 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 561229008939 non-specific DNA binding site [nucleotide binding]; other site 561229008940 salt bridge; other site 561229008941 sequence-specific DNA binding site [nucleotide binding]; other site 561229008942 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 561229008943 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 561229008944 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 561229008945 RHS Repeat; Region: RHS_repeat; cl11982 561229008946 RHS Repeat; Region: RHS_repeat; pfam05593 561229008947 RHS Repeat; Region: RHS_repeat; pfam05593 561229008948 RHS Repeat; Region: RHS_repeat; cl11982 561229008949 RHS Repeat; Region: RHS_repeat; pfam05593 561229008950 RHS Repeat; Region: RHS_repeat; pfam05593 561229008951 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 561229008952 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561229008953 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 561229008954 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 561229008955 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 561229008956 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561229008957 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561229008958 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 561229008959 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561229008960 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 561229008961 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 561229008962 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 561229008963 Uncharacterized conserved protein [Function unknown]; Region: COG4104 561229008964 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 561229008965 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 561229008966 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 561229008967 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229008968 AMP nucleosidase; Provisional; Region: PRK08292 561229008969 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 561229008970 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 561229008971 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 561229008972 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 561229008973 dimerization interface [polypeptide binding]; other site 561229008974 DPS ferroxidase diiron center [ion binding]; other site 561229008975 ion pore; other site 561229008976 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 561229008977 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 561229008978 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 561229008979 N-terminal plug; other site 561229008980 ligand-binding site [chemical binding]; other site 561229008981 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 561229008982 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 561229008983 Walker A/P-loop; other site 561229008984 ATP binding site [chemical binding]; other site 561229008985 Q-loop/lid; other site 561229008986 ABC transporter signature motif; other site 561229008987 Walker B; other site 561229008988 D-loop; other site 561229008989 H-loop/switch region; other site 561229008990 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 561229008991 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 561229008992 putative PBP binding regions; other site 561229008993 ABC-ATPase subunit interface; other site 561229008994 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 561229008995 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 561229008996 intersubunit interface [polypeptide binding]; other site 561229008997 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 561229008998 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561229008999 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 561229009000 Protein of unknown function (DUF535); Region: DUF535; pfam04393 561229009001 short chain dehydrogenase; Provisional; Region: PRK12937 561229009002 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 561229009003 NADP binding site [chemical binding]; other site 561229009004 homodimer interface [polypeptide binding]; other site 561229009005 active site 561229009006 substrate binding site [chemical binding]; other site 561229009007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229009008 DNA-binding site [nucleotide binding]; DNA binding site 561229009009 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229009010 DNA-binding site [nucleotide binding]; DNA binding site 561229009011 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 561229009012 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561229009013 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 561229009014 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 561229009015 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 561229009016 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 561229009017 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 561229009018 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 561229009019 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 561229009020 active site 561229009021 tetramer interface; other site 561229009022 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 561229009023 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 561229009024 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 561229009025 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 561229009026 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561229009027 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 561229009028 putative NAD(P) binding site [chemical binding]; other site 561229009029 active site 561229009030 putative substrate binding site [chemical binding]; other site 561229009031 phosphomannomutase CpsG; Provisional; Region: PRK15414 561229009032 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 561229009033 active site 561229009034 substrate binding site [chemical binding]; other site 561229009035 metal binding site [ion binding]; metal-binding site 561229009036 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 561229009037 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 561229009038 Substrate binding site; other site 561229009039 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 561229009040 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 561229009041 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 561229009042 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 561229009043 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561229009044 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 561229009045 Probable Catalytic site; other site 561229009046 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 561229009047 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 561229009048 NADP binding site [chemical binding]; other site 561229009049 active site 561229009050 putative substrate binding site [chemical binding]; other site 561229009051 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 561229009052 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 561229009053 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 561229009054 substrate binding site; other site 561229009055 tetramer interface; other site 561229009056 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 561229009057 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 561229009058 NAD binding site [chemical binding]; other site 561229009059 substrate binding site [chemical binding]; other site 561229009060 homodimer interface [polypeptide binding]; other site 561229009061 active site 561229009062 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 561229009063 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 561229009064 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 561229009065 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 561229009066 active site 561229009067 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 561229009068 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229009069 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229009070 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 561229009071 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229009072 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 561229009073 tyrosine kinase; Provisional; Region: PRK11519 561229009074 Chain length determinant protein; Region: Wzz; pfam02706 561229009075 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 561229009076 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 561229009077 Low molecular weight phosphatase family; Region: LMWPc; cd00115 561229009078 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 561229009079 active site 561229009080 polysaccharide export protein Wza; Provisional; Region: PRK15078 561229009081 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 561229009082 SLBB domain; Region: SLBB; pfam10531 561229009083 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561229009084 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 561229009085 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 561229009086 Transporter associated domain; Region: CorC_HlyC; smart01091 561229009087 putative assembly protein; Provisional; Region: PRK10833 561229009088 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561229009089 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 561229009090 trimer interface [polypeptide binding]; other site 561229009091 active site 561229009092 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 561229009093 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 561229009094 ATP-binding site [chemical binding]; other site 561229009095 Sugar specificity; other site 561229009096 Pyrimidine base specificity; other site 561229009097 antiporter inner membrane protein; Provisional; Region: PRK11670 561229009098 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 561229009099 Walker A motif; other site 561229009100 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 561229009101 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 561229009102 active site 561229009103 HIGH motif; other site 561229009104 KMSKS motif; other site 561229009105 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 561229009106 tRNA binding surface [nucleotide binding]; other site 561229009107 anticodon binding site; other site 561229009108 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 561229009109 dimer interface [polypeptide binding]; other site 561229009110 putative tRNA-binding site [nucleotide binding]; other site 561229009111 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229009112 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229009113 VirK protein; Region: VirK; pfam06903 561229009114 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 561229009115 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561229009116 putative ligand binding site [chemical binding]; other site 561229009117 Uncharacterized conserved protein [Function unknown]; Region: COG5276 561229009118 6-phosphogluconolactonase; Provisional; Region: PRK11028 561229009119 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 561229009120 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 561229009121 active site 561229009122 motif I; other site 561229009123 motif II; other site 561229009124 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 561229009125 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 561229009126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229009127 Walker A/P-loop; other site 561229009128 ATP binding site [chemical binding]; other site 561229009129 Q-loop/lid; other site 561229009130 ABC transporter signature motif; other site 561229009131 Walker B; other site 561229009132 D-loop; other site 561229009133 H-loop/switch region; other site 561229009134 TOBE domain; Region: TOBE; cl01440 561229009135 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 561229009136 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 561229009137 dimer interface [polypeptide binding]; other site 561229009138 conserved gate region; other site 561229009139 putative PBP binding loops; other site 561229009140 ABC-ATPase subunit interface; other site 561229009141 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 561229009142 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561229009143 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 561229009144 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 561229009145 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 561229009146 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561229009147 TOBE domain; Region: TOBE; cl01440 561229009148 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 561229009149 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229009150 Walker A/P-loop; other site 561229009151 ATP binding site [chemical binding]; other site 561229009152 Q-loop/lid; other site 561229009153 ABC transporter signature motif; other site 561229009154 Walker B; other site 561229009155 D-loop; other site 561229009156 H-loop/switch region; other site 561229009157 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229009158 Walker A/P-loop; other site 561229009159 ATP binding site [chemical binding]; other site 561229009160 Q-loop/lid; other site 561229009161 ABC transporter signature motif; other site 561229009162 Walker B; other site 561229009163 D-loop; other site 561229009164 H-loop/switch region; other site 561229009165 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 561229009166 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 561229009167 NAD binding site [chemical binding]; other site 561229009168 homodimer interface [polypeptide binding]; other site 561229009169 active site 561229009170 substrate binding site [chemical binding]; other site 561229009171 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 561229009172 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 561229009173 dimer interface [polypeptide binding]; other site 561229009174 active site 561229009175 galactokinase; Provisional; Region: PRK05101 561229009176 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 561229009177 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 561229009178 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 561229009179 active site 561229009180 catalytic residues [active] 561229009181 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 561229009182 Outer membrane efflux protein; Region: OEP; pfam02321 561229009183 Outer membrane efflux protein; Region: OEP; pfam02321 561229009184 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 561229009185 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229009186 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 561229009187 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 561229009188 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 561229009189 catalytic core [active] 561229009190 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 561229009191 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 561229009192 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 561229009193 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 561229009194 quinolinate synthetase; Provisional; Region: PRK09375 561229009195 Protein of unknown function (DUF554); Region: DUF554; pfam04474 561229009196 tol-pal system protein YbgF; Provisional; Region: PRK10803 561229009197 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 561229009198 binding surface 561229009199 TPR motif; other site 561229009200 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 561229009201 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 561229009202 ligand binding site [chemical binding]; other site 561229009203 translocation protein TolB; Provisional; Region: tolB; PRK03629 561229009204 TolB amino-terminal domain; Region: TolB_N; pfam04052 561229009205 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561229009206 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561229009207 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 561229009208 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 561229009209 TolA C-terminal; Region: TolA; pfam06519 561229009210 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561229009211 colicin uptake protein TolR; Provisional; Region: PRK11024 561229009212 colicin uptake protein TolQ; Provisional; Region: PRK10801 561229009213 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 561229009214 active site 561229009215 hypothetical protein; Provisional; Region: PRK10588 561229009216 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 561229009217 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 561229009218 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 561229009219 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 561229009220 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 561229009221 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 561229009222 CoA binding domain; Region: CoA_binding; smart00881 561229009223 CoA-ligase; Region: Ligase_CoA; pfam00549 561229009224 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 561229009225 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 561229009226 CoA-ligase; Region: Ligase_CoA; pfam00549 561229009227 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 561229009228 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 561229009229 E3 interaction surface; other site 561229009230 lipoyl attachment site [posttranslational modification]; other site 561229009231 e3 binding domain; Region: E3_binding; pfam02817 561229009232 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 561229009233 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 561229009234 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 561229009235 TPP-binding site [chemical binding]; other site 561229009236 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 561229009237 dimer interface [polypeptide binding]; other site 561229009238 PYR/PP interface [polypeptide binding]; other site 561229009239 TPP binding site [chemical binding]; other site 561229009240 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 561229009241 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 561229009242 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 561229009243 L-aspartate oxidase; Provisional; Region: PRK06175 561229009244 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 561229009245 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 561229009246 SdhC subunit interface [polypeptide binding]; other site 561229009247 proximal heme binding site [chemical binding]; other site 561229009248 cardiolipin binding site; other site 561229009249 Iron-sulfur protein interface; other site 561229009250 proximal quinone binding site [chemical binding]; other site 561229009251 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 561229009252 Iron-sulfur protein interface; other site 561229009253 proximal quinone binding site [chemical binding]; other site 561229009254 SdhD (CybS) interface [polypeptide binding]; other site 561229009255 proximal heme binding site [chemical binding]; other site 561229009256 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 561229009257 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 561229009258 dimer interface [polypeptide binding]; other site 561229009259 active site 561229009260 citrylCoA binding site [chemical binding]; other site 561229009261 NADH binding [chemical binding]; other site 561229009262 cationic pore residues; other site 561229009263 oxalacetate/citrate binding site [chemical binding]; other site 561229009264 coenzyme A binding site [chemical binding]; other site 561229009265 catalytic triad [active] 561229009266 LamB/YcsF family protein; Provisional; Region: PRK05406 561229009267 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 561229009268 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 561229009269 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 561229009270 Uncharacterized conserved protein [Function unknown]; Region: COG0327 561229009271 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 561229009272 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 561229009273 DNA photolyase; Region: DNA_photolyase; pfam00875 561229009274 Protein of unknown function (DUF523); Region: DUF523; pfam04463 561229009275 Uncharacterized conserved protein [Function unknown]; Region: COG3272 561229009276 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 561229009277 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 561229009278 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 561229009279 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 561229009280 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561229009281 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 561229009282 sensor protein KdpD; Provisional; Region: PRK10490 561229009283 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 561229009284 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 561229009285 Ligand Binding Site [chemical binding]; other site 561229009286 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 561229009287 GAF domain; Region: GAF_3; pfam13492 561229009288 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 561229009289 dimer interface [polypeptide binding]; other site 561229009290 phosphorylation site [posttranslational modification] 561229009291 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 561229009292 ATP binding site [chemical binding]; other site 561229009293 Mg2+ binding site [ion binding]; other site 561229009294 G-X-G motif; other site 561229009295 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 561229009296 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 561229009297 active site 561229009298 phosphorylation site [posttranslational modification] 561229009299 intermolecular recognition site; other site 561229009300 dimerization interface [polypeptide binding]; other site 561229009301 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 561229009302 DNA binding site [nucleotide binding] 561229009303 Predicted membrane protein [Function unknown]; Region: COG2510 561229009304 phosphoglucomutase; Validated; Region: PRK07564 561229009305 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 561229009306 active site 561229009307 substrate binding site [chemical binding]; other site 561229009308 metal binding site [ion binding]; metal-binding site 561229009309 replication initiation regulator SeqA; Provisional; Region: PRK11187 561229009310 acyl-CoA esterase; Provisional; Region: PRK10673 561229009311 PGAP1-like protein; Region: PGAP1; pfam07819 561229009312 LexA regulated protein; Provisional; Region: PRK11675 561229009313 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229009314 dimer interface [polypeptide binding]; other site 561229009315 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561229009316 putative CheW interface [polypeptide binding]; other site 561229009317 flavodoxin FldA; Validated; Region: PRK09267 561229009318 ferric uptake regulator; Provisional; Region: fur; PRK09462 561229009319 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 561229009320 metal binding site 2 [ion binding]; metal-binding site 561229009321 putative DNA binding helix; other site 561229009322 metal binding site 1 [ion binding]; metal-binding site 561229009323 dimer interface [polypeptide binding]; other site 561229009324 structural Zn2+ binding site [ion binding]; other site 561229009325 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 561229009326 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561229009327 active site 561229009328 HIGH motif; other site 561229009329 nucleotide binding site [chemical binding]; other site 561229009330 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 561229009331 KMSKS motif; other site 561229009332 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 561229009333 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561229009334 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 561229009335 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561229009336 active site turn [active] 561229009337 phosphorylation site [posttranslational modification] 561229009338 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 561229009339 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 561229009340 active site 561229009341 trimer interface [polypeptide binding]; other site 561229009342 allosteric site; other site 561229009343 active site lid [active] 561229009344 hexamer (dimer of trimers) interface [polypeptide binding]; other site 561229009345 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 561229009346 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 561229009347 active site 561229009348 dimer interface [polypeptide binding]; other site 561229009349 MarR family; Region: MarR; pfam01047 561229009350 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561229009351 ROK family; Region: ROK; pfam00480 561229009352 asparagine synthetase B; Provisional; Region: asnB; PRK09431 561229009353 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 561229009354 active site 561229009355 dimer interface [polypeptide binding]; other site 561229009356 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 561229009357 Ligand Binding Site [chemical binding]; other site 561229009358 Molecular Tunnel; other site 561229009359 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 561229009360 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 561229009361 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 561229009362 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 561229009363 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 561229009364 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 561229009365 FeS/SAM binding site; other site 561229009366 TRAM domain; Region: TRAM; pfam01938 561229009367 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 561229009368 PhoH-like protein; Region: PhoH; pfam02562 561229009369 metal-binding heat shock protein; Provisional; Region: PRK00016 561229009370 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 561229009371 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 561229009372 Transporter associated domain; Region: CorC_HlyC; smart01091 561229009373 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 561229009374 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 561229009375 putative active site [active] 561229009376 catalytic triad [active] 561229009377 putative dimer interface [polypeptide binding]; other site 561229009378 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 561229009379 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 561229009380 substrate binding pocket [chemical binding]; other site 561229009381 membrane-bound complex binding site; other site 561229009382 hinge residues; other site 561229009383 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229009384 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 561229009385 dimer interface [polypeptide binding]; other site 561229009386 conserved gate region; other site 561229009387 putative PBP binding loops; other site 561229009388 ABC-ATPase subunit interface; other site 561229009389 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229009390 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 561229009391 dimer interface [polypeptide binding]; other site 561229009392 conserved gate region; other site 561229009393 putative PBP binding loops; other site 561229009394 ABC-ATPase subunit interface; other site 561229009395 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229009396 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229009397 Walker A/P-loop; other site 561229009398 ATP binding site [chemical binding]; other site 561229009399 Q-loop/lid; other site 561229009400 ABC transporter signature motif; other site 561229009401 Walker B; other site 561229009402 D-loop; other site 561229009403 H-loop/switch region; other site 561229009404 hypothetical protein; Provisional; Region: PRK11032 561229009405 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 561229009406 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 561229009407 HIGH motif; other site 561229009408 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 561229009409 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561229009410 active site 561229009411 KMSKS motif; other site 561229009412 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 561229009413 tRNA binding surface [nucleotide binding]; other site 561229009414 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 561229009415 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 561229009416 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 561229009417 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 561229009418 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 561229009419 active site 561229009420 (T/H)XGH motif; other site 561229009421 ribosome-associated protein; Provisional; Region: PRK11538 561229009422 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 561229009423 penicillin-binding protein 2; Provisional; Region: PRK10795 561229009424 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 561229009425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 561229009426 cell wall shape-determining protein; Provisional; Region: PRK10794 561229009427 rare lipoprotein A; Provisional; Region: PRK10672 561229009428 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 561229009429 Sporulation related domain; Region: SPOR; pfam05036 561229009430 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 561229009431 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 561229009432 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 561229009433 hypothetical protein; Provisional; Region: PRK04998 561229009434 lipoate-protein ligase B; Provisional; Region: PRK14342 561229009435 lipoyl synthase; Provisional; Region: PRK05481 561229009436 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 561229009437 FeS/SAM binding site; other site 561229009438 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 561229009439 Predicted amidohydrolase [General function prediction only]; Region: COG0388 561229009440 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 561229009441 putative active site [active] 561229009442 catalytic triad [active] 561229009443 putative dimer interface [polypeptide binding]; other site 561229009444 chromosome condensation membrane protein; Provisional; Region: PRK14196 561229009445 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 561229009446 DNA-binding site [nucleotide binding]; DNA binding site 561229009447 RNA-binding motif; other site 561229009448 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 561229009449 ArsC family; Region: ArsC; pfam03960 561229009450 putative catalytic residues [active] 561229009451 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 561229009452 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 561229009453 metal binding site [ion binding]; metal-binding site 561229009454 dimer interface [polypeptide binding]; other site 561229009455 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 561229009456 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 561229009457 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 561229009458 putative hydrolase; Provisional; Region: PRK11460 561229009459 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 561229009460 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 561229009461 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 561229009462 Helicase; Region: Helicase_RecD; pfam05127 561229009463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229009464 Coenzyme A binding pocket [chemical binding]; other site 561229009465 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 561229009466 Predicted membrane protein [Function unknown]; Region: COG2707 561229009467 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 561229009468 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 561229009469 ATP binding site [chemical binding]; other site 561229009470 active site 561229009471 substrate binding site [chemical binding]; other site 561229009472 lipoprotein; Provisional; Region: PRK11679 561229009473 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 561229009474 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 561229009475 dihydrodipicolinate synthase; Region: dapA; TIGR00674 561229009476 dimer interface [polypeptide binding]; other site 561229009477 active site 561229009478 catalytic residue [active] 561229009479 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 561229009480 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 561229009481 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 561229009482 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 561229009483 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 561229009484 catalytic triad [active] 561229009485 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 561229009486 Peptidase family M48; Region: Peptidase_M48; pfam01435 561229009487 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 561229009488 ArsC family; Region: ArsC; pfam03960 561229009489 catalytic residues [active] 561229009490 DNA replication initiation factor; Provisional; Region: PRK08084 561229009491 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 561229009492 uracil transporter; Provisional; Region: PRK10720 561229009493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229009494 active site 561229009495 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 561229009496 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 561229009497 dimerization interface [polypeptide binding]; other site 561229009498 putative ATP binding site [chemical binding]; other site 561229009499 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 561229009500 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 561229009501 active site 561229009502 substrate binding site [chemical binding]; other site 561229009503 cosubstrate binding site; other site 561229009504 catalytic site [active] 561229009505 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 561229009506 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229009507 DNA binding site [nucleotide binding] 561229009508 domain linker motif; other site 561229009509 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 561229009510 dimerization interface (closed form) [polypeptide binding]; other site 561229009511 ligand binding site [chemical binding]; other site 561229009512 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 561229009513 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 561229009514 ligand binding site [chemical binding]; other site 561229009515 calcium binding site [ion binding]; other site 561229009516 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229009517 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 561229009518 Walker A/P-loop; other site 561229009519 ATP binding site [chemical binding]; other site 561229009520 Q-loop/lid; other site 561229009521 ABC transporter signature motif; other site 561229009522 Walker B; other site 561229009523 D-loop; other site 561229009524 H-loop/switch region; other site 561229009525 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229009526 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229009527 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229009528 TM-ABC transporter signature motif; other site 561229009529 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 561229009530 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229009531 substrate binding pocket [chemical binding]; other site 561229009532 membrane-bound complex binding site; other site 561229009533 hinge residues; other site 561229009534 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 561229009535 dimer interface [polypeptide binding]; other site 561229009536 conserved gate region; other site 561229009537 putative PBP binding loops; other site 561229009538 ABC-ATPase subunit interface; other site 561229009539 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 561229009540 Periplasmic binding protein TroA_f. 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_f; cd01139 561229009541 putative ligand binding residues [chemical binding]; other site 561229009542 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 561229009543 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 561229009544 N-terminal plug; other site 561229009545 ligand-binding site [chemical binding]; other site 561229009546 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 561229009547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229009548 Coenzyme A binding pocket [chemical binding]; other site 561229009549 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229009550 FtsX-like permease family; Region: FtsX; pfam02687 561229009551 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 561229009552 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561229009553 Walker A/P-loop; other site 561229009554 ATP binding site [chemical binding]; other site 561229009555 Q-loop/lid; other site 561229009556 ABC transporter signature motif; other site 561229009557 Walker B; other site 561229009558 D-loop; other site 561229009559 H-loop/switch region; other site 561229009560 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 561229009561 active site 561229009562 catalytic triad [active] 561229009563 oxyanion hole [active] 561229009564 switch loop; other site 561229009565 oxidoreductase; Provisional; Region: PRK08017 561229009566 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561229009567 NADP binding site [chemical binding]; other site 561229009568 active site 561229009569 steroid binding site; other site 561229009570 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 561229009571 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 561229009572 hypothetical protein; Provisional; Region: PRK03673 561229009573 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 561229009574 putative MPT binding site; other site 561229009575 Competence-damaged protein; Region: CinA; cl00666 561229009576 YfaZ precursor; Region: YfaZ; pfam07437 561229009577 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 561229009578 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 561229009579 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 561229009580 acyl-activating enzyme (AAE) consensus motif; other site 561229009581 putative AMP binding site [chemical binding]; other site 561229009582 putative active site [active] 561229009583 putative CoA binding site [chemical binding]; other site 561229009584 O-succinylbenzoate synthase; Provisional; Region: PRK05105 561229009585 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 561229009586 active site 561229009587 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 561229009588 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 561229009589 substrate binding site [chemical binding]; other site 561229009590 oxyanion hole (OAH) forming residues; other site 561229009591 trimer interface [polypeptide binding]; other site 561229009592 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 561229009593 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 561229009594 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 561229009595 dimer interface [polypeptide binding]; other site 561229009596 tetramer interface [polypeptide binding]; other site 561229009597 PYR/PP interface [polypeptide binding]; other site 561229009598 TPP binding site [chemical binding]; other site 561229009599 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 561229009600 TPP-binding site; other site 561229009601 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 561229009602 chorismate binding enzyme; Region: Chorismate_bind; cl10555 561229009603 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 561229009604 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 561229009605 dimer interface [polypeptide binding]; other site 561229009606 phosphorylation site [posttranslational modification] 561229009607 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 561229009608 ATP binding site [chemical binding]; other site 561229009609 G-X-G motif; other site 561229009610 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 561229009611 putative binding surface; other site 561229009612 active site 561229009613 transcriptional regulator RcsB; Provisional; Region: PRK10840 561229009614 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 561229009615 active site 561229009616 phosphorylation site [posttranslational modification] 561229009617 intermolecular recognition site; other site 561229009618 dimerization interface [polypeptide binding]; other site 561229009619 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 561229009620 DNA binding residues [nucleotide binding] 561229009621 dimerization interface [polypeptide binding]; other site 561229009622 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 561229009623 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 561229009624 dimer interface [polypeptide binding]; other site 561229009625 phosphorylation site [posttranslational modification] 561229009626 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 561229009627 ATP binding site [chemical binding]; other site 561229009628 Mg2+ binding site [ion binding]; other site 561229009629 G-X-G motif; other site 561229009630 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 561229009631 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 561229009632 active site 561229009633 phosphorylation site [posttranslational modification] 561229009634 intermolecular recognition site; other site 561229009635 dimerization interface [polypeptide binding]; other site 561229009636 DNA gyrase subunit A; Validated; Region: PRK05560 561229009637 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 561229009638 CAP-like domain; other site 561229009639 active site 561229009640 primary dimer interface [polypeptide binding]; other site 561229009641 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561229009642 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561229009643 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561229009644 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561229009645 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561229009646 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 561229009647 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 561229009648 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 561229009649 S-adenosylmethionine binding site [chemical binding]; other site 561229009650 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 561229009651 ATP cone domain; Region: ATP-cone; pfam03477 561229009652 Class I ribonucleotide reductase; Region: RNR_I; cd01679 561229009653 active site 561229009654 dimer interface [polypeptide binding]; other site 561229009655 catalytic residues [active] 561229009656 effector binding site; other site 561229009657 R2 peptide binding site; other site 561229009658 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 561229009659 dimer interface [polypeptide binding]; other site 561229009660 putative radical transfer pathway; other site 561229009661 diiron center [ion binding]; other site 561229009662 tyrosyl radical; other site 561229009663 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 561229009664 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229009665 catalytic loop [active] 561229009666 iron binding site [ion binding]; other site 561229009667 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 561229009668 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 561229009669 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 561229009670 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 561229009671 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 561229009672 DNA binding residues [nucleotide binding] 561229009673 dimer interface [polypeptide binding]; other site 561229009674 copper binding site [ion binding]; other site 561229009675 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 561229009676 metal-binding site [ion binding] 561229009677 copper exporting ATPase; Provisional; Region: copA; PRK10671 561229009678 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 561229009679 metal-binding site [ion binding] 561229009680 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 561229009681 metal-binding site [ion binding] 561229009682 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561229009683 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 561229009684 motif II; other site 561229009685 TraB family; Region: TraB; cl12050 561229009686 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 561229009687 putative deacylase active site [active] 561229009688 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 561229009689 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 561229009690 Cache domain; Region: Cache_2; pfam08269 561229009691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229009692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229009693 dimer interface [polypeptide binding]; other site 561229009694 putative CheW interface [polypeptide binding]; other site 561229009695 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 561229009696 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 561229009697 active site 561229009698 metal binding site [ion binding]; metal-binding site 561229009699 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 561229009700 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 561229009701 putative cation:proton antiport protein; Provisional; Region: PRK10669 561229009702 TrkA-N domain; Region: TrkA_N; pfam02254 561229009703 ferrochelatase; Reviewed; Region: hemH; PRK00035 561229009704 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 561229009705 C-terminal domain interface [polypeptide binding]; other site 561229009706 active site 561229009707 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 561229009708 active site 561229009709 N-terminal domain interface [polypeptide binding]; other site 561229009710 adenylate kinase; Reviewed; Region: adk; PRK00279 561229009711 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 561229009712 AMP-binding site [chemical binding]; other site 561229009713 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 561229009714 heat shock protein 90; Provisional; Region: PRK05218 561229009715 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 561229009716 ATP binding site [chemical binding]; other site 561229009717 Mg2+ binding site [ion binding]; other site 561229009718 G-X-G motif; other site 561229009719 recombination protein RecR; Reviewed; Region: recR; PRK00076 561229009720 RecR protein; Region: RecR; pfam02132 561229009721 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 561229009722 putative active site [active] 561229009723 putative metal-binding site [ion binding]; other site 561229009724 tetramer interface [polypeptide binding]; other site 561229009725 hypothetical protein; Validated; Region: PRK00153 561229009726 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14961 561229009727 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 561229009728 Walker A motif; other site 561229009729 ATP binding site [chemical binding]; other site 561229009730 Walker B motif; other site 561229009731 DNA polymerase III subunit delta'; Validated; Region: PRK08485 561229009732 arginine finger; other site 561229009733 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 561229009734 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 561229009735 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 561229009736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229009737 active site 561229009738 hypothetical protein; Provisional; Region: PRK10527 561229009739 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 561229009740 active site 561229009741 dinuclear metal binding site [ion binding]; other site 561229009742 dimerization interface [polypeptide binding]; other site 561229009743 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 561229009744 hypothetical protein; Provisional; Region: PRK11038 561229009745 hypothetical protein; Provisional; Region: PRK11281 561229009746 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 561229009747 Mechanosensitive ion channel; Region: MS_channel; pfam00924 561229009748 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 561229009749 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229009750 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 561229009751 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 561229009752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229009753 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229009754 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 561229009755 Protein export membrane protein; Region: SecD_SecF; cl14618 561229009756 Protein export membrane protein; Region: SecD_SecF; cl14618 561229009757 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 561229009758 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 561229009759 Hha toxicity attenuator; Provisional; Region: PRK10667 561229009760 gene expression modulator; Provisional; Region: PRK10945 561229009761 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 561229009762 DNA binding site [nucleotide binding] 561229009763 active site 561229009764 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; pfam09619 561229009765 acyl-CoA thioesterase II; Provisional; Region: PRK10526 561229009766 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 561229009767 active site 561229009768 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 561229009769 catalytic triad [active] 561229009770 dimer interface [polypeptide binding]; other site 561229009771 ammonium transporter; Provisional; Region: PRK10666 561229009772 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 561229009773 Nitrogen regulatory protein P-II; Region: P-II; smart00938 561229009774 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 561229009775 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561229009776 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 561229009777 Walker A/P-loop; other site 561229009778 ATP binding site [chemical binding]; other site 561229009779 Q-loop/lid; other site 561229009780 ABC transporter signature motif; other site 561229009781 Walker B; other site 561229009782 D-loop; other site 561229009783 H-loop/switch region; other site 561229009784 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 561229009785 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 561229009786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229009787 Walker A/P-loop; other site 561229009788 ATP binding site [chemical binding]; other site 561229009789 Q-loop/lid; other site 561229009790 ABC transporter signature motif; other site 561229009791 Walker B; other site 561229009792 D-loop; other site 561229009793 H-loop/switch region; other site 561229009794 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 561229009795 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 561229009796 putative DNA binding site [nucleotide binding]; other site 561229009797 putative Zn2+ binding site [ion binding]; other site 561229009798 AsnC family; Region: AsnC_trans_reg; pfam01037 561229009799 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561229009800 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 561229009801 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229009802 catalytic residue [active] 561229009803 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 561229009804 Ligand Binding Site [chemical binding]; other site 561229009805 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 561229009806 periplasmic folding chaperone; Provisional; Region: PRK10788 561229009807 SurA N-terminal domain; Region: SurA_N_3; cl07813 561229009808 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 561229009809 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 561229009810 IHF dimer interface [polypeptide binding]; other site 561229009811 IHF - DNA interface [nucleotide binding]; other site 561229009812 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 561229009813 Found in ATP-dependent protease La (LON); Region: LON; smart00464 561229009814 Found in ATP-dependent protease La (LON); Region: LON; smart00464 561229009815 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 561229009816 Walker A motif; other site 561229009817 ATP binding site [chemical binding]; other site 561229009818 Walker B motif; other site 561229009819 arginine finger; other site 561229009820 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 561229009821 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 561229009822 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 561229009823 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 561229009824 Walker A motif; other site 561229009825 ATP binding site [chemical binding]; other site 561229009826 Walker B motif; other site 561229009827 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 561229009828 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 561229009829 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 561229009830 oligomer interface [polypeptide binding]; other site 561229009831 active site residues [active] 561229009832 trigger factor; Provisional; Region: tig; PRK01490 561229009833 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 561229009834 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 561229009835 BolA-like protein; Region: BolA; cl00386 561229009836 hypothetical protein; Provisional; Region: PRK11627 561229009837 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 561229009838 muropeptide transporter; Reviewed; Region: ampG; PRK11902 561229009839 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 561229009840 putative substrate translocation pore; other site 561229009841 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 561229009842 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 561229009843 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 561229009844 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 561229009845 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 561229009846 D-pathway; other site 561229009847 Putative ubiquinol binding site [chemical binding]; other site 561229009848 Low-spin heme (heme b) binding site [chemical binding]; other site 561229009849 Putative water exit pathway; other site 561229009850 Binuclear center (heme o3/CuB) [ion binding]; other site 561229009851 K-pathway; other site 561229009852 Putative proton exit pathway; other site 561229009853 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 561229009854 Subunit I/III interface [polypeptide binding]; other site 561229009855 Subunit III/IV interface [polypeptide binding]; other site 561229009856 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 561229009857 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 561229009858 UbiA prenyltransferase family; Region: UbiA; pfam01040 561229009859 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 561229009860 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229009861 putative substrate translocation pore; other site 561229009862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 561229009863 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 561229009864 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 561229009865 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 561229009866 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 561229009867 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 561229009868 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 561229009869 conserved cys residue [active] 561229009870 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 561229009871 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 561229009872 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 561229009873 Ligand Binding Site [chemical binding]; other site 561229009874 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 561229009875 active site residue [active] 561229009876 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 561229009877 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 561229009878 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 561229009879 substrate binding pocket [chemical binding]; other site 561229009880 chain length determination region; other site 561229009881 substrate-Mg2+ binding site; other site 561229009882 catalytic residues [active] 561229009883 aspartate-rich region 1; other site 561229009884 active site lid residues [active] 561229009885 aspartate-rich region 2; other site 561229009886 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 561229009887 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 561229009888 TPP-binding site; other site 561229009889 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 561229009890 PYR/PP interface [polypeptide binding]; other site 561229009891 dimer interface [polypeptide binding]; other site 561229009892 TPP binding site [chemical binding]; other site 561229009893 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561229009894 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 561229009895 tetramer interfaces [polypeptide binding]; other site 561229009896 binuclear metal-binding site [ion binding]; other site 561229009897 thiamine monophosphate kinase; Provisional; Region: PRK05731 561229009898 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 561229009899 ATP binding site [chemical binding]; other site 561229009900 dimerization interface [polypeptide binding]; other site 561229009901 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 561229009902 putative RNA binding site [nucleotide binding]; other site 561229009903 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 561229009904 homopentamer interface [polypeptide binding]; other site 561229009905 active site 561229009906 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 561229009907 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 561229009908 catalytic motif [active] 561229009909 Zn binding site [ion binding]; other site 561229009910 RibD C-terminal domain; Region: RibD_C; cl17279 561229009911 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 561229009912 ATP cone domain; Region: ATP-cone; pfam03477 561229009913 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 561229009914 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 561229009915 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561229009916 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 561229009917 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 561229009918 Soluble P-type ATPase [General function prediction only]; Region: COG4087 561229009919 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 561229009920 hypothetical protein; Provisional; Region: PRK11530 561229009921 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 561229009922 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 561229009923 Protein export membrane protein; Region: SecD_SecF; pfam02355 561229009924 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 561229009925 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 561229009926 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 561229009927 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 561229009928 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 561229009929 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 561229009930 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 561229009931 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 561229009932 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 561229009933 Protein of unknown function, DUF479; Region: DUF479; cl01203 561229009934 peroxidase; Provisional; Region: PRK15000 561229009935 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 561229009936 dimer interface [polypeptide binding]; other site 561229009937 decamer (pentamer of dimers) interface [polypeptide binding]; other site 561229009938 catalytic triad [active] 561229009939 peroxidatic and resolving cysteines [active] 561229009940 putative proline-specific permease; Provisional; Region: proY; PRK10580 561229009941 Spore germination protein; Region: Spore_permease; cl17796 561229009942 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 561229009943 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 561229009944 substrate binding site [chemical binding]; other site 561229009945 THF binding site; other site 561229009946 zinc-binding site [ion binding]; other site 561229009947 PBP superfamily domain; Region: PBP_like_2; cl17296 561229009948 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 561229009949 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 561229009950 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 561229009951 putative active site [active] 561229009952 heme pocket [chemical binding]; other site 561229009953 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 561229009954 dimer interface [polypeptide binding]; other site 561229009955 phosphorylation site [posttranslational modification] 561229009956 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 561229009957 ATP binding site [chemical binding]; other site 561229009958 Mg2+ binding site [ion binding]; other site 561229009959 G-X-G motif; other site 561229009960 transcriptional regulator PhoB; Provisional; Region: PRK10161 561229009961 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 561229009962 active site 561229009963 phosphorylation site [posttranslational modification] 561229009964 intermolecular recognition site; other site 561229009965 dimerization interface [polypeptide binding]; other site 561229009966 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 561229009967 DNA binding site [nucleotide binding] 561229009968 exonuclease subunit SbcD; Provisional; Region: PRK10966 561229009969 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 561229009970 active site 561229009971 metal binding site [ion binding]; metal-binding site 561229009972 DNA binding site [nucleotide binding] 561229009973 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 561229009974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229009975 AAA domain; Region: AAA_23; pfam13476 561229009976 Walker A/P-loop; other site 561229009977 ATP binding site [chemical binding]; other site 561229009978 Q-loop/lid; other site 561229009979 exonuclease subunit SbcC; Provisional; Region: PRK10246 561229009980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229009981 ABC transporter signature motif; other site 561229009982 Walker B; other site 561229009983 D-loop; other site 561229009984 H-loop/switch region; other site 561229009985 fructokinase; Reviewed; Region: PRK09557 561229009986 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229009987 nucleotide binding site [chemical binding]; other site 561229009988 recombination associated protein; Reviewed; Region: rdgC; PRK00321 561229009989 Cache domain; Region: Cache_1; pfam02743 561229009990 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 561229009991 dimerization interface [polypeptide binding]; other site 561229009992 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229009993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229009994 dimer interface [polypeptide binding]; other site 561229009995 putative CheW interface [polypeptide binding]; other site 561229009996 hypothetical protein; Provisional; Region: PRK10579 561229009997 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 561229009998 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 561229009999 ADP binding site [chemical binding]; other site 561229010000 magnesium binding site [ion binding]; other site 561229010001 putative shikimate binding site; other site 561229010002 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 561229010003 active site 561229010004 homodimer interface [polypeptide binding]; other site 561229010005 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 561229010006 substrate binding site [chemical binding]; other site 561229010007 THF binding site; other site 561229010008 zinc-binding site [ion binding]; other site 561229010009 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 561229010010 Esterase/lipase [General function prediction only]; Region: COG1647 561229010011 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 561229010012 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 561229010013 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229010014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229010015 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 561229010016 dimerization interface [polypeptide binding]; other site 561229010017 hypothetical protein; Provisional; Region: PRK07079 561229010018 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 561229010019 metal binding site [ion binding]; metal-binding site 561229010020 putative dimer interface [polypeptide binding]; other site 561229010021 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 561229010022 metabolite-proton symporter; Region: 2A0106; TIGR00883 561229010023 putative substrate translocation pore; other site 561229010024 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229010025 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 561229010026 putative substrate translocation pore; other site 561229010027 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 561229010028 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561229010029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229010030 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229010031 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 561229010032 dimerization interface [polypeptide binding]; other site 561229010033 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 561229010034 FOG: CBS domain [General function prediction only]; Region: COG0517 561229010035 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 561229010036 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 561229010037 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229010038 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229010039 metal binding site [ion binding]; metal-binding site 561229010040 active site 561229010041 I-site; other site 561229010042 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 561229010043 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 561229010044 PhnA protein; Region: PhnA; pfam03831 561229010045 enterobactin exporter EntS; Provisional; Region: PRK10489 561229010046 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 561229010047 putative substrate translocation pore; other site 561229010048 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 561229010049 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 561229010050 substrate binding pocket [chemical binding]; other site 561229010051 active site 561229010052 iron coordination sites [ion binding]; other site 561229010053 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 561229010054 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 561229010055 motif II; other site 561229010056 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 561229010057 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 561229010058 substrate binding site [chemical binding]; other site 561229010059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 561229010060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229010061 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 561229010062 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 561229010063 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 561229010064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229010065 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229010066 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 561229010067 classical (c) SDRs; Region: SDR_c; cd05233 561229010068 NAD(P) binding site [chemical binding]; other site 561229010069 active site 561229010070 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229010071 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 561229010072 dimerization interface [polypeptide binding]; other site 561229010073 putative Zn2+ binding site [ion binding]; other site 561229010074 putative DNA binding site [nucleotide binding]; other site 561229010075 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 561229010076 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 561229010077 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 561229010078 putative FMN binding site [chemical binding]; other site 561229010079 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 561229010080 MutS domain I; Region: MutS_I; pfam01624 561229010081 MutS domain II; Region: MutS_II; pfam05188 561229010082 MutS domain III; Region: MutS_III; pfam05192 561229010083 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 561229010084 Walker A/P-loop; other site 561229010085 ATP binding site [chemical binding]; other site 561229010086 Q-loop/lid; other site 561229010087 ABC transporter signature motif; other site 561229010088 Walker B; other site 561229010089 D-loop; other site 561229010090 H-loop/switch region; other site 561229010091 NlpE N-terminal domain; Region: NlpE; pfam04170 561229010092 YaeQ protein; Region: YaeQ; pfam07152 561229010093 hypothetical protein; Provisional; Region: PRK04964 561229010094 Rho-binding antiterminator; Provisional; Region: PRK11625 561229010095 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 561229010096 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 561229010097 Ligand Binding Site [chemical binding]; other site 561229010098 TilS substrate binding domain; Region: TilS; pfam09179 561229010099 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 561229010100 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 561229010101 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561229010102 putative metal binding site [ion binding]; other site 561229010103 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 561229010104 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 561229010105 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 561229010106 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 561229010107 putative active site [active] 561229010108 putative PHP Thumb interface [polypeptide binding]; other site 561229010109 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 561229010110 generic binding surface II; other site 561229010111 generic binding surface I; other site 561229010112 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 561229010113 RNA/DNA hybrid binding site [nucleotide binding]; other site 561229010114 active site 561229010115 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 561229010116 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 561229010117 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 561229010118 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 561229010119 active site 561229010120 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 561229010121 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 561229010122 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 561229010123 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 561229010124 trimer interface [polypeptide binding]; other site 561229010125 active site 561229010126 UDP-GlcNAc binding site [chemical binding]; other site 561229010127 lipid binding site [chemical binding]; lipid-binding site 561229010128 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 561229010129 periplasmic chaperone; Provisional; Region: PRK10780 561229010130 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 561229010131 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561229010132 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561229010133 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561229010134 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 561229010135 Surface antigen; Region: Bac_surface_Ag; pfam01103 561229010136 zinc metallopeptidase RseP; Provisional; Region: PRK10779 561229010137 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 561229010138 active site 561229010139 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 561229010140 protein binding site [polypeptide binding]; other site 561229010141 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 561229010142 protein binding site [polypeptide binding]; other site 561229010143 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 561229010144 putative substrate binding region [chemical binding]; other site 561229010145 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 561229010146 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 561229010147 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 561229010148 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 561229010149 catalytic residue [active] 561229010150 putative FPP diphosphate binding site; other site 561229010151 putative FPP binding hydrophobic cleft; other site 561229010152 dimer interface [polypeptide binding]; other site 561229010153 putative IPP diphosphate binding site; other site 561229010154 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 561229010155 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 561229010156 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 561229010157 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 561229010158 ribosome recycling factor; Reviewed; Region: frr; PRK00083 561229010159 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 561229010160 hinge region; other site 561229010161 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 561229010162 putative nucleotide binding site [chemical binding]; other site 561229010163 uridine monophosphate binding site [chemical binding]; other site 561229010164 homohexameric interface [polypeptide binding]; other site 561229010165 elongation factor Ts; Provisional; Region: tsf; PRK09377 561229010166 UBA/TS-N domain; Region: UBA; pfam00627 561229010167 Elongation factor TS; Region: EF_TS; pfam00889 561229010168 Elongation factor TS; Region: EF_TS; pfam00889 561229010169 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 561229010170 rRNA interaction site [nucleotide binding]; other site 561229010171 S8 interaction site; other site 561229010172 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 561229010173 active site 561229010174 PII uridylyl-transferase; Provisional; Region: PRK05007 561229010175 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 561229010176 metal binding triad; other site 561229010177 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 561229010178 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561229010179 Zn2+ binding site [ion binding]; other site 561229010180 Mg2+ binding site [ion binding]; other site 561229010181 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 561229010182 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 561229010183 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 561229010184 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 561229010185 trimer interface [polypeptide binding]; other site 561229010186 active site 561229010187 substrate binding site [chemical binding]; other site 561229010188 CoA binding site [chemical binding]; other site 561229010189 hypothetical protein; Provisional; Region: PRK13677 561229010190 flavodoxin; Provisional; Region: PRK08105 561229010191 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 561229010192 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 561229010193 probable active site [active] 561229010194 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 561229010195 SecY interacting protein Syd; Provisional; Region: PRK04968 561229010196 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 561229010197 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 561229010198 flap endonuclease-like protein; Provisional; Region: PRK09482 561229010199 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 561229010200 active site 561229010201 metal binding site 1 [ion binding]; metal-binding site 561229010202 putative 5' ssDNA interaction site; other site 561229010203 metal binding site 3; metal-binding site 561229010204 metal binding site 2 [ion binding]; metal-binding site 561229010205 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 561229010206 putative DNA binding site [nucleotide binding]; other site 561229010207 putative metal binding site [ion binding]; other site 561229010208 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 561229010209 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 561229010210 hypothetical protein; Provisional; Region: PRK10873 561229010211 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 561229010212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229010213 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 561229010214 dimerization interface [polypeptide binding]; other site 561229010215 substrate binding pocket [chemical binding]; other site 561229010216 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 561229010217 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 561229010218 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 561229010219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229010220 catalytic residue [active] 561229010221 Fe-S metabolism associated domain; Region: SufE; cl00951 561229010222 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 561229010223 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 561229010224 putative ATP binding site [chemical binding]; other site 561229010225 putative substrate interface [chemical binding]; other site 561229010226 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010227 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229010228 Coenzyme A binding pocket [chemical binding]; other site 561229010229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561229010230 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 561229010231 dimerization interface [polypeptide binding]; other site 561229010232 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 561229010233 NAD binding site [chemical binding]; other site 561229010234 ligand binding site [chemical binding]; other site 561229010235 catalytic site [active] 561229010236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 561229010237 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010238 Coenzyme A binding pocket [chemical binding]; other site 561229010239 putative acetyltransferase YhhY; Provisional; Region: PRK10140 561229010240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010241 Coenzyme A binding pocket [chemical binding]; other site 561229010242 murein transglycosylase A; Provisional; Region: mltA; PRK11162 561229010243 MltA specific insert domain; Region: MltA; smart00925 561229010244 3D domain; Region: 3D; pfam06725 561229010245 AMIN domain; Region: AMIN; pfam11741 561229010246 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 561229010247 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 561229010248 active site 561229010249 metal binding site [ion binding]; metal-binding site 561229010250 N-acetylglutamate synthase; Validated; Region: PRK05279 561229010251 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 561229010252 putative feedback inhibition sensing region; other site 561229010253 putative nucleotide binding site [chemical binding]; other site 561229010254 putative substrate binding site [chemical binding]; other site 561229010255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010256 Coenzyme A binding pocket [chemical binding]; other site 561229010257 protease3; Provisional; Region: PRK15101 561229010258 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561229010259 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561229010260 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561229010261 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 561229010262 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 561229010263 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 561229010264 hypothetical protein; Provisional; Region: PRK10557 561229010265 hypothetical protein; Provisional; Region: PRK10506 561229010266 thymidylate synthase; Reviewed; Region: thyA; PRK01827 561229010267 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 561229010268 dimerization interface [polypeptide binding]; other site 561229010269 active site 561229010270 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 561229010271 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 561229010272 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561229010273 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 561229010274 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561229010275 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561229010276 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 561229010277 putative active site [active] 561229010278 Ap4A binding site [chemical binding]; other site 561229010279 nudix motif; other site 561229010280 putative metal binding site [ion binding]; other site 561229010281 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 561229010282 putative DNA-binding cleft [nucleotide binding]; other site 561229010283 putative DNA clevage site; other site 561229010284 molecular lever; other site 561229010285 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 561229010286 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 561229010287 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 561229010288 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229010289 active site 561229010290 catalytic tetrad [active] 561229010291 hypothetical protein; Provisional; Region: PRK10626 561229010292 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 561229010293 hypothetical protein; Provisional; Region: PRK11702 561229010294 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 561229010295 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 561229010296 S-adenosylmethionine binding site [chemical binding]; other site 561229010297 adenine DNA glycosylase; Provisional; Region: PRK10880 561229010298 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561229010299 minor groove reading motif; other site 561229010300 helix-hairpin-helix signature motif; other site 561229010301 substrate binding pocket [chemical binding]; other site 561229010302 active site 561229010303 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 561229010304 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 561229010305 DNA binding and oxoG recognition site [nucleotide binding] 561229010306 oxidative damage protection protein; Provisional; Region: PRK05408 561229010307 murein transglycosylase C; Provisional; Region: mltC; PRK11671 561229010308 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 561229010309 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 561229010310 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229010311 catalytic residue [active] 561229010312 L-asparagine permease; Provisional; Region: PRK15049 561229010313 ornithine decarboxylase; Provisional; Region: PRK13578 561229010314 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 561229010315 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 561229010316 homodimer interface [polypeptide binding]; other site 561229010317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229010318 catalytic residue [active] 561229010319 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 561229010320 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 561229010321 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 561229010322 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229010323 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 561229010324 Predicted transcriptional regulator [Transcription]; Region: COG2378 561229010325 HTH domain; Region: HTH_11; pfam08279 561229010326 WYL domain; Region: WYL; pfam13280 561229010327 SnoaL-like domain; Region: SnoaL_2; pfam12680 561229010328 AAA domain; Region: AAA_17; pfam13207 561229010329 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229010330 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561229010331 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 561229010332 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 561229010333 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561229010334 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229010335 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229010336 HAMP domain; Region: HAMP; pfam00672 561229010337 dimerization interface [polypeptide binding]; other site 561229010338 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 561229010339 dimer interface [polypeptide binding]; other site 561229010340 phosphorylation site [posttranslational modification] 561229010341 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 561229010342 ATP binding site [chemical binding]; other site 561229010343 Mg2+ binding site [ion binding]; other site 561229010344 G-X-G motif; other site 561229010345 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561229010346 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 561229010347 active site 561229010348 phosphorylation site [posttranslational modification] 561229010349 intermolecular recognition site; other site 561229010350 dimerization interface [polypeptide binding]; other site 561229010351 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 561229010352 DNA binding site [nucleotide binding] 561229010353 MltA-interacting protein MipA; Region: MipA; cl01504 561229010354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229010355 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 561229010356 NAD(P) binding site [chemical binding]; other site 561229010357 active site 561229010358 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 561229010359 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 561229010360 molybdopterin cofactor binding site [chemical binding]; other site 561229010361 substrate binding site [chemical binding]; other site 561229010362 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 561229010363 molybdopterin cofactor binding site; other site 561229010364 hypothetical protein; Provisional; Region: PRK05208 561229010365 N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_N; cd10320 561229010366 active site 561229010367 catalytic site [active] 561229010368 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 561229010369 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 561229010370 Ca binding site [ion binding]; other site 561229010371 substrate binding site [chemical binding]; other site 561229010372 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 561229010373 classical (c) SDRs; Region: SDR_c; cd05233 561229010374 NAD(P) binding site [chemical binding]; other site 561229010375 active site 561229010376 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229010377 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 561229010378 non-specific DNA binding site [nucleotide binding]; other site 561229010379 salt bridge; other site 561229010380 sequence-specific DNA binding site [nucleotide binding]; other site 561229010381 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 561229010382 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 561229010383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 561229010384 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 561229010385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229010386 transcriptional activator TtdR; Provisional; Region: PRK09801 561229010387 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 561229010388 putative effector binding pocket; other site 561229010389 putative dimerization interface [polypeptide binding]; other site 561229010390 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 561229010391 tartrate dehydrogenase; Region: TTC; TIGR02089 561229010392 drug efflux system protein MdtG; Provisional; Region: PRK09874 561229010393 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 561229010394 putative substrate translocation pore; other site 561229010395 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561229010396 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 561229010397 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 561229010398 dimer interface [polypeptide binding]; other site 561229010399 conserved gate region; other site 561229010400 putative PBP binding loops; other site 561229010401 ABC-ATPase subunit interface; other site 561229010402 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229010403 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 561229010404 dimer interface [polypeptide binding]; other site 561229010405 ABC-ATPase subunit interface; other site 561229010406 putative PBP binding loops; other site 561229010407 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561229010408 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561229010409 Walker A/P-loop; other site 561229010410 ATP binding site [chemical binding]; other site 561229010411 Q-loop/lid; other site 561229010412 ABC transporter signature motif; other site 561229010413 Walker B; other site 561229010414 D-loop; other site 561229010415 H-loop/switch region; other site 561229010416 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 561229010417 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229010418 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229010419 DNA binding site [nucleotide binding] 561229010420 domain linker motif; other site 561229010421 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 561229010422 putative dimerization interface [polypeptide binding]; other site 561229010423 putative ligand binding site [chemical binding]; other site 561229010424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229010425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229010426 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 561229010427 dimerization interface [polypeptide binding]; other site 561229010428 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 561229010429 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 561229010430 substrate binding pocket [chemical binding]; other site 561229010431 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229010432 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 561229010433 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 561229010434 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 561229010435 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 561229010436 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 561229010437 putative transporter; Provisional; Region: PRK10504 561229010438 putative substrate translocation pore; other site 561229010439 FMN-binding domain; Region: FMN_bind; pfam04205 561229010440 hypothetical protein; Validated; Region: PRK07121 561229010441 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 561229010442 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 561229010443 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229010444 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229010445 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229010446 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 561229010447 endonuclease III; Region: ENDO3c; smart00478 561229010448 minor groove reading motif; other site 561229010449 helix-hairpin-helix signature motif; other site 561229010450 substrate binding pocket [chemical binding]; other site 561229010451 active site 561229010452 Predicted membrane protein [Function unknown]; Region: COG4125 561229010453 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 561229010454 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 561229010455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229010456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229010457 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 561229010458 dimerization interface [polypeptide binding]; other site 561229010459 fumarate hydratase; Provisional; Region: PRK15389 561229010460 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 561229010461 Fumarase C-terminus; Region: Fumerase_C; pfam05683 561229010462 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 561229010463 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 561229010464 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 561229010465 Walker A motif; other site 561229010466 ATP binding site [chemical binding]; other site 561229010467 Walker B motif; other site 561229010468 arginine finger; other site 561229010469 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 561229010470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 561229010471 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 561229010472 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 561229010473 iron binding site [ion binding]; other site 561229010474 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 561229010475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229010476 tellurite resistance protein TehB; Provisional; Region: PRK12335 561229010477 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 561229010478 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 561229010479 S-adenosylmethionine binding site [chemical binding]; other site 561229010480 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 561229010481 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 561229010482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 561229010483 putative transporter; Provisional; Region: PRK11021 561229010484 cell division protein ZipA; Provisional; Region: PRK03427 561229010485 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 561229010486 FtsZ protein binding site [polypeptide binding]; other site 561229010487 putative sulfate transport protein CysZ; Validated; Region: PRK04949 561229010488 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 561229010489 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 561229010490 dimer interface [polypeptide binding]; other site 561229010491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229010492 catalytic residue [active] 561229010493 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 561229010494 dimerization domain swap beta strand [polypeptide binding]; other site 561229010495 regulatory protein interface [polypeptide binding]; other site 561229010496 active site 561229010497 regulatory phosphorylation site [posttranslational modification]; other site 561229010498 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 561229010499 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 561229010500 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 561229010501 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 561229010502 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 561229010503 HPr interaction site; other site 561229010504 glycerol kinase (GK) interaction site [polypeptide binding]; other site 561229010505 active site 561229010506 phosphorylation site [posttranslational modification] 561229010507 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229010508 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561229010509 enoyl-CoA hydratase; Provisional; Region: PRK06563 561229010510 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 561229010511 substrate binding site [chemical binding]; other site 561229010512 oxyanion hole (OAH) forming residues; other site 561229010513 trimer interface [polypeptide binding]; other site 561229010514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 561229010515 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 561229010516 dimerization interface [polypeptide binding]; other site 561229010517 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 561229010518 dimer interface [polypeptide binding]; other site 561229010519 phosphorylation site [posttranslational modification] 561229010520 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 561229010521 ATP binding site [chemical binding]; other site 561229010522 Mg2+ binding site [ion binding]; other site 561229010523 G-X-G motif; other site 561229010524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 561229010525 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 561229010526 active site 561229010527 phosphorylation site [posttranslational modification] 561229010528 intermolecular recognition site; other site 561229010529 dimerization interface [polypeptide binding]; other site 561229010530 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 561229010531 DNA binding site [nucleotide binding] 561229010532 cysteine synthase B; Region: cysM; TIGR01138 561229010533 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 561229010534 dimer interface [polypeptide binding]; other site 561229010535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229010536 catalytic residue [active] 561229010537 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 561229010538 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 561229010539 Na binding site [ion binding]; other site 561229010540 PAS fold; Region: PAS_4; pfam08448 561229010541 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 561229010542 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 561229010543 DNA binding residues [nucleotide binding] 561229010544 dimerization interface [polypeptide binding]; other site 561229010545 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010546 Coenzyme A binding pocket [chemical binding]; other site 561229010547 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 561229010548 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 561229010549 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 561229010550 active site 561229010551 TDP-binding site; other site 561229010552 acceptor substrate-binding pocket; other site 561229010553 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 561229010554 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 561229010555 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 561229010556 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 561229010557 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 561229010558 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561229010559 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561229010560 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561229010561 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561229010562 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561229010563 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 561229010564 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 561229010565 putative acetyltransferase; Provisional; Region: PRK03624 561229010566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010567 Coenzyme A binding pocket [chemical binding]; other site 561229010568 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 561229010569 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 561229010570 hypothetical protein; Validated; Region: PRK00124 561229010571 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 561229010572 Malic enzyme, N-terminal domain; Region: malic; pfam00390 561229010573 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 561229010574 putative NAD(P) binding site [chemical binding]; other site 561229010575 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 561229010576 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 561229010577 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 561229010578 dimer interface [polypeptide binding]; other site 561229010579 ADP-ribose binding site [chemical binding]; other site 561229010580 active site 561229010581 nudix motif; other site 561229010582 metal binding site [ion binding]; metal-binding site 561229010583 manganese transport protein MntH; Reviewed; Region: PRK00701 561229010584 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 561229010585 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 561229010586 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 561229010587 dimer interface [polypeptide binding]; other site 561229010588 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 561229010589 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 561229010590 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 561229010591 recombination and repair protein; Provisional; Region: PRK10869 561229010592 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 561229010593 Walker A/P-loop; other site 561229010594 ATP binding site [chemical binding]; other site 561229010595 Q-loop/lid; other site 561229010596 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 561229010597 ABC transporter signature motif; other site 561229010598 Walker B; other site 561229010599 D-loop; other site 561229010600 H-loop/switch region; other site 561229010601 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 561229010602 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 561229010603 hypothetical protein; Validated; Region: PRK01777 561229010604 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 561229010605 putative coenzyme Q binding site [chemical binding]; other site 561229010606 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 561229010607 SmpB-tmRNA interface; other site 561229010608 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229010609 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 561229010610 Pectate lyase; Region: Pec_lyase_C; cl01593 561229010611 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 561229010612 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 561229010613 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 561229010614 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 561229010615 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 561229010616 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 561229010617 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 561229010618 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 561229010619 type II secretion system protein F; Region: GspF; TIGR02120 561229010620 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229010621 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 561229010622 type II secretion system protein E; Region: type_II_gspE; TIGR02533 561229010623 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 561229010624 Walker A motif; other site 561229010625 ATP binding site [chemical binding]; other site 561229010626 Walker B motif; other site 561229010627 type II secretion system protein D; Region: type_II_gspD; TIGR02517 561229010628 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229010629 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 561229010630 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 561229010631 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 561229010632 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 561229010633 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 561229010634 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 561229010635 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 561229010636 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229010637 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561229010638 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229010639 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229010640 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 561229010641 short chain dehydrogenase; Provisional; Region: PRK06179 561229010642 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561229010643 NADP binding site [chemical binding]; other site 561229010644 active site 561229010645 steroid binding site; other site 561229010646 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 561229010647 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 561229010648 dimer interface [polypeptide binding]; other site 561229010649 active site 561229010650 short chain dehydrogenase; Provisional; Region: PRK08263 561229010651 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 561229010652 NADP binding site [chemical binding]; other site 561229010653 active site 561229010654 steroid binding site; other site 561229010655 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229010656 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 561229010657 dimerization interface [polypeptide binding]; other site 561229010658 putative DNA binding site [nucleotide binding]; other site 561229010659 putative Zn2+ binding site [ion binding]; other site 561229010660 DoxX-like family; Region: DoxX_2; pfam13564 561229010661 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 561229010662 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561229010663 NAD binding site [chemical binding]; other site 561229010664 substrate binding site [chemical binding]; other site 561229010665 putative active site [active] 561229010666 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 561229010667 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 561229010668 substrate binding pocket [chemical binding]; other site 561229010669 membrane-bound complex binding site; other site 561229010670 hinge residues; other site 561229010671 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 561229010672 Transglycosylase SLT domain; Region: SLT_2; pfam13406 561229010673 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 561229010674 N-acetyl-D-glucosamine binding site [chemical binding]; other site 561229010675 catalytic residue [active] 561229010676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229010677 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229010678 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229010679 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 561229010680 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 561229010681 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 561229010682 Metal-binding active site; metal-binding site 561229010683 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561229010684 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 561229010685 substrate binding site [chemical binding]; other site 561229010686 ATP binding site [chemical binding]; other site 561229010687 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 561229010688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 561229010689 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561229010690 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229010691 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561229010692 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229010693 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229010694 TM-ABC transporter signature motif; other site 561229010695 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561229010696 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229010697 Walker A/P-loop; other site 561229010698 ATP binding site [chemical binding]; other site 561229010699 Q-loop/lid; other site 561229010700 ABC transporter signature motif; other site 561229010701 Walker B; other site 561229010702 D-loop; other site 561229010703 H-loop/switch region; other site 561229010704 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229010705 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 561229010706 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 561229010707 ligand binding site [chemical binding]; other site 561229010708 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 561229010709 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 561229010710 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 561229010711 Predicted ATPase [General function prediction only]; Region: COG3910 561229010712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229010713 Walker A/P-loop; other site 561229010714 ATP binding site [chemical binding]; other site 561229010715 Q-loop/lid; other site 561229010716 ABC transporter signature motif; other site 561229010717 Walker B; other site 561229010718 D-loop; other site 561229010719 H-loop/switch region; other site 561229010720 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 561229010721 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561229010722 PYR/PP interface [polypeptide binding]; other site 561229010723 dimer interface [polypeptide binding]; other site 561229010724 TPP binding site [chemical binding]; other site 561229010725 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561229010726 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 561229010727 TPP-binding site; other site 561229010728 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 561229010729 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 561229010730 tetrameric interface [polypeptide binding]; other site 561229010731 NAD binding site [chemical binding]; other site 561229010732 catalytic residues [active] 561229010733 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 561229010734 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 561229010735 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 561229010736 putative active site [active] 561229010737 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 561229010738 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 561229010739 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 561229010740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 561229010741 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 561229010742 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 561229010743 active site 561229010744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229010745 Coenzyme A binding pocket [chemical binding]; other site 561229010746 DinI-like family; Region: DinI; cl11630 561229010747 putative symporter YagG; Provisional; Region: PRK09669 561229010748 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 561229010749 putative substrate translocation pore; other site 561229010750 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 561229010751 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 561229010752 active site 561229010753 lipoprotein; Reviewed; Region: PRK02939 561229010754 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561229010755 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561229010756 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 561229010757 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 561229010758 dimer interface [polypeptide binding]; other site 561229010759 PYR/PP interface [polypeptide binding]; other site 561229010760 TPP binding site [chemical binding]; other site 561229010761 substrate binding site [chemical binding]; other site 561229010762 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 561229010763 Domain of unknown function; Region: EKR; pfam10371 561229010764 4Fe-4S binding domain; Region: Fer4_6; pfam12837 561229010765 4Fe-4S binding domain; Region: Fer4; pfam00037 561229010766 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 561229010767 TPP-binding site [chemical binding]; other site 561229010768 dimer interface [polypeptide binding]; other site 561229010769 L,D-transpeptidase; Provisional; Region: PRK10260 561229010770 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 561229010771 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561229010772 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 561229010773 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 561229010774 MarR family; Region: MarR_2; pfam12802 561229010775 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 561229010776 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229010777 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229010778 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 561229010779 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 561229010780 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 561229010781 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561229010782 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561229010783 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 561229010784 non-specific DNA binding site [nucleotide binding]; other site 561229010785 salt bridge; other site 561229010786 sequence-specific DNA binding site [nucleotide binding]; other site 561229010787 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 561229010788 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 561229010789 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 561229010790 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229010791 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229010792 Walker A/P-loop; other site 561229010793 ATP binding site [chemical binding]; other site 561229010794 Q-loop/lid; other site 561229010795 ABC transporter signature motif; other site 561229010796 Walker B; other site 561229010797 D-loop; other site 561229010798 H-loop/switch region; other site 561229010799 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229010800 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229010801 Walker A/P-loop; other site 561229010802 ATP binding site [chemical binding]; other site 561229010803 Q-loop/lid; other site 561229010804 ABC transporter signature motif; other site 561229010805 Walker B; other site 561229010806 D-loop; other site 561229010807 H-loop/switch region; other site 561229010808 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229010809 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561229010810 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 561229010811 ABC-ATPase subunit interface; other site 561229010812 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229010813 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 561229010814 dimer interface [polypeptide binding]; other site 561229010815 conserved gate region; other site 561229010816 putative PBP binding loops; other site 561229010817 ABC-ATPase subunit interface; other site 561229010818 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229010819 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 561229010820 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561229010821 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 561229010822 putative active site pocket [active] 561229010823 metal binding site [ion binding]; metal-binding site 561229010824 acetyl-CoA synthetase; Provisional; Region: PRK00174 561229010825 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 561229010826 active site 561229010827 CoA binding site [chemical binding]; other site 561229010828 acyl-activating enzyme (AAE) consensus motif; other site 561229010829 AMP binding site [chemical binding]; other site 561229010830 acetate binding site [chemical binding]; other site 561229010831 Predicted membrane protein [Function unknown]; Region: COG3162 561229010832 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561229010833 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 561229010834 Na binding site [ion binding]; other site 561229010835 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 561229010836 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 561229010837 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 561229010838 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 561229010839 putative acyl-acceptor binding pocket; other site 561229010840 molybdenum-pterin binding domain; Region: Mop; TIGR00638 561229010841 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 561229010842 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 561229010843 dimer interface [polypeptide binding]; other site 561229010844 conserved gate region; other site 561229010845 putative PBP binding loops; other site 561229010846 ABC-ATPase subunit interface; other site 561229010847 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229010848 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 561229010849 putative PBP binding loops; other site 561229010850 dimer interface [polypeptide binding]; other site 561229010851 ABC-ATPase subunit interface; other site 561229010852 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561229010853 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561229010854 active site 561229010855 metal binding site [ion binding]; metal-binding site 561229010856 hexamer interface [polypeptide binding]; other site 561229010857 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561229010858 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561229010859 Walker A/P-loop; other site 561229010860 ATP binding site [chemical binding]; other site 561229010861 Q-loop/lid; other site 561229010862 ABC transporter signature motif; other site 561229010863 Walker B; other site 561229010864 D-loop; other site 561229010865 H-loop/switch region; other site 561229010866 TOBE domain; Region: TOBE_2; pfam08402 561229010867 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561229010868 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561229010869 Bacterial sugar transferase; Region: Bac_transf; pfam02397 561229010870 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561229010871 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 561229010872 putative NAD(P) binding site [chemical binding]; other site 561229010873 active site 561229010874 putative substrate binding site [chemical binding]; other site 561229010875 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 561229010876 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 561229010877 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 561229010878 NAD(P) binding site [chemical binding]; other site 561229010879 homodimer interface [polypeptide binding]; other site 561229010880 substrate binding site [chemical binding]; other site 561229010881 active site 561229010882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561229010883 Transposase; Region: HTH_Tnp_1; pfam01527 561229010884 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229010885 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561229010886 Homeodomain-like domain; Region: HTH_32; pfam13565 561229010887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 561229010888 Integrase core domain; Region: rve; pfam00665 561229010889 Integrase core domain; Region: rve_3; pfam13683 561229010890 Transposase; Region: HTH_Tnp_1; cl17663 561229010891 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 561229010892 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 561229010893 NAD binding site [chemical binding]; other site 561229010894 homodimer interface [polypeptide binding]; other site 561229010895 active site 561229010896 substrate binding site [chemical binding]; other site 561229010897 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 561229010898 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229010899 Transposase [DNA replication, recombination, and repair]; Region: COG5433 561229010900 Transposase [DNA replication, recombination, and repair]; Region: COG5433 561229010901 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 561229010902 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229010903 putative ADP-binding pocket [chemical binding]; other site 561229010904 HTH-like domain; Region: HTH_21; pfam13276 561229010905 Integrase core domain; Region: rve; pfam00665 561229010906 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 561229010907 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229010908 Transposase [DNA replication, recombination, and repair]; Region: COG5433 561229010909 Transposase [DNA replication, recombination, and repair]; Region: COG5433 561229010910 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 561229010911 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229010912 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 561229010913 FAD dependent oxidoreductase; Region: DAO; pfam01266 561229010914 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561229010915 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 561229010916 active site 561229010917 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 561229010918 Ligand binding site; other site 561229010919 Putative Catalytic site; other site 561229010920 DXD motif; other site 561229010921 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 561229010922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229010923 active site 561229010924 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 561229010925 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 561229010926 Homeodomain-like domain; Region: HTH_32; pfam13565 561229010927 Integrase core domain; Region: rve; pfam00665 561229010928 Homeodomain-like domain; Region: HTH_32; pfam13565 561229010929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 561229010930 Integrase core domain; Region: rve; pfam00665 561229010931 Integrase core domain; Region: rve_3; pfam13683 561229010932 Homeodomain-like domain; Region: HTH_23; cl17451 561229010933 Integrase core domain; Region: rve; pfam00665 561229010934 Integrase core domain; Region: rve_3; pfam13683 561229010935 Transposase; Region: DEDD_Tnp_IS110; pfam01548 561229010936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 561229010937 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 561229010938 LysE type translocator; Region: LysE; cl00565 561229010939 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 561229010940 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 561229010941 dimer interface [polypeptide binding]; other site 561229010942 putative anticodon binding site; other site 561229010943 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 561229010944 motif 1; other site 561229010945 active site 561229010946 motif 2; other site 561229010947 motif 3; other site 561229010948 peptide chain release factor 2; Validated; Region: prfB; PRK00578 561229010949 This domain is found in peptide chain release factors; Region: PCRF; smart00937 561229010950 RF-1 domain; Region: RF-1; pfam00472 561229010951 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 561229010952 DHH family; Region: DHH; pfam01368 561229010953 DHHA1 domain; Region: DHHA1; pfam02272 561229010954 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 561229010955 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 561229010956 dimerization domain [polypeptide binding]; other site 561229010957 dimer interface [polypeptide binding]; other site 561229010958 catalytic residues [active] 561229010959 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 561229010960 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 561229010961 active site 561229010962 Int/Topo IB signature motif; other site 561229010963 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 561229010964 metabolite-proton symporter; Region: 2A0106; TIGR00883 561229010965 putative substrate translocation pore; other site 561229010966 flavodoxin FldB; Provisional; Region: PRK12359 561229010967 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 561229010968 hypothetical protein; Provisional; Region: PRK10878 561229010969 putative global regulator; Reviewed; Region: PRK09559 561229010970 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 561229010971 hemolysin; Provisional; Region: PRK15087 561229010972 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 561229010973 HD domain; Region: HD_3; pfam13023 561229010974 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 561229010975 glycine dehydrogenase; Provisional; Region: PRK05367 561229010976 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 561229010977 tetramer interface [polypeptide binding]; other site 561229010978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229010979 catalytic residue [active] 561229010980 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 561229010981 tetramer interface [polypeptide binding]; other site 561229010982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229010983 catalytic residue [active] 561229010984 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 561229010985 lipoyl attachment site [posttranslational modification]; other site 561229010986 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 561229010987 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 561229010988 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 561229010989 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 561229010990 dimer interface [polypeptide binding]; other site 561229010991 active site 561229010992 metal binding site [ion binding]; metal-binding site 561229010993 acetolactate synthase; Reviewed; Region: PRK08617 561229010994 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 561229010995 PYR/PP interface [polypeptide binding]; other site 561229010996 dimer interface [polypeptide binding]; other site 561229010997 TPP binding site [chemical binding]; other site 561229010998 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 561229010999 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 561229011000 TPP-binding site [chemical binding]; other site 561229011001 dimer interface [polypeptide binding]; other site 561229011002 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 561229011003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229011004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229011005 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 561229011006 putative dimerization interface [polypeptide binding]; other site 561229011007 putative substrate binding pocket [chemical binding]; other site 561229011008 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 561229011009 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229011010 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229011011 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 561229011012 putative effector binding pocket; other site 561229011013 putative dimerization interface [polypeptide binding]; other site 561229011014 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 561229011015 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229011016 active site 561229011017 catalytic tetrad [active] 561229011018 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 561229011019 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 561229011020 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 561229011021 S-adenosylmethionine binding site [chemical binding]; other site 561229011022 DNA polymerase III subunit psi; Validated; Region: PRK06856 561229011023 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 561229011024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229011025 Coenzyme A binding pocket [chemical binding]; other site 561229011026 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 561229011027 phosphopentomutase; Provisional; Region: PRK05362 561229011028 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 561229011029 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 561229011030 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 561229011031 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 561229011032 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 561229011033 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 561229011034 intersubunit interface [polypeptide binding]; other site 561229011035 active site 561229011036 catalytic residue [active] 561229011037 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 561229011038 GIY-YIG motif/motif A; other site 561229011039 putative active site [active] 561229011040 putative metal binding site [ion binding]; other site 561229011041 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229011042 Coenzyme A binding pocket [chemical binding]; other site 561229011043 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 561229011044 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 561229011045 Peptidase family U32; Region: Peptidase_U32; pfam01136 561229011046 putative protease; Provisional; Region: PRK15447 561229011047 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 561229011048 hypothetical protein; Provisional; Region: PRK10508 561229011049 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 561229011050 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 561229011051 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 561229011052 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 561229011053 ATP binding site [chemical binding]; other site 561229011054 Mg++ binding site [ion binding]; other site 561229011055 motif III; other site 561229011056 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 561229011057 nucleotide binding region [chemical binding]; other site 561229011058 ATP-binding site [chemical binding]; other site 561229011059 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 561229011060 putative RNA binding site [nucleotide binding]; other site 561229011061 lipoprotein NlpI; Provisional; Region: PRK11189 561229011062 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 561229011063 binding surface 561229011064 TPR motif; other site 561229011065 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 561229011066 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 561229011067 RNase E interface [polypeptide binding]; other site 561229011068 trimer interface [polypeptide binding]; other site 561229011069 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 561229011070 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 561229011071 RNase E interface [polypeptide binding]; other site 561229011072 trimer interface [polypeptide binding]; other site 561229011073 active site 561229011074 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 561229011075 putative nucleic acid binding region [nucleotide binding]; other site 561229011076 G-X-X-G motif; other site 561229011077 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 561229011078 RNA binding site [nucleotide binding]; other site 561229011079 domain interface; other site 561229011080 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 561229011081 16S/18S rRNA binding site [nucleotide binding]; other site 561229011082 S13e-L30e interaction site [polypeptide binding]; other site 561229011083 25S rRNA binding site [nucleotide binding]; other site 561229011084 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 561229011085 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 561229011086 RNA binding site [nucleotide binding]; other site 561229011087 active site 561229011088 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 561229011089 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 561229011090 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 561229011091 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 561229011092 translation initiation factor IF-2; Region: IF-2; TIGR00487 561229011093 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 561229011094 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 561229011095 G1 box; other site 561229011096 putative GEF interaction site [polypeptide binding]; other site 561229011097 GTP/Mg2+ binding site [chemical binding]; other site 561229011098 Switch I region; other site 561229011099 G2 box; other site 561229011100 G3 box; other site 561229011101 Switch II region; other site 561229011102 G4 box; other site 561229011103 G5 box; other site 561229011104 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 561229011105 Translation-initiation factor 2; Region: IF-2; pfam11987 561229011106 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 561229011107 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 561229011108 NusA N-terminal domain; Region: NusA_N; pfam08529 561229011109 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 561229011110 RNA binding site [nucleotide binding]; other site 561229011111 homodimer interface [polypeptide binding]; other site 561229011112 NusA-like KH domain; Region: KH_5; pfam13184 561229011113 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 561229011114 G-X-X-G motif; other site 561229011115 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 561229011116 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 561229011117 ribosome maturation protein RimP; Reviewed; Region: PRK00092 561229011118 Sm and related proteins; Region: Sm_like; cl00259 561229011119 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 561229011120 putative oligomer interface [polypeptide binding]; other site 561229011121 putative RNA binding site [nucleotide binding]; other site 561229011122 Preprotein translocase SecG subunit; Region: SecG; pfam03840 561229011123 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 561229011124 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 561229011125 active site 561229011126 substrate binding site [chemical binding]; other site 561229011127 metal binding site [ion binding]; metal-binding site 561229011128 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 561229011129 dihydropteroate synthase; Region: DHPS; TIGR01496 561229011130 substrate binding pocket [chemical binding]; other site 561229011131 dimer interface [polypeptide binding]; other site 561229011132 inhibitor binding site; inhibition site 561229011133 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 561229011134 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 561229011135 Walker A motif; other site 561229011136 ATP binding site [chemical binding]; other site 561229011137 Walker B motif; other site 561229011138 arginine finger; other site 561229011139 Peptidase family M41; Region: Peptidase_M41; pfam01434 561229011140 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 561229011141 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 561229011142 S-adenosylmethionine binding site [chemical binding]; other site 561229011143 RNA-binding protein YhbY; Provisional; Region: PRK10343 561229011144 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 561229011145 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 561229011146 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561229011147 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 561229011148 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 561229011149 GTPase CgtA; Reviewed; Region: obgE; PRK12298 561229011150 GTP1/OBG; Region: GTP1_OBG; pfam01018 561229011151 Obg GTPase; Region: Obg; cd01898 561229011152 G1 box; other site 561229011153 GTP/Mg2+ binding site [chemical binding]; other site 561229011154 Switch I region; other site 561229011155 G2 box; other site 561229011156 G3 box; other site 561229011157 Switch II region; other site 561229011158 G4 box; other site 561229011159 G5 box; other site 561229011160 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 561229011161 EamA-like transporter family; Region: EamA; pfam00892 561229011162 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 561229011163 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 561229011164 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 561229011165 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 561229011166 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 561229011167 substrate binding pocket [chemical binding]; other site 561229011168 chain length determination region; other site 561229011169 substrate-Mg2+ binding site; other site 561229011170 catalytic residues [active] 561229011171 aspartate-rich region 1; other site 561229011172 active site lid residues [active] 561229011173 aspartate-rich region 2; other site 561229011174 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 561229011175 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 561229011176 malate dehydrogenase; Provisional; Region: PRK05086 561229011177 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 561229011178 NAD binding site [chemical binding]; other site 561229011179 dimerization interface [polypeptide binding]; other site 561229011180 Substrate binding site [chemical binding]; other site 561229011181 arginine repressor; Provisional; Region: PRK05066 561229011182 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 561229011183 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 561229011184 UGMP family protein; Validated; Region: PRK09604 561229011185 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 561229011186 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 561229011187 DNA primase; Validated; Region: dnaG; PRK05667 561229011188 CHC2 zinc finger; Region: zf-CHC2; pfam01807 561229011189 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 561229011190 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 561229011191 active site 561229011192 metal binding site [ion binding]; metal-binding site 561229011193 interdomain interaction site; other site 561229011194 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 561229011195 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 561229011196 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 561229011197 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 561229011198 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 561229011199 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 561229011200 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561229011201 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 561229011202 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 561229011203 DNA binding residues [nucleotide binding] 561229011204 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 561229011205 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 561229011206 putative NAD(P) binding site [chemical binding]; other site 561229011207 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 561229011208 classical (c) SDRs; Region: SDR_c; cd05233 561229011209 NAD(P) binding site [chemical binding]; other site 561229011210 active site 561229011211 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 561229011212 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229011213 active site 561229011214 catalytic tetrad [active] 561229011215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229011216 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 561229011217 ApbE family; Region: ApbE; pfam02424 561229011218 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 561229011219 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 561229011220 putative active site [active] 561229011221 putative FMN binding site [chemical binding]; other site 561229011222 putative substrate binding site [chemical binding]; other site 561229011223 putative catalytic residue [active] 561229011224 FMN-binding domain; Region: FMN_bind; cl01081 561229011225 L-aspartate oxidase; Provisional; Region: PRK06175 561229011226 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 561229011227 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 561229011228 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 561229011229 NAD(P) binding site [chemical binding]; other site 561229011230 catalytic residues [active] 561229011231 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 561229011232 ApbE family; Region: ApbE; pfam02424 561229011233 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 561229011234 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 561229011235 putative active site [active] 561229011236 putative NTP binding site [chemical binding]; other site 561229011237 putative nucleic acid binding site [nucleotide binding]; other site 561229011238 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 561229011239 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 561229011240 dimer interface [polypeptide binding]; other site 561229011241 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 561229011242 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 561229011243 putative substrate translocation pore; other site 561229011244 regulatory protein UhpC; Provisional; Region: PRK11663 561229011245 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 561229011246 putative substrate translocation pore; other site 561229011247 sensory histidine kinase UhpB; Provisional; Region: PRK11644 561229011248 MASE1; Region: MASE1; cl17823 561229011249 MASE1; Region: MASE1; cl17823 561229011250 Histidine kinase; Region: HisKA_3; pfam07730 561229011251 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 561229011252 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 561229011253 active site 561229011254 phosphorylation site [posttranslational modification] 561229011255 intermolecular recognition site; other site 561229011256 dimerization interface [polypeptide binding]; other site 561229011257 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 561229011258 DNA binding residues [nucleotide binding] 561229011259 dimerization interface [polypeptide binding]; other site 561229011260 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 561229011261 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 561229011262 S-adenosylmethionine binding site [chemical binding]; other site 561229011263 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 561229011264 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 561229011265 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 561229011266 galactarate dehydratase; Region: galactar-dH20; TIGR03248 561229011267 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 561229011268 altronate oxidoreductase; Provisional; Region: PRK03643 561229011269 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 561229011270 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 561229011271 Glucuronate isomerase; Region: UxaC; pfam02614 561229011272 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 561229011273 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 561229011274 D-galactonate transporter; Region: 2A0114; TIGR00893 561229011275 putative substrate translocation pore; other site 561229011276 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 561229011277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229011278 DNA-binding site [nucleotide binding]; DNA binding site 561229011279 FCD domain; Region: FCD; pfam07729 561229011280 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561229011281 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561229011282 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 561229011283 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 561229011284 Predicted membrane protein [Function unknown]; Region: COG5393 561229011285 YqjK-like protein; Region: YqjK; pfam13997 561229011286 Predicted membrane protein [Function unknown]; Region: COG2259 561229011287 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 561229011288 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 561229011289 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 561229011290 putative dimer interface [polypeptide binding]; other site 561229011291 N-terminal domain interface [polypeptide binding]; other site 561229011292 putative substrate binding pocket (H-site) [chemical binding]; other site 561229011293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229011294 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 561229011295 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 561229011296 dimerization interface [polypeptide binding]; other site 561229011297 Pirin-related protein [General function prediction only]; Region: COG1741 561229011298 Pirin; Region: Pirin; pfam02678 561229011299 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 561229011300 metal binding site 2 [ion binding]; metal-binding site 561229011301 putative DNA binding helix; other site 561229011302 metal binding site 1 [ion binding]; metal-binding site 561229011303 dimer interface [polypeptide binding]; other site 561229011304 structural Zn2+ binding site [ion binding]; other site 561229011305 LexA repressor; Validated; Region: PRK00215 561229011306 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 561229011307 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 561229011308 Catalytic site [active] 561229011309 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 561229011310 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 561229011311 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 561229011312 putative acyl-acceptor binding pocket; other site 561229011313 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 561229011314 UbiA prenyltransferase family; Region: UbiA; pfam01040 561229011315 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 561229011316 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 561229011317 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 561229011318 ring oligomerisation interface [polypeptide binding]; other site 561229011319 ATP/Mg binding site [chemical binding]; other site 561229011320 stacking interactions; other site 561229011321 hinge regions; other site 561229011322 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 561229011323 oligomerisation interface [polypeptide binding]; other site 561229011324 mobile loop; other site 561229011325 roof hairpin; other site 561229011326 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 561229011327 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 561229011328 Aspartase; Region: Aspartase; cd01357 561229011329 active sites [active] 561229011330 tetramer interface [polypeptide binding]; other site 561229011331 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 561229011332 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 561229011333 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 561229011334 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 561229011335 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 561229011336 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 561229011337 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 561229011338 DsbD alpha interface [polypeptide binding]; other site 561229011339 catalytic residues [active] 561229011340 putative transcriptional regulator; Provisional; Region: PRK11640 561229011341 integrase; Provisional; Region: PRK09692 561229011342 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561229011343 active site 561229011344 Int/Topo IB signature motif; other site 561229011345 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 561229011346 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 561229011347 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 561229011348 AAA domain; Region: AAA_23; pfam13476 561229011349 AAA domain; Region: AAA_21; pfam13304 561229011350 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229011351 Walker B; other site 561229011352 D-loop; other site 561229011353 H-loop/switch region; other site 561229011354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229011355 Coenzyme A binding pocket [chemical binding]; other site 561229011356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 561229011357 putative acyl transferase; Provisional; Region: PRK10191 561229011358 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 561229011359 trimer interface [polypeptide binding]; other site 561229011360 active site 561229011361 substrate binding site [chemical binding]; other site 561229011362 CoA binding site [chemical binding]; other site 561229011363 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 561229011364 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 561229011365 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229011366 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229011367 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 561229011368 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 561229011369 active site 561229011370 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 561229011371 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 561229011372 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 561229011373 Chain length determinant protein; Region: Wzz; pfam02706 561229011374 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 561229011375 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 561229011376 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 561229011377 SLBB domain; Region: SLBB; pfam10531 561229011378 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 561229011379 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 561229011380 Bacterial sugar transferase; Region: Bac_transf; pfam02397 561229011381 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 561229011382 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 561229011383 active site pocket [active] 561229011384 Transcriptional regulators [Transcription]; Region: PurR; COG1609 561229011385 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229011386 DNA binding site [nucleotide binding] 561229011387 domain linker motif; other site 561229011388 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 561229011389 putative dimerization interface [polypeptide binding]; other site 561229011390 putative ligand binding site [chemical binding]; other site 561229011391 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 561229011392 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 561229011393 DNA binding residues [nucleotide binding] 561229011394 dimer interface [polypeptide binding]; other site 561229011395 putative metal binding site [ion binding]; other site 561229011396 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 561229011397 Heavy-metal-associated domain; Region: HMA; pfam00403 561229011398 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 561229011399 Soluble P-type ATPase [General function prediction only]; Region: COG4087 561229011400 hypothetical protein; Provisional; Region: PRK07236 561229011401 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 561229011402 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 561229011403 FMN-binding pocket [chemical binding]; other site 561229011404 flavin binding motif; other site 561229011405 phosphate binding motif [ion binding]; other site 561229011406 beta-alpha-beta structure motif; other site 561229011407 NAD binding pocket [chemical binding]; other site 561229011408 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 561229011409 catalytic loop [active] 561229011410 iron binding site [ion binding]; other site 561229011411 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 561229011412 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 561229011413 [2Fe-2S] cluster binding site [ion binding]; other site 561229011414 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 561229011415 hydrophobic ligand binding site; other site 561229011416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229011417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229011418 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 561229011419 dimerization interface [polypeptide binding]; other site 561229011420 OHCU decarboxylase; Region: UraD_2; TIGR03180 561229011421 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 561229011422 active site 561229011423 homotetramer interface [polypeptide binding]; other site 561229011424 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 561229011425 trimer interface [polypeptide binding]; other site 561229011426 active site 561229011427 substrate binding site [chemical binding]; other site 561229011428 CoA binding site [chemical binding]; other site 561229011429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 561229011430 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 561229011431 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 561229011432 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 561229011433 catalytic residue [active] 561229011434 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 561229011435 catalytic residues [active] 561229011436 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229011437 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229011438 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 561229011439 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 561229011440 dimer interface [polypeptide binding]; other site 561229011441 decamer (pentamer of dimers) interface [polypeptide binding]; other site 561229011442 catalytic triad [active] 561229011443 peroxidatic and resolving cysteines [active] 561229011444 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 561229011445 ABC-ATPase subunit interface; other site 561229011446 dimer interface [polypeptide binding]; other site 561229011447 putative PBP binding regions; other site 561229011448 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 561229011449 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 561229011450 putative ligand binding residues [chemical binding]; other site 561229011451 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 561229011452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229011453 Walker A/P-loop; other site 561229011454 ATP binding site [chemical binding]; other site 561229011455 Q-loop/lid; other site 561229011456 ABC transporter signature motif; other site 561229011457 Walker B; other site 561229011458 D-loop; other site 561229011459 H-loop/switch region; other site 561229011460 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 561229011461 HD domain; Region: HD_4; pfam13328 561229011462 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229011463 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 561229011464 dimer interface [polypeptide binding]; other site 561229011465 ligand binding site [chemical binding]; other site 561229011466 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 561229011467 dimerization interface [polypeptide binding]; other site 561229011468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229011469 dimer interface [polypeptide binding]; other site 561229011470 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 561229011471 putative CheW interface [polypeptide binding]; other site 561229011472 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 561229011473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229011474 NAD(P) binding site [chemical binding]; other site 561229011475 active site 561229011476 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 561229011477 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 561229011478 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561229011479 active site 561229011480 CsbD-like; Region: CsbD; cl17424 561229011481 periplasmic protein; Provisional; Region: PRK10568 561229011482 BON domain; Region: BON; pfam04972 561229011483 BON domain; Region: BON; pfam04972 561229011484 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 561229011485 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 561229011486 G1 box; other site 561229011487 putative GEF interaction site [polypeptide binding]; other site 561229011488 GTP/Mg2+ binding site [chemical binding]; other site 561229011489 Switch I region; other site 561229011490 G2 box; other site 561229011491 G3 box; other site 561229011492 Switch II region; other site 561229011493 G4 box; other site 561229011494 G5 box; other site 561229011495 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 561229011496 hypothetical protein; Provisional; Region: PRK11246 561229011497 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 561229011498 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 561229011499 motif I; other site 561229011500 motif II; other site 561229011501 DNA repair protein RadA; Provisional; Region: PRK11823 561229011502 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 561229011503 Walker A motif/ATP binding site; other site 561229011504 ATP binding site [chemical binding]; other site 561229011505 Walker B motif; other site 561229011506 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 561229011507 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 561229011508 non-specific DNA binding site [nucleotide binding]; other site 561229011509 salt bridge; other site 561229011510 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 561229011511 sequence-specific DNA binding site [nucleotide binding]; other site 561229011512 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 561229011513 active site 561229011514 (T/H)XGH motif; other site 561229011515 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 561229011516 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 561229011517 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 561229011518 Z-ring-associated protein; Provisional; Region: PRK10972 561229011519 hypothetical protein; Reviewed; Region: PRK01736 561229011520 proline aminopeptidase P II; Provisional; Region: PRK10879 561229011521 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 561229011522 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 561229011523 active site 561229011524 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 561229011525 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 561229011526 oxidoreductase; Provisional; Region: PRK08013 561229011527 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 561229011528 YebF-like protein; Region: YebF; pfam13995 561229011529 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229011530 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 561229011531 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 561229011532 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229011533 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561229011534 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 561229011535 dimer interface [polypeptide binding]; other site 561229011536 conserved gate region; other site 561229011537 putative PBP binding loops; other site 561229011538 ABC-ATPase subunit interface; other site 561229011539 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561229011540 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229011541 Walker A/P-loop; other site 561229011542 ATP binding site [chemical binding]; other site 561229011543 Q-loop/lid; other site 561229011544 ABC transporter signature motif; other site 561229011545 Walker B; other site 561229011546 D-loop; other site 561229011547 H-loop/switch region; other site 561229011548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561229011549 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229011550 Walker A/P-loop; other site 561229011551 ATP binding site [chemical binding]; other site 561229011552 Q-loop/lid; other site 561229011553 ABC transporter signature motif; other site 561229011554 Walker B; other site 561229011555 D-loop; other site 561229011556 H-loop/switch region; other site 561229011557 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229011558 transcriptional activator RhaR; Provisional; Region: PRK13501 561229011559 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561229011560 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229011561 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229011562 transcriptional activator RhaS; Provisional; Region: PRK13503 561229011563 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 561229011564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229011565 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 561229011566 N- and C-terminal domain interface [polypeptide binding]; other site 561229011567 active site 561229011568 putative catalytic site [active] 561229011569 metal binding site [ion binding]; metal-binding site 561229011570 ATP binding site [chemical binding]; other site 561229011571 rhamnulokinase; Provisional; Region: rhaB; PRK10640 561229011572 carbohydrate binding site [chemical binding]; other site 561229011573 L-rhamnose isomerase; Provisional; Region: PRK01076 561229011574 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 561229011575 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 561229011576 intersubunit interface [polypeptide binding]; other site 561229011577 active site 561229011578 Zn2+ binding site [ion binding]; other site 561229011579 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 561229011580 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229011581 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229011582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229011583 dimer interface [polypeptide binding]; other site 561229011584 putative CheW interface [polypeptide binding]; other site 561229011585 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 561229011586 Transcriptional regulator [Transcription]; Region: IclR; COG1414 561229011587 Bacterial transcriptional regulator; Region: IclR; pfam01614 561229011588 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 561229011589 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561229011590 Zn2+ binding site [ion binding]; other site 561229011591 Mg2+ binding site [ion binding]; other site 561229011592 H+ Antiporter protein; Region: 2A0121; TIGR00900 561229011593 Cation transport protein; Region: TrkH; cl17365 561229011594 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 561229011595 chorismate mutase; Provisional; Region: PRK08055 561229011596 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 561229011597 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 561229011598 putative DNA binding site [nucleotide binding]; other site 561229011599 putative Zn2+ binding site [ion binding]; other site 561229011600 AsnC family; Region: AsnC_trans_reg; pfam01037 561229011601 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 561229011602 Predicted ATPase [General function prediction only]; Region: COG4637 561229011603 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229011604 ABC transporter signature motif; other site 561229011605 Walker B; other site 561229011606 D-loop; other site 561229011607 H-loop/switch region; other site 561229011608 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 561229011609 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 561229011610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229011611 catalytic residue [active] 561229011612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229011613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229011614 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 561229011615 dimerization interface [polypeptide binding]; other site 561229011616 hypothetical protein; Provisional; Region: PRK07079 561229011617 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 561229011618 metal binding site [ion binding]; metal-binding site 561229011619 putative dimer interface [polypeptide binding]; other site 561229011620 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229011621 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229011622 Walker A/P-loop; other site 561229011623 ATP binding site [chemical binding]; other site 561229011624 Q-loop/lid; other site 561229011625 ABC transporter signature motif; other site 561229011626 Walker B; other site 561229011627 D-loop; other site 561229011628 H-loop/switch region; other site 561229011629 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561229011630 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 561229011631 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229011632 Walker A/P-loop; other site 561229011633 ATP binding site [chemical binding]; other site 561229011634 Q-loop/lid; other site 561229011635 ABC transporter signature motif; other site 561229011636 Walker B; other site 561229011637 D-loop; other site 561229011638 H-loop/switch region; other site 561229011639 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229011640 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 561229011641 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 561229011642 dimer interface [polypeptide binding]; other site 561229011643 conserved gate region; other site 561229011644 putative PBP binding loops; other site 561229011645 ABC-ATPase subunit interface; other site 561229011646 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229011647 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 561229011648 dimer interface [polypeptide binding]; other site 561229011649 conserved gate region; other site 561229011650 putative PBP binding loops; other site 561229011651 ABC-ATPase subunit interface; other site 561229011652 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229011653 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 561229011654 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 561229011655 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 561229011656 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 561229011657 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 561229011658 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 561229011659 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 561229011660 NAD binding site [chemical binding]; other site 561229011661 homotetramer interface [polypeptide binding]; other site 561229011662 homodimer interface [polypeptide binding]; other site 561229011663 active site 561229011664 substrate binding site [chemical binding]; other site 561229011665 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 561229011666 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 561229011667 N- and C-terminal domain interface [polypeptide binding]; other site 561229011668 active site 561229011669 MgATP binding site [chemical binding]; other site 561229011670 catalytic site [active] 561229011671 metal binding site [ion binding]; metal-binding site 561229011672 putative homotetramer interface [polypeptide binding]; other site 561229011673 putative homodimer interface [polypeptide binding]; other site 561229011674 glycerol binding site [chemical binding]; other site 561229011675 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229011676 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229011677 TM-ABC transporter signature motif; other site 561229011678 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 561229011679 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229011680 Walker A/P-loop; other site 561229011681 ATP binding site [chemical binding]; other site 561229011682 Q-loop/lid; other site 561229011683 ABC transporter signature motif; other site 561229011684 Walker B; other site 561229011685 D-loop; other site 561229011686 H-loop/switch region; other site 561229011687 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229011688 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 561229011689 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 561229011690 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 561229011691 short chain dehydrogenase; Provisional; Region: PRK06841 561229011692 classical (c) SDRs; Region: SDR_c; cd05233 561229011693 NAD(P) binding site [chemical binding]; other site 561229011694 active site 561229011695 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 561229011696 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 561229011697 PYR/PP interface [polypeptide binding]; other site 561229011698 dimer interface [polypeptide binding]; other site 561229011699 TPP binding site [chemical binding]; other site 561229011700 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 561229011701 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 561229011702 TPP-binding site [chemical binding]; other site 561229011703 dimer interface [polypeptide binding]; other site 561229011704 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 561229011705 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 561229011706 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 561229011707 Predicted ATPase [General function prediction only]; Region: COG4637 561229011708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229011709 Walker A/P-loop; other site 561229011710 ATP binding site [chemical binding]; other site 561229011711 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 561229011712 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229011713 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 561229011714 putative substrate translocation pore; other site 561229011715 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 561229011716 HNH endonuclease; Region: HNH_2; pfam13391 561229011717 Lysine efflux permease [General function prediction only]; Region: COG1279 561229011718 H+ Antiporter protein; Region: 2A0121; TIGR00900 561229011719 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 561229011720 putative substrate translocation pore; other site 561229011721 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 561229011722 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561229011723 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 561229011724 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 561229011725 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 561229011726 inhibitor-cofactor binding pocket; inhibition site 561229011727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229011728 catalytic residue [active] 561229011729 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 561229011730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229011731 SnoaL-like domain; Region: SnoaL_2; pfam12680 561229011732 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 561229011733 active site residue [active] 561229011734 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 561229011735 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 561229011736 ligand binding site [chemical binding]; other site 561229011737 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 561229011738 hydroxyglutarate oxidase; Provisional; Region: PRK11728 561229011739 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 561229011740 Cupin domain; Region: Cupin_2; pfam07883 561229011741 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 561229011742 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 561229011743 acyl-activating enzyme (AAE) consensus motif; other site 561229011744 AMP binding site [chemical binding]; other site 561229011745 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 561229011746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 561229011747 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 561229011748 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561229011749 active site 561229011750 HIGH motif; other site 561229011751 nucleotide binding site [chemical binding]; other site 561229011752 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 561229011753 active site 561229011754 KMSKS motif; other site 561229011755 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 561229011756 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 561229011757 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 561229011758 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 561229011759 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 561229011760 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 561229011761 ATP binding site [chemical binding]; other site 561229011762 putative Mg++ binding site [ion binding]; other site 561229011763 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 561229011764 nucleotide binding region [chemical binding]; other site 561229011765 ATP-binding site [chemical binding]; other site 561229011766 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 561229011767 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561229011768 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 561229011769 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 561229011770 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561229011771 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561229011772 Pirin-related protein [General function prediction only]; Region: COG1741 561229011773 Pirin; Region: Pirin; pfam02678 561229011774 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 561229011775 EamA-like transporter family; Region: EamA; pfam00892 561229011776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229011777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229011778 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 561229011779 putative substrate binding pocket [chemical binding]; other site 561229011780 putative dimerization interface [polypeptide binding]; other site 561229011781 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 561229011782 oligomeric interface; other site 561229011783 putative active site [active] 561229011784 homodimer interface [polypeptide binding]; other site 561229011785 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 561229011786 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 561229011787 nucleophile elbow; other site 561229011788 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 561229011789 YjcZ-like protein; Region: YjcZ; pfam13990 561229011790 hypothetical protein; Provisional; Region: PRK09866 561229011791 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 561229011792 G1 box; other site 561229011793 GTP/Mg2+ binding site [chemical binding]; other site 561229011794 G2 box; other site 561229011795 Switch I region; other site 561229011796 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 561229011797 G3 box; other site 561229011798 Switch II region; other site 561229011799 GTP/Mg2+ binding site [chemical binding]; other site 561229011800 G4 box; other site 561229011801 G5 box; other site 561229011802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 561229011803 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 561229011804 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 561229011805 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 561229011806 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 561229011807 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 561229011808 active site 561229011809 HerA helicase [Replication, recombination, and repair]; Region: COG0433 561229011810 Domain of unknown function DUF87; Region: DUF87; pfam01935 561229011811 SIR2-like domain; Region: SIR2_2; pfam13289 561229011812 Predicted transcriptional regulator [Transcription]; Region: COG2944 561229011813 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 561229011814 non-specific DNA binding site [nucleotide binding]; other site 561229011815 salt bridge; other site 561229011816 sequence-specific DNA binding site [nucleotide binding]; other site 561229011817 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 561229011818 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561229011819 Ash protein family; Region: Phage_ASH; pfam10554 561229011820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 561229011821 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 561229011822 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 561229011823 active site 561229011824 metal binding site [ion binding]; metal-binding site 561229011825 AAA domain; Region: AAA_25; pfam13481 561229011826 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 561229011827 Walker A motif; other site 561229011828 ATP binding site [chemical binding]; other site 561229011829 Walker B motif; other site 561229011830 Helix-turn-helix domain; Region: HTH_36; pfam13730 561229011831 HipA N-terminal domain; Region: couple_hipA; TIGR03071 561229011832 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 561229011833 HipA-like N-terminal domain; Region: HipA_N; pfam07805 561229011834 HipA-like C-terminal domain; Region: HipA_C; pfam07804 561229011835 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 561229011836 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229011837 salt bridge; other site 561229011838 non-specific DNA binding site [nucleotide binding]; other site 561229011839 sequence-specific DNA binding site [nucleotide binding]; other site 561229011840 integrase; Provisional; Region: PRK09692 561229011841 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561229011842 active site 561229011843 Int/Topo IB signature motif; other site 561229011844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 561229011845 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 561229011846 Coenzyme A binding pocket [chemical binding]; other site 561229011847 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 561229011848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 561229011849 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 561229011850 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 561229011851 active site 561229011852 metal binding site [ion binding]; metal-binding site 561229011853 AAA domain; Region: AAA_25; pfam13481 561229011854 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 561229011855 ATP binding site [chemical binding]; other site 561229011856 Walker B motif; other site 561229011857 Ash protein family; Region: Phage_ASH; pfam10554 561229011858 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 561229011859 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 561229011860 Integrase; Region: Integrase_1; pfam12835 561229011861 AAA domain; Region: AAA_31; pfam13614 561229011862 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 561229011863 P-loop; other site 561229011864 Magnesium ion binding site [ion binding]; other site 561229011865 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 561229011866 Magnesium ion binding site [ion binding]; other site 561229011867 integrase; Provisional; Region: PRK09692 561229011868 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561229011869 active site 561229011870 Int/Topo IB signature motif; other site 561229011871 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 561229011872 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 561229011873 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 561229011874 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 561229011875 multifunctional aminopeptidase A; Provisional; Region: PRK00913 561229011876 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 561229011877 interface (dimer of trimers) [polypeptide binding]; other site 561229011878 Substrate-binding/catalytic site; other site 561229011879 Zn-binding sites [ion binding]; other site 561229011880 DNA polymerase III subunit chi; Validated; Region: PRK05728 561229011881 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 561229011882 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 561229011883 HIGH motif; other site 561229011884 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 561229011885 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 561229011886 active site 561229011887 KMSKS motif; other site 561229011888 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 561229011889 tRNA binding surface [nucleotide binding]; other site 561229011890 anticodon binding site; other site 561229011891 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 561229011892 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 561229011893 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 561229011894 dimerization interface [polypeptide binding]; other site 561229011895 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229011896 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229011897 dimer interface [polypeptide binding]; other site 561229011898 putative CheW interface [polypeptide binding]; other site 561229011899 hypothetical protein; Provisional; Region: PRK06489 561229011900 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 561229011901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229011902 Coenzyme A binding pocket [chemical binding]; other site 561229011903 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 561229011904 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 561229011905 sequence-specific DNA binding site [nucleotide binding]; other site 561229011906 salt bridge; other site 561229011907 Cupin domain; Region: Cupin_2; cl17218 561229011908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229011909 Coenzyme A binding pocket [chemical binding]; other site 561229011910 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229011911 Protein of unknown function (DUF726); Region: DUF726; pfam05277 561229011912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 561229011913 Domain of unknown function DUF29; Region: DUF29; pfam01724 561229011914 RNase E inhibitor protein; Provisional; Region: PRK11191 561229011915 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 561229011916 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 561229011917 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 561229011918 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 561229011919 beta-galactosidase; Region: BGL; TIGR03356 561229011920 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 561229011921 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 561229011922 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 561229011923 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 561229011924 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 561229011925 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 561229011926 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 561229011927 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 561229011928 homotrimer interaction site [polypeptide binding]; other site 561229011929 putative active site [active] 561229011930 indole acetimide hydrolase; Validated; Region: PRK07488 561229011931 Amidase; Region: Amidase; pfam01425 561229011932 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 561229011933 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 561229011934 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561229011935 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229011936 Walker A/P-loop; other site 561229011937 ATP binding site [chemical binding]; other site 561229011938 Q-loop/lid; other site 561229011939 ABC transporter signature motif; other site 561229011940 Walker B; other site 561229011941 D-loop; other site 561229011942 H-loop/switch region; other site 561229011943 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229011944 Walker A/P-loop; other site 561229011945 ATP binding site [chemical binding]; other site 561229011946 Q-loop/lid; other site 561229011947 ABC transporter signature motif; other site 561229011948 Walker B; other site 561229011949 D-loop; other site 561229011950 H-loop/switch region; other site 561229011951 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561229011952 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 561229011953 dimer interface [polypeptide binding]; other site 561229011954 conserved gate region; other site 561229011955 ABC-ATPase subunit interface; other site 561229011956 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229011957 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 561229011958 dimer interface [polypeptide binding]; other site 561229011959 conserved gate region; other site 561229011960 putative PBP binding loops; other site 561229011961 ABC-ATPase subunit interface; other site 561229011962 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229011963 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 561229011964 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 561229011965 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 561229011966 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 561229011967 ATP cone domain; Region: ATP-cone; pfam03477 561229011968 Class III ribonucleotide reductase; Region: RNR_III; cd01675 561229011969 effector binding site; other site 561229011970 active site 561229011971 Zn binding site [ion binding]; other site 561229011972 glycine loop; other site 561229011973 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 561229011974 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 561229011975 FeS/SAM binding site; other site 561229011976 hypothetical protein; Provisional; Region: PRK03467 561229011977 PIN domain; Region: PIN_3; pfam13470 561229011978 DNA binding domain, excisionase family; Region: excise; TIGR01764 561229011979 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 561229011980 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561229011981 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 561229011982 putative substrate binding site [chemical binding]; other site 561229011983 putative ATP binding site [chemical binding]; other site 561229011984 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 561229011985 TolA protein; Region: tolA_full; TIGR02794 561229011986 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 561229011987 trimer interface; other site 561229011988 sugar binding site [chemical binding]; other site 561229011989 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 561229011990 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 561229011991 active site turn [active] 561229011992 phosphorylation site [posttranslational modification] 561229011993 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 561229011994 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 561229011995 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 561229011996 substrate binding [chemical binding]; other site 561229011997 active site 561229011998 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 561229011999 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 561229012000 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229012001 DNA binding site [nucleotide binding] 561229012002 domain linker motif; other site 561229012003 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 561229012004 dimerization interface [polypeptide binding]; other site 561229012005 ligand binding site [chemical binding]; other site 561229012006 biopolymer transport protein ExbD; Provisional; Region: PRK11267 561229012007 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 561229012008 biopolymer transport protein ExbB; Provisional; Region: PRK10414 561229012009 cystathionine beta-lyase; Provisional; Region: PRK08114 561229012010 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 561229012011 homodimer interface [polypeptide binding]; other site 561229012012 substrate-cofactor binding pocket; other site 561229012013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229012014 catalytic residue [active] 561229012015 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 561229012016 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 561229012017 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 561229012018 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 561229012019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229012020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229012021 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 561229012022 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 561229012023 dimer interface [polypeptide binding]; other site 561229012024 active site 561229012025 metal binding site [ion binding]; metal-binding site 561229012026 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 561229012027 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 561229012028 active site 561229012029 catalytic tetrad [active] 561229012030 FtsI repressor; Provisional; Region: PRK10883 561229012031 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 561229012032 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 561229012033 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 561229012034 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 561229012035 putative acyl-acceptor binding pocket; other site 561229012036 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 561229012037 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 561229012038 CAP-like domain; other site 561229012039 active site 561229012040 primary dimer interface [polypeptide binding]; other site 561229012041 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 561229012042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229012043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229012044 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 561229012045 dimerization interface [polypeptide binding]; other site 561229012046 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 561229012047 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 561229012048 ATP binding site [chemical binding]; other site 561229012049 Mg2+ binding site [ion binding]; other site 561229012050 G-X-G motif; other site 561229012051 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 561229012052 anchoring element; other site 561229012053 dimer interface [polypeptide binding]; other site 561229012054 ATP binding site [chemical binding]; other site 561229012055 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 561229012056 active site 561229012057 metal binding site [ion binding]; metal-binding site 561229012058 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 561229012059 esterase YqiA; Provisional; Region: PRK11071 561229012060 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 561229012061 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 561229012062 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 561229012063 active site 561229012064 metal binding site [ion binding]; metal-binding site 561229012065 hexamer interface [polypeptide binding]; other site 561229012066 putative dehydrogenase; Provisional; Region: PRK11039 561229012067 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 561229012068 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 561229012069 dimer interface [polypeptide binding]; other site 561229012070 ADP-ribose binding site [chemical binding]; other site 561229012071 active site 561229012072 nudix motif; other site 561229012073 metal binding site [ion binding]; metal-binding site 561229012074 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 561229012075 hypothetical protein; Provisional; Region: PRK11653 561229012076 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 561229012077 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 561229012078 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 561229012079 putative active site [active] 561229012080 metal binding site [ion binding]; metal-binding site 561229012081 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 561229012082 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 561229012083 putative SAM binding site [chemical binding]; other site 561229012084 putative homodimer interface [polypeptide binding]; other site 561229012085 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 561229012086 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 561229012087 putative ligand binding site [chemical binding]; other site 561229012088 hypothetical protein; Reviewed; Region: PRK12497 561229012089 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 561229012090 dimer interface [polypeptide binding]; other site 561229012091 active site 561229012092 outer membrane lipoprotein; Provisional; Region: PRK11023 561229012093 BON domain; Region: BON; pfam04972 561229012094 BON domain; Region: BON; pfam04972 561229012095 Alginate lyase; Region: Alginate_lyase; pfam05426 561229012096 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 561229012097 Transglycosylase; Region: Transgly; cl17702 561229012098 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 561229012099 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 561229012100 conserved cys residue [active] 561229012101 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 561229012102 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 561229012103 putative active site [active] 561229012104 heme pocket [chemical binding]; other site 561229012105 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 561229012106 dimer interface [polypeptide binding]; other site 561229012107 phosphorylation site [posttranslational modification] 561229012108 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 561229012109 ATP binding site [chemical binding]; other site 561229012110 Mg2+ binding site [ion binding]; other site 561229012111 G-X-G motif; other site 561229012112 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 561229012113 active site 561229012114 phosphorylation site [posttranslational modification] 561229012115 intermolecular recognition site; other site 561229012116 dimerization interface [polypeptide binding]; other site 561229012117 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 561229012118 putative binding surface; other site 561229012119 active site 561229012120 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 561229012121 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 561229012122 FeS/SAM binding site; other site 561229012123 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 561229012124 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 561229012125 active site 561229012126 dimer interface [polypeptide binding]; other site 561229012127 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 561229012128 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 561229012129 active site 561229012130 FMN binding site [chemical binding]; other site 561229012131 substrate binding site [chemical binding]; other site 561229012132 3Fe-4S cluster binding site [ion binding]; other site 561229012133 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 561229012134 domain interface; other site 561229012135 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 561229012136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229012137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229012138 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229012139 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 561229012140 stringent starvation protein A; Provisional; Region: sspA; PRK09481 561229012141 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 561229012142 C-terminal domain interface [polypeptide binding]; other site 561229012143 putative GSH binding site (G-site) [chemical binding]; other site 561229012144 dimer interface [polypeptide binding]; other site 561229012145 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 561229012146 dimer interface [polypeptide binding]; other site 561229012147 N-terminal domain interface [polypeptide binding]; other site 561229012148 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 561229012149 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 561229012150 23S rRNA interface [nucleotide binding]; other site 561229012151 L3 interface [polypeptide binding]; other site 561229012152 Predicted ATPase [General function prediction only]; Region: COG1485 561229012153 hypothetical protein; Provisional; Region: PRK11677 561229012154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 561229012155 serine endoprotease; Provisional; Region: PRK10139 561229012156 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561229012157 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 561229012158 protein binding site [polypeptide binding]; other site 561229012159 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 561229012160 serine endoprotease; Provisional; Region: PRK10898 561229012161 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 561229012162 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 561229012163 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 561229012164 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 561229012165 hinge; other site 561229012166 active site 561229012167 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 561229012168 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 561229012169 anti sigma factor interaction site; other site 561229012170 regulatory phosphorylation site [posttranslational modification]; other site 561229012171 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 561229012172 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 561229012173 mce related protein; Region: MCE; pfam02470 561229012174 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 561229012175 conserved hypothetical integral membrane protein; Region: TIGR00056 561229012176 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 561229012177 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 561229012178 Walker A/P-loop; other site 561229012179 ATP binding site [chemical binding]; other site 561229012180 Q-loop/lid; other site 561229012181 ABC transporter signature motif; other site 561229012182 Walker B; other site 561229012183 D-loop; other site 561229012184 H-loop/switch region; other site 561229012185 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 561229012186 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561229012187 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 561229012188 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 561229012189 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 561229012190 putative active site [active] 561229012191 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 561229012192 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 561229012193 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 561229012194 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 561229012195 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 561229012196 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 561229012197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 561229012198 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 561229012199 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 561229012200 Walker A/P-loop; other site 561229012201 ATP binding site [chemical binding]; other site 561229012202 Q-loop/lid; other site 561229012203 ABC transporter signature motif; other site 561229012204 Walker B; other site 561229012205 D-loop; other site 561229012206 H-loop/switch region; other site 561229012207 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 561229012208 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 561229012209 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 561229012210 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 561229012211 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 561229012212 30S subunit binding site; other site 561229012213 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 561229012214 active site 561229012215 phosphorylation site [posttranslational modification] 561229012216 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 561229012217 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 561229012218 dimerization domain swap beta strand [polypeptide binding]; other site 561229012219 regulatory protein interface [polypeptide binding]; other site 561229012220 active site 561229012221 regulatory phosphorylation site [posttranslational modification]; other site 561229012222 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 561229012223 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 561229012224 peptidase PmbA; Provisional; Region: PRK11040 561229012225 hypothetical protein; Provisional; Region: PRK05255 561229012226 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 561229012227 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 561229012228 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 561229012229 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 561229012230 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 561229012231 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 561229012232 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229012233 efflux system membrane protein; Provisional; Region: PRK11594 561229012234 transcriptional regulator; Provisional; Region: PRK10632 561229012235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229012236 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229012237 putative effector binding pocket; other site 561229012238 dimerization interface [polypeptide binding]; other site 561229012239 protease TldD; Provisional; Region: tldD; PRK10735 561229012240 hypothetical protein; Provisional; Region: PRK10899 561229012241 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561229012242 ribonuclease G; Provisional; Region: PRK11712 561229012243 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 561229012244 homodimer interface [polypeptide binding]; other site 561229012245 oligonucleotide binding site [chemical binding]; other site 561229012246 Maf-like protein; Region: Maf; pfam02545 561229012247 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 561229012248 active site 561229012249 dimer interface [polypeptide binding]; other site 561229012250 rod shape-determining protein MreD; Provisional; Region: PRK11060 561229012251 rod shape-determining protein MreC; Region: mreC; TIGR00219 561229012252 rod shape-determining protein MreC; Region: MreC; pfam04085 561229012253 rod shape-determining protein MreB; Provisional; Region: PRK13927 561229012254 MreB and similar proteins; Region: MreB_like; cd10225 561229012255 nucleotide binding site [chemical binding]; other site 561229012256 Mg binding site [ion binding]; other site 561229012257 putative protofilament interaction site [polypeptide binding]; other site 561229012258 RodZ interaction site [polypeptide binding]; other site 561229012259 regulatory protein CsrD; Provisional; Region: PRK11059 561229012260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229012261 metal binding site [ion binding]; metal-binding site 561229012262 active site 561229012263 I-site; other site 561229012264 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 561229012265 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 561229012266 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 561229012267 NADP binding site [chemical binding]; other site 561229012268 dimer interface [polypeptide binding]; other site 561229012269 TMAO/DMSO reductase; Reviewed; Region: PRK05363 561229012270 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 561229012271 Moco binding site; other site 561229012272 metal coordination site [ion binding]; other site 561229012273 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 561229012274 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 561229012275 Dehydroquinase class II; Region: DHquinase_II; pfam01220 561229012276 active site 561229012277 trimer interface [polypeptide binding]; other site 561229012278 dimer interface [polypeptide binding]; other site 561229012279 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 561229012280 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 561229012281 carboxyltransferase (CT) interaction site; other site 561229012282 biotinylation site [posttranslational modification]; other site 561229012283 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 561229012284 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 561229012285 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 561229012286 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 561229012287 hypothetical protein; Provisional; Region: PRK10633 561229012288 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 561229012289 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 561229012290 Na binding site [ion binding]; other site 561229012291 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 561229012292 Methyltransferase domain; Region: Methyltransf_18; pfam12847 561229012293 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 561229012294 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 561229012295 FMN binding site [chemical binding]; other site 561229012296 active site 561229012297 catalytic residues [active] 561229012298 substrate binding site [chemical binding]; other site 561229012299 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 561229012300 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 561229012301 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 561229012302 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 561229012303 putative NAD(P) binding site [chemical binding]; other site 561229012304 putative substrate binding site [chemical binding]; other site 561229012305 catalytic Zn binding site [ion binding]; other site 561229012306 structural Zn binding site [ion binding]; other site 561229012307 dimer interface [polypeptide binding]; other site 561229012308 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 561229012309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229012310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229012311 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 561229012312 putative effector binding pocket; other site 561229012313 putative dimerization interface [polypeptide binding]; other site 561229012314 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 561229012315 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 561229012316 putative substrate translocation pore; other site 561229012317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229012318 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 561229012319 putative catalytic site [active] 561229012320 putative phosphate binding site [ion binding]; other site 561229012321 putative metal binding site [ion binding]; other site 561229012322 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229012323 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 561229012324 substrate binding pocket [chemical binding]; other site 561229012325 membrane-bound complex binding site; other site 561229012326 hinge residues; other site 561229012327 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229012328 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 561229012329 dimer interface [polypeptide binding]; other site 561229012330 conserved gate region; other site 561229012331 putative PBP binding loops; other site 561229012332 ABC-ATPase subunit interface; other site 561229012333 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 561229012334 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 561229012335 substrate binding pocket [chemical binding]; other site 561229012336 membrane-bound complex binding site; other site 561229012337 hinge residues; other site 561229012338 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 561229012339 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 561229012340 conserved gate region; other site 561229012341 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 561229012342 dimer interface [polypeptide binding]; other site 561229012343 conserved gate region; other site 561229012344 putative PBP binding loops; other site 561229012345 ABC-ATPase subunit interface; other site 561229012346 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 561229012347 dimer interface [polypeptide binding]; other site 561229012348 conserved gate region; other site 561229012349 putative PBP binding loops; other site 561229012350 ABC-ATPase subunit interface; other site 561229012351 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 561229012352 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 561229012353 Walker A/P-loop; other site 561229012354 ATP binding site [chemical binding]; other site 561229012355 Q-loop/lid; other site 561229012356 ABC transporter signature motif; other site 561229012357 Walker B; other site 561229012358 D-loop; other site 561229012359 H-loop/switch region; other site 561229012360 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 561229012361 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 561229012362 purine monophosphate binding site [chemical binding]; other site 561229012363 dimer interface [polypeptide binding]; other site 561229012364 putative catalytic residues [active] 561229012365 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 561229012366 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 561229012367 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 561229012368 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 561229012369 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 561229012370 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 561229012371 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 561229012372 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 561229012373 IHF dimer interface [polypeptide binding]; other site 561229012374 IHF - DNA interface [nucleotide binding]; other site 561229012375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 561229012376 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 561229012377 Active_site [active] 561229012378 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 561229012379 substrate binding site [chemical binding]; other site 561229012380 active site 561229012381 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 561229012382 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 561229012383 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 561229012384 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 561229012385 putative NADH binding site [chemical binding]; other site 561229012386 putative active site [active] 561229012387 nudix motif; other site 561229012388 putative metal binding site [ion binding]; other site 561229012389 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 561229012390 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 561229012391 ThiC-associated domain; Region: ThiC-associated; pfam13667 561229012392 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 561229012393 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 561229012394 thiamine phosphate binding site [chemical binding]; other site 561229012395 active site 561229012396 pyrophosphate binding site [ion binding]; other site 561229012397 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 561229012398 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 561229012399 ATP binding site [chemical binding]; other site 561229012400 substrate interface [chemical binding]; other site 561229012401 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 561229012402 thiS-thiF/thiG interaction site; other site 561229012403 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 561229012404 ThiS interaction site; other site 561229012405 putative active site [active] 561229012406 tetramer interface [polypeptide binding]; other site 561229012407 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 561229012408 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 561229012409 FeS/SAM binding site; other site 561229012410 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 561229012411 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 561229012412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229012413 DNA-binding site [nucleotide binding]; DNA binding site 561229012414 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 561229012415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229012416 homodimer interface [polypeptide binding]; other site 561229012417 catalytic residue [active] 561229012418 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 561229012419 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 561229012420 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 561229012421 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 561229012422 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 561229012423 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 561229012424 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 561229012425 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 561229012426 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 561229012427 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 561229012428 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 561229012429 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 561229012430 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 561229012431 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 561229012432 DNA binding site [nucleotide binding] 561229012433 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 561229012434 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 561229012435 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 561229012436 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 561229012437 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 561229012438 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 561229012439 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 561229012440 RPB3 interaction site [polypeptide binding]; other site 561229012441 RPB1 interaction site [polypeptide binding]; other site 561229012442 RPB11 interaction site [polypeptide binding]; other site 561229012443 RPB10 interaction site [polypeptide binding]; other site 561229012444 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 561229012445 core dimer interface [polypeptide binding]; other site 561229012446 peripheral dimer interface [polypeptide binding]; other site 561229012447 L10 interface [polypeptide binding]; other site 561229012448 L11 interface [polypeptide binding]; other site 561229012449 putative EF-Tu interaction site [polypeptide binding]; other site 561229012450 putative EF-G interaction site [polypeptide binding]; other site 561229012451 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 561229012452 23S rRNA interface [nucleotide binding]; other site 561229012453 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 561229012454 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 561229012455 mRNA/rRNA interface [nucleotide binding]; other site 561229012456 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 561229012457 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 561229012458 23S rRNA interface [nucleotide binding]; other site 561229012459 L7/L12 interface [polypeptide binding]; other site 561229012460 putative thiostrepton binding site; other site 561229012461 L25 interface [polypeptide binding]; other site 561229012462 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 561229012463 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 561229012464 putative homodimer interface [polypeptide binding]; other site 561229012465 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 561229012466 heterodimer interface [polypeptide binding]; other site 561229012467 homodimer interface [polypeptide binding]; other site 561229012468 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 561229012469 elongation factor Tu; Reviewed; Region: PRK00049 561229012470 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 561229012471 G1 box; other site 561229012472 GEF interaction site [polypeptide binding]; other site 561229012473 GTP/Mg2+ binding site [chemical binding]; other site 561229012474 Switch I region; other site 561229012475 G2 box; other site 561229012476 G3 box; other site 561229012477 Switch II region; other site 561229012478 G4 box; other site 561229012479 G5 box; other site 561229012480 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 561229012481 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 561229012482 Antibiotic Binding Site [chemical binding]; other site 561229012483 pantothenate kinase; Provisional; Region: PRK05439 561229012484 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 561229012485 ATP-binding site [chemical binding]; other site 561229012486 CoA-binding site [chemical binding]; other site 561229012487 Mg2+-binding site [ion binding]; other site 561229012488 Biotin operon repressor [Transcription]; Region: BirA; COG1654 561229012489 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 561229012490 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 561229012491 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 561229012492 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 561229012493 FAD binding domain; Region: FAD_binding_4; pfam01565 561229012494 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 561229012495 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 561229012496 potassium transporter; Provisional; Region: PRK10750 561229012497 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 561229012498 hypothetical protein; Provisional; Region: PRK11568 561229012499 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 561229012500 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 561229012501 proline dipeptidase; Provisional; Region: PRK13607 561229012502 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 561229012503 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 561229012504 active site 561229012505 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 561229012506 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 561229012507 substrate binding site [chemical binding]; other site 561229012508 oxyanion hole (OAH) forming residues; other site 561229012509 trimer interface [polypeptide binding]; other site 561229012510 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 561229012511 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561229012512 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 561229012513 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 561229012514 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 561229012515 dimer interface [polypeptide binding]; other site 561229012516 active site 561229012517 Predicted transporter component [General function prediction only]; Region: COG2391 561229012518 Sulphur transport; Region: Sulf_transp; pfam04143 561229012519 Predicted transporter component [General function prediction only]; Region: COG2391 561229012520 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 561229012521 FMN reductase; Validated; Region: fre; PRK08051 561229012522 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 561229012523 FAD binding pocket [chemical binding]; other site 561229012524 FAD binding motif [chemical binding]; other site 561229012525 phosphate binding motif [ion binding]; other site 561229012526 beta-alpha-beta structure motif; other site 561229012527 NAD binding pocket [chemical binding]; other site 561229012528 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 561229012529 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 561229012530 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 561229012531 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 561229012532 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 561229012533 dimer interface [polypeptide binding]; other site 561229012534 active site 561229012535 aspartate-rich active site metal binding site; other site 561229012536 allosteric magnesium binding site [ion binding]; other site 561229012537 Schiff base residues; other site 561229012538 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 561229012539 active site 561229012540 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 561229012541 sec-independent translocase; Provisional; Region: PRK01770 561229012542 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 561229012543 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 561229012544 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 561229012545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 561229012546 SCP-2 sterol transfer family; Region: SCP2; pfam02036 561229012547 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 561229012548 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 561229012549 S-adenosylmethionine binding site [chemical binding]; other site 561229012550 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 561229012551 RmuC family; Region: RmuC; pfam02646 561229012552 argininosuccinate lyase; Provisional; Region: PRK04833 561229012553 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 561229012554 active sites [active] 561229012555 tetramer interface [polypeptide binding]; other site 561229012556 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 561229012557 nucleotide binding site [chemical binding]; other site 561229012558 N-acetyl-L-glutamate binding site [chemical binding]; other site 561229012559 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 561229012560 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 561229012561 acetylornithine deacetylase; Provisional; Region: PRK05111 561229012562 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 561229012563 metal binding site [ion binding]; metal-binding site 561229012564 putative dimer interface [polypeptide binding]; other site 561229012565 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 561229012566 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 561229012567 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 561229012568 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 561229012569 ATP binding site [chemical binding]; other site 561229012570 substrate interface [chemical binding]; other site 561229012571 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 561229012572 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 561229012573 ATP binding site [chemical binding]; other site 561229012574 substrate interface [chemical binding]; other site 561229012575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229012576 Walker A/P-loop; other site 561229012577 ATP binding site [chemical binding]; other site 561229012578 Q-loop/lid; other site 561229012579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229012580 Q-loop/lid; other site 561229012581 ABC transporter signature motif; other site 561229012582 Walker B; other site 561229012583 D-loop; other site 561229012584 H-loop/switch region; other site 561229012585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229012586 ABC transporter; Region: ABC_tran; pfam00005 561229012587 ABC transporter signature motif; other site 561229012588 Walker B; other site 561229012589 D-loop; other site 561229012590 H-loop/switch region; other site 561229012591 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 561229012592 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 561229012593 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 561229012594 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 561229012595 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 561229012596 uridine phosphorylase; Provisional; Region: PRK11178 561229012597 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 561229012598 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 561229012599 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 561229012600 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 561229012601 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 561229012602 THF binding site; other site 561229012603 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 561229012604 substrate binding site [chemical binding]; other site 561229012605 THF binding site; other site 561229012606 zinc-binding site [ion binding]; other site 561229012607 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 561229012608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229012609 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 561229012610 putative dimerization interface [polypeptide binding]; other site 561229012611 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 561229012612 EamA-like transporter family; Region: EamA; pfam00892 561229012613 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 561229012614 serine acetyltransferase; Provisional; Region: cysE; PRK11132 561229012615 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 561229012616 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 561229012617 trimer interface [polypeptide binding]; other site 561229012618 active site 561229012619 substrate binding site [chemical binding]; other site 561229012620 CoA binding site [chemical binding]; other site 561229012621 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 561229012622 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 561229012623 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 561229012624 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 561229012625 SecA binding site; other site 561229012626 Preprotein binding site; other site 561229012627 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 561229012628 active site residue [active] 561229012629 AmiB activator; Provisional; Region: PRK11637 561229012630 Peptidase family M23; Region: Peptidase_M23; pfam01551 561229012631 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 561229012632 NodB motif; other site 561229012633 putative active site [active] 561229012634 putative catalytic site [active] 561229012635 Zn binding site [ion binding]; other site 561229012636 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 561229012637 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 561229012638 NAD(P) binding site [chemical binding]; other site 561229012639 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 561229012640 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 561229012641 substrate-cofactor binding pocket; other site 561229012642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229012643 catalytic residue [active] 561229012644 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 561229012645 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 561229012646 NADP binding site [chemical binding]; other site 561229012647 homopentamer interface [polypeptide binding]; other site 561229012648 substrate binding site [chemical binding]; other site 561229012649 active site 561229012650 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561229012651 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 561229012652 putative active site [active] 561229012653 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561229012654 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 561229012655 putative active site [active] 561229012656 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561229012657 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 561229012658 putative active site [active] 561229012659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229012660 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 561229012661 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 561229012662 O-Antigen ligase; Region: Wzy_C; pfam04932 561229012663 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 561229012664 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 561229012665 putative active site [active] 561229012666 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 561229012667 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 561229012668 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 561229012669 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 561229012670 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 561229012671 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 561229012672 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 561229012673 putative metal binding site; other site 561229012674 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 561229012675 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 561229012676 active site 561229012677 (T/H)XGH motif; other site 561229012678 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 561229012679 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 561229012680 DNA binding site [nucleotide binding] 561229012681 catalytic residue [active] 561229012682 H2TH interface [polypeptide binding]; other site 561229012683 putative catalytic residues [active] 561229012684 turnover-facilitating residue; other site 561229012685 intercalation triad [nucleotide binding]; other site 561229012686 8OG recognition residue [nucleotide binding]; other site 561229012687 putative reading head residues; other site 561229012688 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 561229012689 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 561229012690 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 561229012691 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 561229012692 hypothetical protein; Reviewed; Region: PRK00024 561229012693 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 561229012694 MPN+ (JAMM) motif; other site 561229012695 Zinc-binding site [ion binding]; other site 561229012696 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 561229012697 Flavoprotein; Region: Flavoprotein; pfam02441 561229012698 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 561229012699 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 561229012700 trimer interface [polypeptide binding]; other site 561229012701 active site 561229012702 division inhibitor protein; Provisional; Region: slmA; PRK09480 561229012703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 561229012704 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 561229012705 active site 561229012706 ribonuclease PH; Reviewed; Region: rph; PRK00173 561229012707 Ribonuclease PH; Region: RNase_PH_bact; cd11362 561229012708 hexamer interface [polypeptide binding]; other site 561229012709 active site 561229012710 Predicted membrane protein [Function unknown]; Region: COG2149 561229012711 Domain of unknown function (DUF202); Region: DUF202; pfam02656 561229012712 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 561229012713 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 561229012714 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 561229012715 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 561229012716 active site 561229012717 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 561229012718 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229012719 Walker A/P-loop; other site 561229012720 ATP binding site [chemical binding]; other site 561229012721 Q-loop/lid; other site 561229012722 ABC transporter signature motif; other site 561229012723 Walker B; other site 561229012724 D-loop; other site 561229012725 H-loop/switch region; other site 561229012726 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561229012727 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229012728 Walker A/P-loop; other site 561229012729 ATP binding site [chemical binding]; other site 561229012730 Q-loop/lid; other site 561229012731 ABC transporter signature motif; other site 561229012732 Walker B; other site 561229012733 D-loop; other site 561229012734 H-loop/switch region; other site 561229012735 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 561229012736 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 561229012737 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 561229012738 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 561229012739 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 561229012740 dimer interface [polypeptide binding]; other site 561229012741 conserved gate region; other site 561229012742 putative PBP binding loops; other site 561229012743 ABC-ATPase subunit interface; other site 561229012744 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 561229012745 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 561229012746 dimer interface [polypeptide binding]; other site 561229012747 conserved gate region; other site 561229012748 putative PBP binding loops; other site 561229012749 ABC-ATPase subunit interface; other site 561229012750 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 561229012751 homodimer interface [polypeptide binding]; other site 561229012752 homotetramer interface [polypeptide binding]; other site 561229012753 active site pocket [active] 561229012754 cleavage site 561229012755 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 561229012756 SxDxEG motif; other site 561229012757 active site 561229012758 metal binding site [ion binding]; metal-binding site 561229012759 homopentamer interface [polypeptide binding]; other site 561229012760 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 561229012761 catalytic nucleophile [active] 561229012762 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229012763 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 561229012764 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 561229012765 HlyD family secretion protein; Region: HlyD_3; pfam13437 561229012766 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 561229012767 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 561229012768 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 561229012769 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 561229012770 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 561229012771 Walker A/P-loop; other site 561229012772 ATP binding site [chemical binding]; other site 561229012773 Q-loop/lid; other site 561229012774 ABC transporter signature motif; other site 561229012775 Walker B; other site 561229012776 D-loop; other site 561229012777 H-loop/switch region; other site 561229012778 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 561229012779 Beta-lactamase; Region: Beta-lactamase; pfam00144 561229012780 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229012781 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229012782 Walker A/P-loop; other site 561229012783 ATP binding site [chemical binding]; other site 561229012784 Q-loop/lid; other site 561229012785 ABC transporter signature motif; other site 561229012786 Walker B; other site 561229012787 D-loop; other site 561229012788 H-loop/switch region; other site 561229012789 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 561229012790 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229012791 Walker A/P-loop; other site 561229012792 ATP binding site [chemical binding]; other site 561229012793 Q-loop/lid; other site 561229012794 ABC transporter signature motif; other site 561229012795 Walker B; other site 561229012796 D-loop; other site 561229012797 H-loop/switch region; other site 561229012798 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229012799 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 561229012800 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 561229012801 dimer interface [polypeptide binding]; other site 561229012802 conserved gate region; other site 561229012803 putative PBP binding loops; other site 561229012804 ABC-ATPase subunit interface; other site 561229012805 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229012806 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 561229012807 putative PBP binding loops; other site 561229012808 dimer interface [polypeptide binding]; other site 561229012809 ABC-ATPase subunit interface; other site 561229012810 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229012811 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 561229012812 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 561229012813 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 561229012814 active site 561229012815 dimer interface [polypeptide binding]; other site 561229012816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229012817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229012818 LysR substrate binding domain; Region: LysR_substrate; pfam03466 561229012819 dimerization interface [polypeptide binding]; other site 561229012820 hypothetical protein; Provisional; Region: PRK11820 561229012821 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 561229012822 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 561229012823 integrase; Provisional; Region: PRK09692 561229012824 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 561229012825 active site 561229012826 Int/Topo IB signature motif; other site 561229012827 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 561229012828 AntA/AntB antirepressor; Region: AntA; pfam08346 561229012829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 561229012830 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 561229012831 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 561229012832 active site 561229012833 metal binding site [ion binding]; metal-binding site 561229012834 interdomain interaction site; other site 561229012835 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 561229012836 virion protein; Provisional; Region: V; PHA02564 561229012837 Transposase; Region: HTH_Tnp_1; cl17663 561229012838 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229012839 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229012840 Abi-like protein; Region: Abi_2; cl01988 561229012841 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 561229012842 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229012843 Part of AAA domain; Region: AAA_19; pfam13245 561229012844 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 561229012845 AAA domain; Region: AAA_12; pfam13087 561229012846 agmatine deiminase; Provisional; Region: PRK13551 561229012847 agmatine deiminase; Region: agmatine_aguA; TIGR03380 561229012848 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 561229012849 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 561229012850 putative active site; other site 561229012851 catalytic triad [active] 561229012852 putative dimer interface [polypeptide binding]; other site 561229012853 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 561229012854 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 561229012855 active site 561229012856 ADP/pyrophosphate binding site [chemical binding]; other site 561229012857 dimerization interface [polypeptide binding]; other site 561229012858 allosteric effector site; other site 561229012859 fructose-1,6-bisphosphate binding site; other site 561229012860 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 561229012861 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 561229012862 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 561229012863 non-specific DNA binding site [nucleotide binding]; other site 561229012864 salt bridge; other site 561229012865 sequence-specific DNA binding site [nucleotide binding]; other site 561229012866 2TM domain; Region: 2TM; pfam13239 561229012867 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_26; cd04685 561229012868 nudix motif; other site 561229012869 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 561229012870 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561229012871 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561229012872 Phage Tail Collar Domain; Region: Collar; pfam07484 561229012873 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 561229012874 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561229012875 Phage Tail Collar Domain; Region: Collar; pfam07484 561229012876 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 561229012877 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561229012878 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 561229012879 Phage Tail Collar Domain; Region: Collar; pfam07484 561229012880 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 561229012881 dimer interface [polypeptide binding]; other site 561229012882 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 561229012883 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 561229012884 active site 561229012885 intermolecular recognition site; other site 561229012886 dimerization interface [polypeptide binding]; other site 561229012887 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 561229012888 DNA binding site [nucleotide binding] 561229012889 two-component sensor protein; Provisional; Region: cpxA; PRK09470 561229012890 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 561229012891 dimerization interface [polypeptide binding]; other site 561229012892 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 561229012893 dimer interface [polypeptide binding]; other site 561229012894 phosphorylation site [posttranslational modification] 561229012895 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 561229012896 ATP binding site [chemical binding]; other site 561229012897 Mg2+ binding site [ion binding]; other site 561229012898 G-X-G motif; other site 561229012899 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 561229012900 topology modulation protein; Reviewed; Region: PRK08118 561229012901 AAA domain; Region: AAA_17; pfam13207 561229012902 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 561229012903 Predicted permeases [General function prediction only]; Region: COG0679 561229012904 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 561229012905 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 561229012906 putative active site [active] 561229012907 catalytic site [active] 561229012908 putative metal binding site [ion binding]; other site 561229012909 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 561229012910 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 561229012911 Walker A/P-loop; other site 561229012912 ATP binding site [chemical binding]; other site 561229012913 Q-loop/lid; other site 561229012914 ABC transporter signature motif; other site 561229012915 Walker B; other site 561229012916 D-loop; other site 561229012917 H-loop/switch region; other site 561229012918 TOBE domain; Region: TOBE_2; pfam08402 561229012919 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229012920 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 561229012921 dimer interface [polypeptide binding]; other site 561229012922 conserved gate region; other site 561229012923 putative PBP binding loops; other site 561229012924 ABC-ATPase subunit interface; other site 561229012925 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 561229012926 conserved gate region; other site 561229012927 dimer interface [polypeptide binding]; other site 561229012928 putative PBP binding loops; other site 561229012929 ABC-ATPase subunit interface; other site 561229012930 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 561229012931 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 561229012932 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229012933 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229012934 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 561229012935 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229012936 dimer interface [polypeptide binding]; other site 561229012937 putative CheW interface [polypeptide binding]; other site 561229012938 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229012939 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229012940 HAMP domain; Region: HAMP; pfam00672 561229012941 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229012942 dimer interface [polypeptide binding]; other site 561229012943 putative CheW interface [polypeptide binding]; other site 561229012944 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 561229012945 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 561229012946 HAMP domain; Region: HAMP; pfam00672 561229012947 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229012948 dimer interface [polypeptide binding]; other site 561229012949 putative CheW interface [polypeptide binding]; other site 561229012950 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229012951 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 561229012952 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 561229012953 catalytic residue [active] 561229012954 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 561229012955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 561229012956 dimer interface [polypeptide binding]; other site 561229012957 putative CheW interface [polypeptide binding]; other site 561229012958 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 561229012959 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 561229012960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229012961 homodimer interface [polypeptide binding]; other site 561229012962 catalytic residue [active] 561229012963 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 561229012964 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 561229012965 Walker A/P-loop; other site 561229012966 ATP binding site [chemical binding]; other site 561229012967 Q-loop/lid; other site 561229012968 ABC transporter signature motif; other site 561229012969 Walker B; other site 561229012970 D-loop; other site 561229012971 H-loop/switch region; other site 561229012972 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 561229012973 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 561229012974 Walker A/P-loop; other site 561229012975 ATP binding site [chemical binding]; other site 561229012976 Q-loop/lid; other site 561229012977 ABC transporter signature motif; other site 561229012978 Walker B; other site 561229012979 D-loop; other site 561229012980 H-loop/switch region; other site 561229012981 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 561229012982 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 561229012983 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 561229012984 TM-ABC transporter signature motif; other site 561229012985 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229012986 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 561229012987 TM-ABC transporter signature motif; other site 561229012988 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 561229012989 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 561229012990 dimerization interface [polypeptide binding]; other site 561229012991 ligand binding site [chemical binding]; other site 561229012992 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 561229012993 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 561229012994 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 561229012995 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 561229012996 DNA binding residues [nucleotide binding] 561229012997 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 561229012998 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 561229012999 cell division protein FtsE; Provisional; Region: PRK10908 561229013000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229013001 Walker A/P-loop; other site 561229013002 ATP binding site [chemical binding]; other site 561229013003 Q-loop/lid; other site 561229013004 ABC transporter signature motif; other site 561229013005 Walker B; other site 561229013006 D-loop; other site 561229013007 H-loop/switch region; other site 561229013008 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 561229013009 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 561229013010 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 561229013011 P loop; other site 561229013012 GTP binding site [chemical binding]; other site 561229013013 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 561229013014 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 561229013015 S-adenosylmethionine binding site [chemical binding]; other site 561229013016 hypothetical protein; Provisional; Region: PRK10910 561229013017 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 561229013018 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 561229013019 CPxP motif; other site 561229013020 hypothetical protein; Provisional; Region: PRK11212 561229013021 hypothetical protein; Provisional; Region: PRK11615 561229013022 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 561229013023 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229013024 putative substrate translocation pore; other site 561229013025 inner membrane protein YhjD; Region: TIGR00766 561229013026 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 561229013027 active site 1 [active] 561229013028 dimer interface [polypeptide binding]; other site 561229013029 hexamer interface [polypeptide binding]; other site 561229013030 active site 2 [active] 561229013031 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561229013032 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 561229013033 substrate binding site [chemical binding]; other site 561229013034 ATP binding site [chemical binding]; other site 561229013035 Virulence protein [General function prediction only]; Region: COG3943 561229013036 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 561229013037 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 561229013038 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 561229013039 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 561229013040 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 561229013041 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 561229013042 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; pfam01270 561229013043 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 561229013044 TPR repeat; Region: TPR_11; pfam13414 561229013045 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 561229013046 TPR motif; other site 561229013047 binding surface 561229013048 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 561229013049 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 561229013050 cellulose synthase regulator protein; Provisional; Region: PRK11114 561229013051 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 561229013052 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 561229013053 DXD motif; other site 561229013054 PilZ domain; Region: PilZ; pfam07238 561229013055 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 561229013056 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 561229013057 P-loop; other site 561229013058 Magnesium ion binding site [ion binding]; other site 561229013059 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 561229013060 non-specific DNA binding site [nucleotide binding]; other site 561229013061 salt bridge; other site 561229013062 sequence-specific DNA binding site [nucleotide binding]; other site 561229013063 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 561229013064 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 561229013065 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 561229013066 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 561229013067 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 561229013068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229013069 Walker A/P-loop; other site 561229013070 ATP binding site [chemical binding]; other site 561229013071 Q-loop/lid; other site 561229013072 ABC transporter signature motif; other site 561229013073 Walker B; other site 561229013074 D-loop; other site 561229013075 H-loop/switch region; other site 561229013076 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 561229013077 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 561229013078 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 561229013079 Walker A/P-loop; other site 561229013080 ATP binding site [chemical binding]; other site 561229013081 Q-loop/lid; other site 561229013082 ABC transporter signature motif; other site 561229013083 Walker B; other site 561229013084 D-loop; other site 561229013085 H-loop/switch region; other site 561229013086 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 561229013087 dipeptide transporter; Provisional; Region: PRK10913 561229013088 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 561229013089 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 561229013090 dimer interface [polypeptide binding]; other site 561229013091 conserved gate region; other site 561229013092 putative PBP binding loops; other site 561229013093 ABC-ATPase subunit interface; other site 561229013094 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 561229013095 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 561229013096 dimer interface [polypeptide binding]; other site 561229013097 conserved gate region; other site 561229013098 putative PBP binding loops; other site 561229013099 ABC-ATPase subunit interface; other site 561229013100 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 561229013101 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 561229013102 peptide binding site [polypeptide binding]; other site 561229013103 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 561229013104 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 561229013105 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 561229013106 putative active site [active] 561229013107 putative NTP binding site [chemical binding]; other site 561229013108 putative nucleic acid binding site [nucleotide binding]; other site 561229013109 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 561229013110 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 561229013111 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 561229013112 active site 561229013113 phosphorylation site [posttranslational modification] 561229013114 intermolecular recognition site; other site 561229013115 dimerization interface [polypeptide binding]; other site 561229013116 sensory histidine kinase DcuS; Provisional; Region: PRK11086 561229013117 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 561229013118 ATP binding site [chemical binding]; other site 561229013119 Mg2+ binding site [ion binding]; other site 561229013120 G-X-G motif; other site 561229013121 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 561229013122 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 561229013123 transmembrane helices; other site 561229013124 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561229013125 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 561229013126 putative dimer interface [polypeptide binding]; other site 561229013127 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 561229013128 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 561229013129 putative dimer interface [polypeptide binding]; other site 561229013130 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 561229013131 metabolite-proton symporter; Region: 2A0106; TIGR00883 561229013132 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 561229013133 putative substrate translocation pore; other site 561229013134 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 561229013135 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 561229013136 Transcriptional regulators [Transcription]; Region: FadR; COG2186 561229013137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 561229013138 DNA-binding site [nucleotide binding]; DNA binding site 561229013139 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 561229013140 mannonate dehydratase; Provisional; Region: PRK03906 561229013141 mannonate dehydratase; Region: uxuA; TIGR00695 561229013142 sugar phosphate phosphatase; Provisional; Region: PRK10513 561229013143 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 561229013144 active site 561229013145 motif I; other site 561229013146 motif II; other site 561229013147 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 561229013148 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 561229013149 Ligand Binding Site [chemical binding]; other site 561229013150 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 561229013151 universal stress protein UspB; Provisional; Region: PRK04960 561229013152 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 561229013153 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 561229013154 Predicted flavoproteins [General function prediction only]; Region: COG2081 561229013155 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 561229013156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229013157 Walker A/P-loop; other site 561229013158 ATP binding site [chemical binding]; other site 561229013159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 561229013160 Q-loop/lid; other site 561229013161 ABC transporter signature motif; other site 561229013162 Walker B; other site 561229013163 D-loop; other site 561229013164 H-loop/switch region; other site 561229013165 TIGR02646 family protein; Region: TIGR02646 561229013166 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561229013167 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 561229013168 putative catalytic site [active] 561229013169 putative metal binding site [ion binding]; other site 561229013170 putative phosphate binding site [ion binding]; other site 561229013171 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 561229013172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229013173 Walker A/P-loop; other site 561229013174 ATP binding site [chemical binding]; other site 561229013175 Q-loop/lid; other site 561229013176 ABC transporter signature motif; other site 561229013177 Walker B; other site 561229013178 D-loop; other site 561229013179 H-loop/switch region; other site 561229013180 TOBE domain; Region: TOBE_2; pfam08402 561229013181 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229013182 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 561229013183 conserved gate region; other site 561229013184 dimer interface [polypeptide binding]; other site 561229013185 putative PBP binding loops; other site 561229013186 ABC-ATPase subunit interface; other site 561229013187 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 561229013188 putative PBP binding loops; other site 561229013189 ABC-ATPase subunit interface; other site 561229013190 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 561229013191 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 561229013192 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 561229013193 nucleotide binding site [chemical binding]; other site 561229013194 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 561229013195 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 561229013196 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 561229013197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 561229013198 catalytic residue [active] 561229013199 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 561229013200 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229013201 Coenzyme A binding pocket [chemical binding]; other site 561229013202 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 561229013203 active site 561229013204 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561229013205 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 561229013206 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 561229013207 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 561229013208 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 561229013209 dimer interface [polypeptide binding]; other site 561229013210 conserved gate region; other site 561229013211 putative PBP binding loops; other site 561229013212 ABC-ATPase subunit interface; other site 561229013213 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 561229013214 dimer interface [polypeptide binding]; other site 561229013215 putative PBP binding loops; other site 561229013216 ABC-ATPase subunit interface; other site 561229013217 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 561229013218 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 561229013219 catalytic core [active] 561229013220 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 561229013221 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 561229013222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 561229013223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 561229013224 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 561229013225 putative effector binding pocket; other site 561229013226 dimerization interface [polypeptide binding]; other site 561229013227 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 561229013228 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229013229 putative substrate translocation pore; other site 561229013230 Major Facilitator Superfamily; Region: MFS_1; pfam07690 561229013231 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 561229013232 short chain dehydrogenase; Provisional; Region: PRK09072 561229013233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 561229013234 NAD(P) binding site [chemical binding]; other site 561229013235 active site 561229013236 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 561229013237 TPR motif; other site 561229013238 TPR repeat; Region: TPR_11; pfam13414 561229013239 binding surface 561229013240 phosphoethanolamine transferase; Provisional; Region: PRK11560 561229013241 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 561229013242 Sulfatase; Region: Sulfatase; pfam00884 561229013243 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 561229013244 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; cl03295 561229013245 nucleotide binding pocket [chemical binding]; other site 561229013246 K-X-D-G motif; other site 561229013247 catalytic site [active] 561229013248 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 561229013249 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 561229013250 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 561229013251 catalytic site [active] 561229013252 G-X2-G-X-G-K; other site 561229013253 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 561229013254 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 561229013255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 561229013256 Zn2+ binding site [ion binding]; other site 561229013257 Mg2+ binding site [ion binding]; other site 561229013258 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 561229013259 synthetase active site [active] 561229013260 NTP binding site [chemical binding]; other site 561229013261 metal binding site [ion binding]; metal-binding site 561229013262 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 561229013263 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 561229013264 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 561229013265 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 561229013266 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 561229013267 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 561229013268 Y-family of DNA polymerases; Region: PolY; cl12025 561229013269 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 561229013270 generic binding surface II; other site 561229013271 ssDNA binding site; other site 561229013272 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 561229013273 ATP binding site [chemical binding]; other site 561229013274 putative Mg++ binding site [ion binding]; other site 561229013275 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 561229013276 nucleotide binding region [chemical binding]; other site 561229013277 ATP-binding site [chemical binding]; other site 561229013278 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 561229013279 AsmA family; Region: AsmA; pfam05170 561229013280 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 561229013281 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 561229013282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229013283 Coenzyme A binding pocket [chemical binding]; other site 561229013284 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 561229013285 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 561229013286 putative active site [active] 561229013287 dimerization interface [polypeptide binding]; other site 561229013288 putative tRNAtyr binding site [nucleotide binding]; other site 561229013289 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 561229013290 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 561229013291 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 561229013292 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 561229013293 G1 box; other site 561229013294 putative GEF interaction site [polypeptide binding]; other site 561229013295 GTP/Mg2+ binding site [chemical binding]; other site 561229013296 Switch I region; other site 561229013297 G2 box; other site 561229013298 G3 box; other site 561229013299 Switch II region; other site 561229013300 G4 box; other site 561229013301 G5 box; other site 561229013302 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 561229013303 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 561229013304 glutamine synthetase; Provisional; Region: glnA; PRK09469 561229013305 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 561229013306 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 561229013307 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 561229013308 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 561229013309 dimer interface [polypeptide binding]; other site 561229013310 phosphorylation site [posttranslational modification] 561229013311 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 561229013312 ATP binding site [chemical binding]; other site 561229013313 Mg2+ binding site [ion binding]; other site 561229013314 G-X-G motif; other site 561229013315 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 561229013316 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 561229013317 active site 561229013318 phosphorylation site [posttranslational modification] 561229013319 intermolecular recognition site; other site 561229013320 dimerization interface [polypeptide binding]; other site 561229013321 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 561229013322 Walker A motif; other site 561229013323 ATP binding site [chemical binding]; other site 561229013324 Walker B motif; other site 561229013325 arginine finger; other site 561229013326 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 561229013327 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 561229013328 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 561229013329 FeS/SAM binding site; other site 561229013330 HemN C-terminal domain; Region: HemN_C; pfam06969 561229013331 Der GTPase activator; Provisional; Region: PRK05244 561229013332 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 561229013333 G1 box; other site 561229013334 GTP/Mg2+ binding site [chemical binding]; other site 561229013335 Switch I region; other site 561229013336 G2 box; other site 561229013337 G3 box; other site 561229013338 Switch II region; other site 561229013339 G4 box; other site 561229013340 G5 box; other site 561229013341 DNA polymerase I; Provisional; Region: PRK05755 561229013342 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 561229013343 active site 561229013344 metal binding site 1 [ion binding]; metal-binding site 561229013345 putative 5' ssDNA interaction site; other site 561229013346 metal binding site 3; metal-binding site 561229013347 metal binding site 2 [ion binding]; metal-binding site 561229013348 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 561229013349 putative DNA binding site [nucleotide binding]; other site 561229013350 putative metal binding site [ion binding]; other site 561229013351 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 561229013352 active site 561229013353 catalytic site [active] 561229013354 substrate binding site [chemical binding]; other site 561229013355 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 561229013356 active site 561229013357 DNA binding site [nucleotide binding] 561229013358 catalytic site [active] 561229013359 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 561229013360 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 561229013361 catalytic residues [active] 561229013362 hinge region; other site 561229013363 alpha helical domain; other site 561229013364 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 561229013365 serine/threonine protein kinase; Provisional; Region: PRK11768 561229013366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 561229013367 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 561229013368 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 561229013369 GTP binding site; other site 561229013370 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 561229013371 Walker A motif; other site 561229013372 transcriptional repressor RbsR; Provisional; Region: PRK10423 561229013373 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 561229013374 DNA binding site [nucleotide binding] 561229013375 domain linker motif; other site 561229013376 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 561229013377 dimerization interface [polypeptide binding]; other site 561229013378 ligand binding site [chemical binding]; other site 561229013379 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 561229013380 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 561229013381 substrate binding site [chemical binding]; other site 561229013382 dimer interface [polypeptide binding]; other site 561229013383 ATP binding site [chemical binding]; other site 561229013384 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 561229013385 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 561229013386 ligand binding site [chemical binding]; other site 561229013387 dimerization interface [polypeptide binding]; other site 561229013388 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 561229013389 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 561229013390 TM-ABC transporter signature motif; other site 561229013391 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 561229013392 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 561229013393 Walker A/P-loop; other site 561229013394 ATP binding site [chemical binding]; other site 561229013395 Q-loop/lid; other site 561229013396 ABC transporter signature motif; other site 561229013397 Walker B; other site 561229013398 D-loop; other site 561229013399 H-loop/switch region; other site 561229013400 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 561229013401 D-ribose pyranase; Provisional; Region: PRK11797 561229013402 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 561229013403 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 561229013404 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 561229013405 active site 561229013406 phosphorylation site [posttranslational modification] 561229013407 intermolecular recognition site; other site 561229013408 dimerization interface [polypeptide binding]; other site 561229013409 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 561229013410 DNA binding site [nucleotide binding] 561229013411 sensor protein QseC; Provisional; Region: PRK10337 561229013412 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 561229013413 dimer interface [polypeptide binding]; other site 561229013414 phosphorylation site [posttranslational modification] 561229013415 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 561229013416 ATP binding site [chemical binding]; other site 561229013417 Mg2+ binding site [ion binding]; other site 561229013418 G-X-G motif; other site 561229013419 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 561229013420 potassium uptake protein; Region: kup; TIGR00794 561229013421 regulatory ATPase RavA; Provisional; Region: PRK13531 561229013422 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 561229013423 Walker A motif; other site 561229013424 ATP binding site [chemical binding]; other site 561229013425 Walker B motif; other site 561229013426 arginine finger; other site 561229013427 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 561229013428 hypothetical protein; Provisional; Region: yieM; PRK10997 561229013429 VWA YIEM type: 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...; Region: VWA_YIEM_type; cd01462 561229013430 metal ion-dependent adhesion site (MIDAS); other site 561229013431 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 561229013432 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 561229013433 putative DNA binding site [nucleotide binding]; other site 561229013434 putative Zn2+ binding site [ion binding]; other site 561229013435 AsnC family; Region: AsnC_trans_reg; pfam01037 561229013436 FMN-binding protein MioC; Provisional; Region: PRK09004 561229013437 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 561229013438 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 561229013439 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 561229013440 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 561229013441 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 561229013442 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 561229013443 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 561229013444 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 561229013445 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 561229013446 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 561229013447 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 561229013448 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 561229013449 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 561229013450 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 561229013451 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 561229013452 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561229013453 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 561229013454 beta subunit interaction interface [polypeptide binding]; other site 561229013455 Walker A motif; other site 561229013456 ATP binding site [chemical binding]; other site 561229013457 Walker B motif; other site 561229013458 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 561229013459 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 561229013460 core domain interface [polypeptide binding]; other site 561229013461 delta subunit interface [polypeptide binding]; other site 561229013462 epsilon subunit interface [polypeptide binding]; other site 561229013463 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 561229013464 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 561229013465 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 561229013466 alpha subunit interaction interface [polypeptide binding]; other site 561229013467 Walker A motif; other site 561229013468 ATP binding site [chemical binding]; other site 561229013469 Walker B motif; other site 561229013470 inhibitor binding site; inhibition site 561229013471 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 561229013472 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 561229013473 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 561229013474 gamma subunit interface [polypeptide binding]; other site 561229013475 epsilon subunit interface [polypeptide binding]; other site 561229013476 LBP interface [polypeptide binding]; other site 561229013477 Right handed beta helix region; Region: Beta_helix; pfam13229 561229013478 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 561229013479 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 561229013480 Substrate binding site; other site 561229013481 Mg++ binding site; other site 561229013482 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 561229013483 active site 561229013484 substrate binding site [chemical binding]; other site 561229013485 CoA binding site [chemical binding]; other site 561229013486 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 561229013487 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 561229013488 glutaminase active site [active] 561229013489 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 561229013490 dimer interface [polypeptide binding]; other site 561229013491 active site 561229013492 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 561229013493 dimer interface [polypeptide binding]; other site 561229013494 active site 561229013495 Transposase; Region: HTH_Tnp_1; cl17663 561229013496 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 561229013497 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 561229013498 GAF domain; Region: GAF; pfam01590 561229013499 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 561229013500 PAS fold; Region: PAS_3; pfam08447 561229013501 putative active site [active] 561229013502 heme pocket [chemical binding]; other site 561229013503 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 561229013504 PAS fold; Region: PAS_3; pfam08447 561229013505 putative active site [active] 561229013506 heme pocket [chemical binding]; other site 561229013507 GAF domain; Region: GAF_2; pfam13185 561229013508 GAF domain; Region: GAF_3; pfam13492 561229013509 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 561229013510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 561229013511 metal binding site [ion binding]; metal-binding site 561229013512 active site 561229013513 I-site; other site 561229013514 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 561229013515 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 561229013516 P loop; other site 561229013517 Nucleotide binding site [chemical binding]; other site 561229013518 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 561229013519 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 561229013520 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 561229013521 dimer interface [polypeptide binding]; other site 561229013522 conserved gate region; other site 561229013523 putative PBP binding loops; other site 561229013524 ABC-ATPase subunit interface; other site 561229013525 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 561229013526 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 561229013527 dimer interface [polypeptide binding]; other site 561229013528 conserved gate region; other site 561229013529 putative PBP binding loops; other site 561229013530 ABC-ATPase subunit interface; other site 561229013531 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 561229013532 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 561229013533 Walker A/P-loop; other site 561229013534 ATP binding site [chemical binding]; other site 561229013535 Q-loop/lid; other site 561229013536 ABC transporter signature motif; other site 561229013537 Walker B; other site 561229013538 D-loop; other site 561229013539 H-loop/switch region; other site 561229013540 transcriptional regulator PhoU; Provisional; Region: PRK11115 561229013541 PhoU domain; Region: PhoU; pfam01895 561229013542 PhoU domain; Region: PhoU; pfam01895 561229013543 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 561229013544 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 561229013545 substrate binding pocket [chemical binding]; other site 561229013546 membrane-bound complex binding site; other site 561229013547 hinge residues; other site 561229013548 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 561229013549 dimer interface [polypeptide binding]; other site 561229013550 conserved gate region; other site 561229013551 putative PBP binding loops; other site 561229013552 ABC-ATPase subunit interface; other site 561229013553 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 561229013554 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 561229013555 dimer interface [polypeptide binding]; other site 561229013556 conserved gate region; other site 561229013557 putative PBP binding loops; other site 561229013558 ABC-ATPase subunit interface; other site 561229013559 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 561229013560 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 561229013561 motif II; other site 561229013562 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 561229013563 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 561229013564 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 561229013565 4Fe-4S binding domain; Region: Fer4; pfam00037 561229013566 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 561229013567 4Fe-4S binding domain; Region: Fer4; pfam00037 561229013568 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 561229013569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 561229013570 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 561229013571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 561229013572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 561229013573 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 561229013574 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 561229013575 inhibitor-cofactor binding pocket; inhibition site 561229013576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 561229013577 catalytic residue [active] 561229013578 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 561229013579 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 561229013580 Ligand binding site; other site 561229013581 Putative Catalytic site; other site 561229013582 DXD motif; other site 561229013583 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 561229013584 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 561229013585 active site 561229013586 substrate binding site [chemical binding]; other site 561229013587 cosubstrate binding site; other site 561229013588 catalytic site [active] 561229013589 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 561229013590 active site 561229013591 hexamer interface [polypeptide binding]; other site 561229013592 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 561229013593 NAD binding site [chemical binding]; other site 561229013594 substrate binding site [chemical binding]; other site 561229013595 active site 561229013596 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 561229013597 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 561229013598 putative active site [active] 561229013599 putative catalytic site [active] 561229013600 putative Zn binding site [ion binding]; other site 561229013601 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 561229013602 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 561229013603 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 561229013604 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 561229013605 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 561229013606 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 561229013607 Coenzyme A binding pocket [chemical binding]; other site 561229013608 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 561229013609 NADH(P)-binding; Region: NAD_binding_10; pfam13460 561229013610 NAD binding site [chemical binding]; other site 561229013611 substrate binding site [chemical binding]; other site 561229013612 putative active site [active] 561229013613 Predicted transcriptional regulators [Transcription]; Region: COG1733 561229013614 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 561229013615 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 561229013616 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 561229013617 dimer interface [polypeptide binding]; other site 561229013618 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 561229013619 active site 561229013620 Fe binding site [ion binding]; other site 561229013621 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 561229013622 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 561229013623 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 561229013624 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 561229013625 conserved cys residue [active] 561229013626 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229013627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 561229013628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229013629 Walker A/P-loop; other site 561229013630 ATP binding site [chemical binding]; other site 561229013631 AAA domain; Region: AAA_21; pfam13304 561229013632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 561229013633 ABC transporter signature motif; other site 561229013634 Walker B; other site 561229013635 D-loop; other site 561229013636 H-loop/switch region; other site 561229013637 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 561229013638 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561229013639 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561229013640 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 561229013641 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561229013642 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 561229013643 BRO family, N-terminal domain; Region: Bro-N; pfam02498 561229013644 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 561229013645 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 561229013646 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 561229013647 ATP binding site [chemical binding]; other site 561229013648 putative Mg++ binding site [ion binding]; other site 561229013649 HipA N-terminal domain; Region: Couple_hipA; pfam13657 561229013650 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 561229013651 HipA-like N-terminal domain; Region: HipA_N; pfam07805 561229013652 HipA-like C-terminal domain; Region: HipA_C; pfam07804 561229013653 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 561229013654 non-specific DNA binding site [nucleotide binding]; other site 561229013655 salt bridge; other site 561229013656 sequence-specific DNA binding site [nucleotide binding]; other site 561229013657 multiple promoter invertase; Provisional; Region: mpi; PRK13413 561229013658 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 561229013659 catalytic residues [active] 561229013660 catalytic nucleophile [active] 561229013661 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 561229013662 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 561229013663 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 561229013664 FRG domain; Region: FRG; pfam08867 561229013665 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561229013666 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 561229013667 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 561229013668 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 561229013669 HsdM N-terminal domain; Region: HsdM_N; pfam12161 561229013670 Methyltransferase domain; Region: Methyltransf_26; pfam13659 561229013671 Helix-turn-helix domain; Region: HTH_17; pfam12728 561229013672 Helix-turn-helix domain; Region: HTH_17; pfam12728 561229013673 putative transposase OrfB; Reviewed; Region: PHA02517 561229013674 HTH-like domain; Region: HTH_21; pfam13276 561229013675 Integrase core domain; Region: rve; pfam00665 561229013676 Integrase core domain; Region: rve_2; pfam13333 561229013677 Transposase; Region: HTH_Tnp_1; pfam01527 561229013678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 561229013679 AAA domain; Region: AAA_25; pfam13481 561229013680 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 561229013681 Walker A motif; other site 561229013682 ATP binding site [chemical binding]; other site 561229013683 Walker B motif; other site 561229013684 Replication protein C (RepC); Region: RepC; pfam06504 561229013685 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 561229013686 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 561229013687 Int/Topo IB signature motif; other site 561229013688 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 561229013689 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 561229013690 trmE is a tRNA modification GTPase; Region: trmE; cd04164 561229013691 G1 box; other site 561229013692 GTP/Mg2+ binding site [chemical binding]; other site 561229013693 Switch I region; other site 561229013694 G2 box; other site 561229013695 Switch II region; other site 561229013696 G3 box; other site 561229013697 G4 box; other site 561229013698 G5 box; other site 561229013699 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 561229013700 membrane protein insertase; Provisional; Region: PRK01318 561229013701 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 561229013702 hypothetical protein; Validated; Region: PRK00041 561229013703 ribonuclease P; Reviewed; Region: rnpA; PRK01732 561229013704 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399