-- dump date 20120504_155331 -- class Genbank::misc_feature -- table misc_feature_note -- id note 748280000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 748280000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 748280000003 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 748280000004 Walker A motif; other site 748280000005 ATP binding site [chemical binding]; other site 748280000006 Walker B motif; other site 748280000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280000008 arginine finger; other site 748280000009 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 748280000010 DnaA box-binding interface [nucleotide binding]; other site 748280000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 748280000012 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 748280000013 putative DNA binding surface [nucleotide binding]; other site 748280000014 dimer interface [polypeptide binding]; other site 748280000015 beta-clamp/clamp loader binding surface; other site 748280000016 beta-clamp/translesion DNA polymerase binding surface; other site 748280000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 748280000018 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 748280000019 Mg2+ binding site [ion binding]; other site 748280000020 G-X-G motif; other site 748280000021 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 748280000022 anchoring element; other site 748280000023 dimer interface [polypeptide binding]; other site 748280000024 ATP binding site [chemical binding]; other site 748280000025 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 748280000026 active site 748280000027 putative metal-binding site [ion binding]; other site 748280000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 748280000029 AAA domain; Region: AAA_21; pfam13304 748280000030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280000031 ABC transporter signature motif; other site 748280000032 Walker B; other site 748280000033 D-loop; other site 748280000034 H-loop/switch region; other site 748280000035 EcoRII C terminal; Region: EcoRII-C; pfam09019 748280000036 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' sequence. MetJ...; Region: Met_repressor_MetJ; cl00010 748280000037 DNA cytosine methylase; Provisional; Region: PRK10458 748280000038 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280000039 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 748280000040 cofactor binding site; other site 748280000041 DNA binding site [nucleotide binding] 748280000042 substrate interaction site [chemical binding]; other site 748280000043 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 748280000044 non-specific DNA binding site [nucleotide binding]; other site 748280000045 salt bridge; other site 748280000046 sequence-specific DNA binding site [nucleotide binding]; other site 748280000047 LysE type translocator; Region: LysE; cl00565 748280000048 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 748280000049 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280000050 ABC transporter; Region: ABC_tran_2; pfam12848 748280000051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280000052 Walker A/P-loop; other site 748280000053 ATP binding site [chemical binding]; other site 748280000054 Q-loop/lid; other site 748280000055 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280000056 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280000057 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 748280000058 Moco binding site; other site 748280000059 metal coordination site [ion binding]; other site 748280000060 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 748280000061 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280000062 malate dehydrogenase; Provisional; Region: PRK13529 748280000063 Malic enzyme, N-terminal domain; Region: malic; pfam00390 748280000064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000065 NAD(P) binding pocket [chemical binding]; other site 748280000066 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280000067 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 748280000068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280000069 Walker A/P-loop; other site 748280000070 ATP binding site [chemical binding]; other site 748280000071 Q-loop/lid; other site 748280000072 ABC transporter signature motif; other site 748280000073 Walker B; other site 748280000074 D-loop; other site 748280000075 H-loop/switch region; other site 748280000076 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 748280000077 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 748280000078 kynureninase; Region: kynureninase; TIGR01814 748280000079 Putative cyclase; Region: Cyclase; cl00814 748280000080 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280000081 Helix-turn-helix domains; Region: HTH; cl00088 748280000082 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 748280000083 putative deacylase active site [active] 748280000084 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 748280000085 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 748280000086 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 748280000087 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 748280000088 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 748280000089 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 748280000090 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 748280000091 tRNA; other site 748280000092 putative tRNA binding site [nucleotide binding]; other site 748280000093 putative NADP binding site [chemical binding]; other site 748280000094 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 748280000095 peptide chain release factor 1; Validated; Region: prfA; PRK00591 748280000096 RF-1 domain; Region: RF-1; cl02875 748280000097 RF-1 domain; Region: RF-1; cl02875 748280000098 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 748280000099 EamA-like transporter family; Region: EamA; cl01037 748280000100 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 748280000101 NMT1-like family; Region: NMT1_2; cl15260 748280000102 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 748280000103 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 748280000104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000105 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280000106 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 748280000107 active site 748280000108 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 748280000109 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 748280000110 AMP-binding enzyme; Region: AMP-binding; cl15778 748280000111 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280000112 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280000113 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280000114 conserved cys residue [active] 748280000115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280000116 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 748280000117 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 748280000118 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 748280000119 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 748280000120 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 748280000121 Protein export membrane protein; Region: SecD_SecF; cl14618 748280000122 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280000123 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 748280000124 dimer interface [polypeptide binding]; other site 748280000125 phosphorylation site [posttranslational modification] 748280000126 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 748280000127 ATP binding site [chemical binding]; other site 748280000128 Mg2+ binding site [ion binding]; other site 748280000129 G-X-G motif; other site 748280000130 osmolarity response regulator; Provisional; Region: ompR; PRK09468 748280000131 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 748280000132 active site 748280000133 phosphorylation site [posttranslational modification] 748280000134 intermolecular recognition site; other site 748280000135 dimerization interface [polypeptide binding]; other site 748280000136 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 748280000137 DNA binding site [nucleotide binding] 748280000138 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 748280000139 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 748280000140 NADP binding site [chemical binding]; other site 748280000141 dimer interface [polypeptide binding]; other site 748280000142 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 748280000143 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 748280000144 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 748280000145 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280000146 substrate binding pocket [chemical binding]; other site 748280000147 membrane-bound complex binding site; other site 748280000148 hinge residues; other site 748280000149 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 748280000150 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 748280000151 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 748280000152 substrate binding pocket [chemical binding]; other site 748280000153 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 748280000154 B12 binding site [chemical binding]; other site 748280000155 cobalt ligand [ion binding]; other site 748280000156 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 748280000157 cystathionine gamma-synthase; Provisional; Region: PRK07811 748280000158 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 748280000159 homodimer interface [polypeptide binding]; other site 748280000160 substrate-cofactor binding pocket; other site 748280000161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000162 catalytic residue [active] 748280000163 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 748280000164 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 748280000165 dimer interface [polypeptide binding]; other site 748280000166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000167 catalytic residue [active] 748280000168 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 748280000169 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 748280000170 Protein of unknown function (DUF465); Region: DUF465; cl01070 748280000171 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; cl15306 748280000172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280000173 substrate binding pocket [chemical binding]; other site 748280000174 membrane-bound complex binding site; other site 748280000175 hinge residues; other site 748280000176 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 748280000177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000178 DNA-binding site [nucleotide binding]; DNA binding site 748280000179 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 748280000180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000181 homodimer interface [polypeptide binding]; other site 748280000182 catalytic residue [active] 748280000183 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 748280000184 GAF domain; Region: GAF; cl15785 748280000185 GAF domain; Region: GAF_2; pfam13185 748280000186 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000187 metal binding site [ion binding]; metal-binding site 748280000188 active site 748280000189 I-site; other site 748280000190 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 748280000191 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 748280000192 D-galactonate transporter; Region: 2A0114; TIGR00893 748280000193 putative substrate translocation pore; other site 748280000194 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 748280000195 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 748280000196 Walker A/P-loop; other site 748280000197 ATP binding site [chemical binding]; other site 748280000198 Q-loop/lid; other site 748280000199 ABC transporter signature motif; other site 748280000200 Walker B; other site 748280000201 D-loop; other site 748280000202 H-loop/switch region; other site 748280000203 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 748280000204 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 748280000205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000206 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 748280000207 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 748280000208 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 748280000209 non-specific DNA binding site [nucleotide binding]; other site 748280000210 salt bridge; other site 748280000211 sequence-specific DNA binding site [nucleotide binding]; other site 748280000212 Cupin domain; Region: Cupin_2; cl09118 748280000213 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 748280000214 EamA-like transporter family; Region: EamA; cl01037 748280000215 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 748280000216 Protein of unknown function DUF45; Region: DUF45; cl00636 748280000217 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 748280000218 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280000219 Walker A motif; other site 748280000220 ATP binding site [chemical binding]; other site 748280000221 Walker B motif; other site 748280000222 arginine finger; other site 748280000223 Helix-turn-helix domains; Region: HTH; cl00088 748280000224 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; cl00284 748280000225 enterobactin exporter EntS; Provisional; Region: PRK10489 748280000226 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280000227 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 748280000228 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000229 DNA-binding site [nucleotide binding]; DNA binding site 748280000230 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 748280000231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000232 homodimer interface [polypeptide binding]; other site 748280000233 catalytic residue [active] 748280000234 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 748280000235 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280000236 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 748280000237 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280000238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000239 DNA-binding site [nucleotide binding]; DNA binding site 748280000240 FCD domain; Region: FCD; cl11656 748280000241 Sodium:solute symporter family; Region: SSF; cl00456 748280000242 YaeQ protein; Region: YaeQ; cl01913 748280000243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000244 Helix-turn-helix domains; Region: HTH; cl00088 748280000245 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 748280000246 putative effector binding pocket; other site 748280000247 dimerization interface [polypeptide binding]; other site 748280000248 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 748280000249 putative active site [active] 748280000250 metal binding site [ion binding]; metal-binding site 748280000251 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 748280000252 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 748280000253 ATP binding site [chemical binding]; other site 748280000254 Mg++ binding site [ion binding]; other site 748280000255 motif III; other site 748280000256 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 748280000257 nucleotide binding region [chemical binding]; other site 748280000258 ATP-binding site [chemical binding]; other site 748280000259 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 748280000260 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 748280000261 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 748280000262 RNB domain; Region: RNB; pfam00773 748280000263 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 748280000264 Helix-turn-helix domains; Region: HTH; cl00088 748280000265 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 748280000266 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 748280000267 N- and C-terminal domain interface [polypeptide binding]; other site 748280000268 glycerol kinase; Provisional; Region: glpK; PRK00047 748280000269 active site 748280000270 MgATP binding site [chemical binding]; other site 748280000271 catalytic site [active] 748280000272 metal binding site [ion binding]; metal-binding site 748280000273 glycerol binding site [chemical binding]; other site 748280000274 homotetramer interface [polypeptide binding]; other site 748280000275 homodimer interface [polypeptide binding]; other site 748280000276 FBP binding site [chemical binding]; other site 748280000277 protein IIAGlc interface [polypeptide binding]; other site 748280000278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280000279 dimer interface [polypeptide binding]; other site 748280000280 putative CheW interface [polypeptide binding]; other site 748280000281 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 748280000282 argininosuccinate lyase; Provisional; Region: PRK00855 748280000283 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 748280000284 active sites [active] 748280000285 tetramer interface [polypeptide binding]; other site 748280000286 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 748280000287 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 748280000288 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 748280000289 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 748280000290 domain interfaces; other site 748280000291 active site 748280000292 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 748280000293 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 748280000294 active site 748280000295 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 748280000296 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 748280000297 HemY protein N-terminus; Region: HemY_N; pfam07219 748280000298 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280000299 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 748280000300 RNA binding surface [nucleotide binding]; other site 748280000301 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 748280000302 active site 748280000303 uracil binding [chemical binding]; other site 748280000304 PAS domain S-box; Region: sensory_box; TIGR00229 748280000305 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 748280000306 putative active site [active] 748280000307 heme pocket [chemical binding]; other site 748280000308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000309 metal binding site [ion binding]; metal-binding site 748280000310 active site 748280000311 I-site; other site 748280000312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280000313 Helix-turn-helix domains; Region: HTH; cl00088 748280000314 aminotransferase; Validated; Region: PRK08175 748280000315 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 748280000316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000317 homodimer interface [polypeptide binding]; other site 748280000318 catalytic residue [active] 748280000319 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 748280000320 active site 748280000321 catalytic tetrad [active] 748280000322 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 748280000323 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 748280000324 Walker A/P-loop; other site 748280000325 ATP binding site [chemical binding]; other site 748280000326 Q-loop/lid; other site 748280000327 ABC transporter signature motif; other site 748280000328 Walker B; other site 748280000329 D-loop; other site 748280000330 H-loop/switch region; other site 748280000331 TOBE domain; Region: TOBE_2; cl01440 748280000332 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 748280000333 dimer interface [polypeptide binding]; other site 748280000334 conserved gate region; other site 748280000335 putative PBP binding loops; other site 748280000336 ABC-ATPase subunit interface; other site 748280000337 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 748280000338 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 748280000339 ABC-ATPase subunit interface; other site 748280000340 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 748280000341 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 748280000342 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 748280000343 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 748280000344 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 748280000345 dimer interface [polypeptide binding]; other site 748280000346 phosphorylation site [posttranslational modification] 748280000347 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 748280000348 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 748280000349 ATP binding site [chemical binding]; other site 748280000350 Mg2+ binding site [ion binding]; other site 748280000351 G-X-G motif; other site 748280000352 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280000353 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 748280000354 active site 748280000355 phosphorylation site [posttranslational modification] 748280000356 intermolecular recognition site; other site 748280000357 dimerization interface [polypeptide binding]; other site 748280000358 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 748280000359 DNA binding site [nucleotide binding] 748280000360 AAA domain; Region: AAA_32; pfam13654 748280000361 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 748280000362 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 748280000363 active site 748280000364 intersubunit interface [polypeptide binding]; other site 748280000365 catalytic residue [active] 748280000366 Dehydratase family; Region: ILVD_EDD; cl00340 748280000367 6-phosphogluconate dehydratase; Region: edd; TIGR01196 748280000368 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 748280000369 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 748280000370 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 748280000371 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 748280000372 putative active site [active] 748280000373 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 748280000374 glucokinase, proteobacterial type; Region: glk; TIGR00749 748280000375 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 748280000376 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 748280000377 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 748280000378 putative active site [active] 748280000379 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 748280000380 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 748280000381 active site 748280000382 dimer interface [polypeptide binding]; other site 748280000383 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 748280000384 dimer interface [polypeptide binding]; other site 748280000385 active site 748280000386 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 748280000387 DNA binding site [nucleotide binding] 748280000388 active site 748280000389 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280000390 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 748280000391 dimerization interface [polypeptide binding]; other site 748280000392 two component system sensor kinase SsrA; Provisional; Region: PRK15347 748280000393 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 748280000394 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 748280000395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000396 metal binding site [ion binding]; metal-binding site 748280000397 active site 748280000398 I-site; other site 748280000399 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 748280000400 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39A; cd02549 748280000401 putative active site [active] 748280000402 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 748280000403 trimer interface; other site 748280000404 sugar binding site [chemical binding]; other site 748280000405 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 748280000406 GIY-YIG motif/motif A; other site 748280000407 putative active site [active] 748280000408 putative metal binding site [ion binding]; other site 748280000409 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 748280000410 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 748280000411 Cytochrome c; Region: Cytochrom_C; cl11414 748280000412 Cytochrome c; Region: Cytochrom_C; cl11414 748280000413 Predicted GTPase [General function prediction only]; Region: COG0218 748280000414 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 748280000415 G1 box; other site 748280000416 GTP/Mg2+ binding site [chemical binding]; other site 748280000417 Switch I region; other site 748280000418 G2 box; other site 748280000419 G3 box; other site 748280000420 Switch II region; other site 748280000421 G4 box; other site 748280000422 G5 box; other site 748280000423 rare lipoprotein A; Provisional; Region: PRK10672 748280000424 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 748280000425 Sporulation related domain; Region: SPOR; cl10051 748280000426 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 748280000427 comF family protein; Region: comF; TIGR00201 748280000428 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280000429 active site 748280000430 biotin synthase; Region: bioB; TIGR00433 748280000431 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 748280000432 FeS/SAM binding site; other site 748280000433 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 748280000434 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 748280000435 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 748280000436 substrate-cofactor binding pocket; other site 748280000437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000438 catalytic residue [active] 748280000439 GAF domain; Region: GAF_2; pfam13185 748280000440 GAF domain; Region: GAF; cl15785 748280000441 GAF domain; Region: GAF_2; pfam13185 748280000442 GAF domain; Region: GAF; cl15785 748280000443 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000444 metal binding site [ion binding]; metal-binding site 748280000445 active site 748280000446 I-site; other site 748280000447 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 748280000448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000449 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 748280000450 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; cl12031 748280000451 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 748280000452 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 748280000453 S-adenosylmethionine binding site [chemical binding]; other site 748280000454 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280000455 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 748280000456 nucleophile elbow; other site 748280000457 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 748280000458 C-terminal domain interface [polypeptide binding]; other site 748280000459 GSH binding site (G-site) [chemical binding]; other site 748280000460 dimer interface [polypeptide binding]; other site 748280000461 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 748280000462 substrate binding pocket (H-site) [chemical binding]; other site 748280000463 N-terminal domain interface [polypeptide binding]; other site 748280000464 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 748280000465 active site 748280000466 DNA polymerase IV; Validated; Region: PRK02406 748280000467 DNA binding site [nucleotide binding] 748280000468 Rdx family; Region: Rdx; cl01407 748280000469 CHASE4 domain; Region: CHASE4; cl01308 748280000470 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280000471 GAF domain; Region: GAF; cl15785 748280000472 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000473 metal binding site [ion binding]; metal-binding site 748280000474 active site 748280000475 I-site; other site 748280000476 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 748280000477 Protein of unknown function (DUF461); Region: DUF461; cl01071 748280000478 MarC family integral membrane protein; Region: MarC; cl00919 748280000479 Cupin domain; Region: Cupin_2; cl09118 748280000480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280000481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280000482 AzlC protein; Region: AzlC; cl00570 748280000483 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 748280000484 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 748280000485 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 748280000486 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 748280000487 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280000488 rod shape-determining protein MreD; Region: MreD; cl01087 748280000489 rod shape-determining protein MreC; Region: MreC; pfam04085 748280000490 rod shape-determining protein MreB; Provisional; Region: PRK13927 748280000491 hypothetical protein; Provisional; Region: PRK10039 748280000492 Cell division protein FtsA; Region: FtsA; cl11496 748280000493 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 748280000494 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 748280000495 Amidase; Region: Amidase; cl11426 748280000496 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 748280000497 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 748280000498 GatB domain; Region: GatB_Yqey; cl11497 748280000499 cell division protein MraZ; Reviewed; Region: PRK00326 748280000500 MraZ protein; Region: MraZ; pfam02381 748280000501 MraZ protein; Region: MraZ; pfam02381 748280000502 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 748280000503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000504 Septum formation initiator; Region: DivIC; cl11433 748280000505 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 748280000506 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 748280000507 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280000508 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 748280000509 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280000510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000512 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280000513 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 748280000514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000516 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 748280000517 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 748280000518 Mg++ binding site [ion binding]; other site 748280000519 putative catalytic motif [active] 748280000520 putative substrate binding site [chemical binding]; other site 748280000521 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 748280000522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000523 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000524 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000525 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 748280000526 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 748280000527 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 748280000528 active site 748280000529 homodimer interface [polypeptide binding]; other site 748280000530 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 748280000531 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280000532 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000533 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000534 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 748280000535 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 748280000536 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280000537 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 748280000538 Cell division protein FtsQ; Region: FtsQ; pfam03799 748280000539 cell division protein FtsA; Region: ftsA; TIGR01174 748280000540 Cell division protein FtsA; Region: FtsA; cl11496 748280000541 Cell division protein FtsA; Region: FtsA; cl11496 748280000542 cell division protein FtsZ; Validated; Region: PRK09330 748280000543 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 748280000544 nucleotide binding site [chemical binding]; other site 748280000545 SulA interaction site; other site 748280000546 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 748280000547 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 748280000548 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 748280000549 trimer interface [polypeptide binding]; other site 748280000550 dimer interface [polypeptide binding]; other site 748280000551 putative active site [active] 748280000552 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 748280000553 EamA-like transporter family; Region: EamA; cl01037 748280000554 CNP1-like family; Region: CNP1; pfam08750 748280000555 NRDE protein; Region: NRDE; cl01315 748280000556 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 748280000557 CPxP motif; other site 748280000558 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 748280000559 active site 748280000560 substrate binding pocket [chemical binding]; other site 748280000561 dimer interface [polypeptide binding]; other site 748280000562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280000563 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 748280000564 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 748280000565 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280000566 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; cl15306 748280000567 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280000568 substrate binding pocket [chemical binding]; other site 748280000569 membrane-bound complex binding site; other site 748280000570 hinge residues; other site 748280000571 Peptidase family M48; Region: Peptidase_M48; cl12018 748280000572 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 748280000573 putative ATP binding site [chemical binding]; other site 748280000574 putative substrate interface [chemical binding]; other site 748280000575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000576 Helix-turn-helix domains; Region: HTH; cl00088 748280000577 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 748280000578 putative dimerization interface [polypeptide binding]; other site 748280000579 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 748280000580 active site 1 [active] 748280000581 dimer interface [polypeptide binding]; other site 748280000582 hexamer interface [polypeptide binding]; other site 748280000583 active site 2 [active] 748280000584 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 748280000585 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 748280000586 tetramer interface [polypeptide binding]; other site 748280000587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000588 catalytic residue [active] 748280000589 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280000590 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 748280000591 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; cl12031 748280000592 YfaZ precursor; Region: YfaZ; pfam07437 748280000593 hypothetical protein; Provisional; Region: PRK11239 748280000594 Protein of unknown function, DUF480; Region: DUF480; cl01209 748280000595 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 748280000596 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 748280000597 RNA binding surface [nucleotide binding]; other site 748280000598 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; cl15754 748280000599 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280000600 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280000601 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 748280000602 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 748280000603 active site 748280000604 phosphorylation site [posttranslational modification] 748280000605 intermolecular recognition site; other site 748280000606 dimerization interface [polypeptide binding]; other site 748280000607 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 748280000608 binding surface 748280000609 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 748280000610 TPR motif; other site 748280000611 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 748280000612 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280000613 Family description; Region: UvrD_C_2; cl15862 748280000614 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 748280000615 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 748280000616 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 748280000617 serine O-acetyltransferase; Region: cysE; TIGR01172 748280000618 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 748280000619 trimer interface [polypeptide binding]; other site 748280000620 active site 748280000621 substrate binding site [chemical binding]; other site 748280000622 CoA binding site [chemical binding]; other site 748280000623 ribonuclease G; Provisional; Region: PRK11712 748280000624 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 748280000625 homodimer interface [polypeptide binding]; other site 748280000626 oligonucleotide binding site [chemical binding]; other site 748280000627 Maf-like protein; Region: Maf; pfam02545 748280000628 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 748280000629 active site 748280000630 dimer interface [polypeptide binding]; other site 748280000631 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 748280000632 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280000633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000634 Helix-turn-helix domains; Region: HTH; cl00088 748280000635 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 748280000636 putative substrate binding pocket [chemical binding]; other site 748280000637 dimerization interface [polypeptide binding]; other site 748280000638 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 748280000639 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 748280000640 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 748280000641 putative catalytic cysteine [active] 748280000642 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 748280000643 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 748280000644 AMP-binding enzyme; Region: AMP-binding; cl15778 748280000645 AMP-binding enzyme; Region: AMP-binding; cl15778 748280000646 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280000647 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 748280000648 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 748280000649 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280000650 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 748280000651 dimerization interface [polypeptide binding]; other site 748280000652 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280000653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280000654 dimer interface [polypeptide binding]; other site 748280000655 putative CheW interface [polypeptide binding]; other site 748280000656 Protein of unknown function (DUF721); Region: DUF721; cl02324 748280000657 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 748280000658 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280000659 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 748280000660 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 748280000661 nucleotide binding region [chemical binding]; other site 748280000662 ATP-binding site [chemical binding]; other site 748280000663 SEC-C motif; Region: SEC-C; pfam02810 748280000664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000665 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 748280000666 NAD(P) binding site [chemical binding]; other site 748280000667 active site 748280000668 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 748280000669 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 748280000670 Aspartase; Region: Aspartase; cd01357 748280000671 active sites [active] 748280000672 tetramer interface [polypeptide binding]; other site 748280000673 cell density-dependent motility repressor; Provisional; Region: PRK10082 748280000674 Helix-turn-helix domains; Region: HTH; cl00088 748280000675 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 748280000676 dimerization interface [polypeptide binding]; other site 748280000677 CHASE domain; Region: CHASE; cl01369 748280000678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000679 metal binding site [ion binding]; metal-binding site 748280000680 active site 748280000681 I-site; other site 748280000682 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 748280000683 O-methyltransferase; Region: Methyltransf_3; pfam01596 748280000684 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 748280000685 S-adenosylmethionine binding site [chemical binding]; other site 748280000686 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 748280000687 Gram-negative bacterial tonB protein; Region: TonB; cl10048 748280000688 translocation protein TolB; Provisional; Region: tolB; PRK02889 748280000689 TolB amino-terminal domain; Region: TolB_N; cl00639 748280000690 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000691 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000692 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000693 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000694 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 748280000695 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280000696 ligand binding site [chemical binding]; other site 748280000697 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 748280000698 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 748280000699 Tetratricopeptide repeat; Region: TPR_6; pfam13174 748280000700 AIR carboxylase; Region: AIRC; cl00310 748280000701 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 748280000702 XdhC Rossmann domain; Region: XdhC_C; pfam13478 748280000703 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280000704 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 748280000705 ATP binding site [chemical binding]; other site 748280000706 active site 748280000707 substrate binding site [chemical binding]; other site 748280000708 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 748280000709 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280000710 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 748280000711 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; cl12031 748280000712 PAS domain S-box; Region: sensory_box; TIGR00229 748280000713 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 748280000714 putative active site [active] 748280000715 heme pocket [chemical binding]; other site 748280000716 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 748280000717 PAS fold; Region: PAS_3; pfam08447 748280000718 putative active site [active] 748280000719 heme pocket [chemical binding]; other site 748280000720 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 748280000721 PAS fold; Region: PAS_3; pfam08447 748280000722 putative active site [active] 748280000723 heme pocket [chemical binding]; other site 748280000724 PAS fold; Region: PAS; pfam00989 748280000725 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 748280000726 putative active site [active] 748280000727 heme pocket [chemical binding]; other site 748280000728 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 748280000729 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 748280000730 active site 748280000731 FMN binding site [chemical binding]; other site 748280000732 2,4-decadienoyl-CoA binding site; other site 748280000733 catalytic residue [active] 748280000734 4Fe-4S cluster binding site [ion binding]; other site 748280000735 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 748280000736 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 748280000737 XdhC Rossmann domain; Region: XdhC_C; pfam13478 748280000738 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 748280000739 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 748280000740 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280000741 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 748280000742 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 748280000743 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 748280000744 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 748280000745 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 748280000746 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 748280000747 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280000748 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280000749 transcriptional activator TtdR; Provisional; Region: PRK09801 748280000750 Helix-turn-helix domains; Region: HTH; cl00088 748280000751 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 748280000752 putative effector binding pocket; other site 748280000753 dimerization interface [polypeptide binding]; other site 748280000754 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 748280000755 ThiS interaction site; other site 748280000756 putative active site [active] 748280000757 tetramer interface [polypeptide binding]; other site 748280000758 pyruvate kinase; Provisional; Region: PRK06247 748280000759 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; cl09155 748280000760 domain interfaces; other site 748280000761 active site 748280000762 Domain of unknown function (DUF336); Region: DUF336; cl01249 748280000763 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 748280000764 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 748280000765 MOFRL family; Region: MOFRL; pfam05161 748280000766 Cyclophilin-like; Region: Cyclophil_like; cl00950 748280000767 tartronate semialdehyde reductase; Provisional; Region: PRK15059 748280000768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000769 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 748280000770 glyoxylate carboligase; Provisional; Region: PRK11269 748280000771 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280000772 PYR/PP interface [polypeptide binding]; other site 748280000773 dimer interface [polypeptide binding]; other site 748280000774 TPP binding site [chemical binding]; other site 748280000775 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 748280000776 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 748280000777 TPP-binding site [chemical binding]; other site 748280000778 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 748280000779 Sodium:solute symporter family; Region: SSF; cl00456 748280000780 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 748280000781 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 748280000782 active site 748280000783 catalytic site [active] 748280000784 tetramer interface [polypeptide binding]; other site 748280000785 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 748280000786 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 748280000787 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 748280000788 allantoicase; Provisional; Region: PRK13257 748280000789 Allantoicase repeat; Region: Allantoicase; pfam03561 748280000790 Allantoicase repeat; Region: Allantoicase; pfam03561 748280000791 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280000792 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280000793 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280000794 Helix-turn-helix domains; Region: HTH; cl00088 748280000795 FCD domain; Region: FCD; cl11656 748280000796 Protein of unknown function (DUF989); Region: DUF989; pfam06181 748280000797 Predicted membrane protein [Function unknown]; Region: COG3748 748280000798 Cytochrome c; Region: Cytochrom_C; cl11414 748280000799 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 748280000800 active site 748280000801 homotetramer interface [polypeptide binding]; other site 748280000802 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 748280000803 Transcriptional regulators [Transcription]; Region: FadR; COG2186 748280000804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000805 DNA-binding site [nucleotide binding]; DNA binding site 748280000806 FCD domain; Region: FCD; cl11656 748280000807 ornithine cyclodeaminase; Validated; Region: PRK07340 748280000808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000809 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280000810 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280000811 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 748280000812 dimerization interface [polypeptide binding]; other site 748280000813 ligand binding site [chemical binding]; other site 748280000814 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 748280000815 catalytic residues [active] 748280000816 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280000817 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 748280000818 substrate binding site [chemical binding]; other site 748280000819 ATP binding site [chemical binding]; other site 748280000820 Glutamate-cysteine ligase; Region: GshA; pfam08886 748280000821 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 748280000822 glutathione synthetase; Provisional; Region: PRK05246 748280000823 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 748280000824 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280000825 ApbE family; Region: ApbE; cl00643 748280000826 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 748280000827 DNA topoisomerase I; Validated; Region: PRK06599 748280000828 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 748280000829 active site 748280000830 interdomain interaction site; other site 748280000831 putative metal-binding site [ion binding]; other site 748280000832 nucleotide binding site [chemical binding]; other site 748280000833 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 748280000834 domain I; other site 748280000835 DNA binding groove [nucleotide binding] 748280000836 phosphate binding site [ion binding]; other site 748280000837 domain II; other site 748280000838 domain III; other site 748280000839 nucleotide binding site [chemical binding]; other site 748280000840 catalytic site [active] 748280000841 domain IV; other site 748280000842 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 748280000843 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 748280000844 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 748280000845 DNA topoisomerase I; Validated; Region: PRK07220 748280000846 Protein of unknown function (DUF494); Region: DUF494; cl01103 748280000847 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 748280000848 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 748280000849 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 748280000850 putative peptidoglycan binding site; other site 748280000851 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 748280000852 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 748280000853 active site 748280000854 catalytic residues [active] 748280000855 metal binding site [ion binding]; metal-binding site 748280000856 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 748280000857 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 748280000858 putative active site [active] 748280000859 substrate binding site [chemical binding]; other site 748280000860 putative cosubstrate binding site; other site 748280000861 catalytic site [active] 748280000862 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 748280000863 substrate binding site [chemical binding]; other site 748280000864 Peptidase family M48; Region: Peptidase_M48; cl12018 748280000865 16S rRNA methyltransferase B; Provisional; Region: PRK10901 748280000866 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 748280000867 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; cl15754 748280000868 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 748280000869 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 748280000870 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 748280000871 dimerization interface [polypeptide binding]; other site 748280000872 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 748280000873 dimer interface [polypeptide binding]; other site 748280000874 phosphorylation site [posttranslational modification] 748280000875 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 748280000876 ATP binding site [chemical binding]; other site 748280000877 Mg2+ binding site [ion binding]; other site 748280000878 G-X-G motif; other site 748280000879 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280000880 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 748280000881 active site 748280000882 phosphorylation site [posttranslational modification] 748280000883 intermolecular recognition site; other site 748280000884 dimerization interface [polypeptide binding]; other site 748280000885 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 748280000886 Walker A motif; other site 748280000887 ATP binding site [chemical binding]; other site 748280000888 Walker B motif; other site 748280000889 arginine finger; other site 748280000890 Helix-turn-helix domains; Region: HTH; cl00088 748280000891 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 748280000892 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 748280000893 ATP binding site [chemical binding]; other site 748280000894 substrate interface [chemical binding]; other site 748280000895 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 748280000896 catalytic residues [active] 748280000897 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 748280000898 active site 748280000899 Gram-negative bacterial tonB protein; Region: TonB; cl10048 748280000900 Ferritin-like domain; Region: Ferritin; pfam00210 748280000901 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 748280000902 dimerization interface [polypeptide binding]; other site 748280000903 DPS ferroxidase diiron center [ion binding]; other site 748280000904 ion pore; other site 748280000905 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 748280000906 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 748280000907 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 748280000908 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 748280000909 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 748280000910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280000911 active site 748280000912 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 748280000913 putative active site [active] 748280000914 putative DNA binding site [nucleotide binding]; other site 748280000915 putative phosphate binding site [ion binding]; other site 748280000916 putative catalytic site [active] 748280000917 metal binding site A [ion binding]; metal-binding site 748280000918 putative AP binding site [nucleotide binding]; other site 748280000919 putative metal binding site B [ion binding]; other site 748280000920 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; cl12031 748280000921 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280000922 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 748280000923 active site residue [active] 748280000924 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 748280000925 active site residue [active] 748280000926 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 748280000927 nucleotide binding site/active site [active] 748280000928 HIT family signature motif; other site 748280000929 catalytic residue [active] 748280000930 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280000931 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 748280000932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280000933 dimer interface [polypeptide binding]; other site 748280000934 putative CheW interface [polypeptide binding]; other site 748280000935 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 748280000936 putative substrate binding pocket [chemical binding]; other site 748280000937 trimer interface [polypeptide binding]; other site 748280000938 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 748280000939 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280000940 FAD binding domain; Region: FAD_binding_4; pfam01565 748280000941 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280000942 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 748280000943 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280000944 Cysteine-rich domain; Region: CCG; pfam02754 748280000945 Cysteine-rich domain; Region: CCG; pfam02754 748280000946 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 748280000947 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 748280000948 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 748280000949 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 748280000950 SurA N-terminal domain; Region: SurA_N_3; cl07813 748280000951 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280000952 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280000953 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 748280000954 OstA-like protein; Region: OstA; cl00844 748280000955 Organic solvent tolerance protein; Region: OstA_C; pfam04453 748280000956 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280000957 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 748280000958 Substrate binding site; other site 748280000959 metal-binding site 748280000960 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 includes...; Region: RuvC_resolvase; cd00529 748280000961 active site 748280000962 putative DNA-binding cleft [nucleotide binding]; other site 748280000963 dimer interface [polypeptide binding]; other site 748280000964 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 748280000965 RuvA N terminal domain; Region: RuvA_N; pfam01330 748280000966 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 748280000967 short chain dehydrogenase; Provisional; Region: PRK06123 748280000968 classical (c) SDRs; Region: SDR_c; cd05233 748280000969 NAD(P) binding site [chemical binding]; other site 748280000970 active site 748280000971 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 748280000972 putative metal binding site [ion binding]; other site 748280000973 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 748280000974 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 748280000975 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 748280000976 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 748280000977 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 748280000978 Walker A motif; other site 748280000979 ATP binding site [chemical binding]; other site 748280000980 Walker B motif; other site 748280000981 arginine finger; other site 748280000982 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 748280000983 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 748280000984 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 748280000985 catalytic triad [active] 748280000986 gamma-glutamyl kinase; Provisional; Region: PRK05429 748280000987 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 748280000988 nucleotide binding site [chemical binding]; other site 748280000989 homotetrameric interface [polypeptide binding]; other site 748280000990 putative phosphate binding site [ion binding]; other site 748280000991 putative allosteric binding site; other site 748280000992 PUA domain; Region: PUA; cl00607 748280000993 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 748280000994 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 748280000995 inhibitor-cofactor binding pocket; inhibition site 748280000996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000997 catalytic residue [active] 748280000998 Pilin (bacterial filament); Region: Pilin; pfam00114 748280000999 O-Antigen ligase; Region: Wzy_C; cl04850 748280001000 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 748280001001 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 748280001002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280001003 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 748280001004 DNA binding residues [nucleotide binding] 748280001005 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 748280001006 FtsX-like permease family; Region: FtsX; cl15850 748280001007 Type II (General) Secretory Pathway (IISP) Family protein; Region: 3a0501s02; TIGR00960 748280001008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280001009 Walker A/P-loop; other site 748280001010 ATP binding site [chemical binding]; other site 748280001011 Q-loop/lid; other site 748280001012 ABC transporter signature motif; other site 748280001013 Walker B; other site 748280001014 D-loop; other site 748280001015 H-loop/switch region; other site 748280001016 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 748280001017 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 748280001018 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 748280001019 P loop; other site 748280001020 GTP binding site [chemical binding]; other site 748280001021 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 748280001022 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 748280001023 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 748280001024 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 748280001025 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 748280001026 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 748280001027 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 748280001028 S-adenosylmethionine binding site [chemical binding]; other site 748280001029 hypothetical protein; Provisional; Region: PRK13795 748280001030 elongation factor Tu; Reviewed; Region: PRK00049 748280001031 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 748280001032 G1 box; other site 748280001033 GEF interaction site [polypeptide binding]; other site 748280001034 GTP/Mg2+ binding site [chemical binding]; other site 748280001035 Switch I region; other site 748280001036 G2 box; other site 748280001037 G3 box; other site 748280001038 Switch II region; other site 748280001039 G4 box; other site 748280001040 G5 box; other site 748280001041 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 748280001042 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 748280001043 Antibiotic Binding Site [chemical binding]; other site 748280001044 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 748280001045 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 748280001046 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 748280001047 putative homodimer interface [polypeptide binding]; other site 748280001048 KOW motif; Region: KOW; cl00354 748280001049 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 748280001050 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 748280001051 23S rRNA interface [nucleotide binding]; other site 748280001052 L7/L12 interface [polypeptide binding]; other site 748280001053 putative thiostrepton binding site; other site 748280001054 L25 interface [polypeptide binding]; other site 748280001055 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 748280001056 mRNA/rRNA interface [nucleotide binding]; other site 748280001057 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 748280001058 23S rRNA interface [nucleotide binding]; other site 748280001059 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 748280001060 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 748280001061 core dimer interface [polypeptide binding]; other site 748280001062 peripheral dimer interface [polypeptide binding]; other site 748280001063 L10 interface [polypeptide binding]; other site 748280001064 L11 interface [polypeptide binding]; other site 748280001065 putative EF-Tu interaction site [polypeptide binding]; other site 748280001066 putative EF-G interaction site [polypeptide binding]; other site 748280001067 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; cl04593 748280001068 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 748280001069 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 748280001070 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 748280001071 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; cl04593 748280001072 RPB11 interaction site [polypeptide binding]; other site 748280001073 RPB12 interaction site [polypeptide binding]; other site 748280001074 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 748280001075 RPB3 interaction site [polypeptide binding]; other site 748280001076 RPB1 interaction site [polypeptide binding]; other site 748280001077 RPB11 interaction site [polypeptide binding]; other site 748280001078 RPB10 interaction site [polypeptide binding]; other site 748280001079 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 748280001080 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 748280001081 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 748280001082 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 748280001083 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 748280001084 DNA-directed RNA polymerase subunit A''; Provisional; Region: PRK14898 748280001085 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 748280001086 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 748280001087 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 748280001088 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 748280001089 DNA binding site [nucleotide binding] 748280001090 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 748280001091 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 748280001092 S17 interaction site [polypeptide binding]; other site 748280001093 S8 interaction site; other site 748280001094 16S rRNA interaction site [nucleotide binding]; other site 748280001095 streptomycin interaction site [chemical binding]; other site 748280001096 23S rRNA interaction site [nucleotide binding]; other site 748280001097 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 748280001098 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 748280001099 elongation factor G; Reviewed; Region: PRK00007 748280001100 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 748280001101 G1 box; other site 748280001102 putative GEF interaction site [polypeptide binding]; other site 748280001103 GTP/Mg2+ binding site [chemical binding]; other site 748280001104 Switch I region; other site 748280001105 G2 box; other site 748280001106 G3 box; other site 748280001107 Switch II region; other site 748280001108 G4 box; other site 748280001109 G5 box; other site 748280001110 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 748280001111 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 748280001112 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 748280001113 elongation factor Tu; Reviewed; Region: PRK00049 748280001114 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 748280001115 G1 box; other site 748280001116 GEF interaction site [polypeptide binding]; other site 748280001117 GTP/Mg2+ binding site [chemical binding]; other site 748280001118 Switch I region; other site 748280001119 G2 box; other site 748280001120 G3 box; other site 748280001121 Switch II region; other site 748280001122 G4 box; other site 748280001123 G5 box; other site 748280001124 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 748280001125 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 748280001126 Antibiotic Binding Site [chemical binding]; other site 748280001127 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 748280001128 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 748280001129 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 748280001130 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 748280001131 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 748280001132 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 748280001133 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 748280001134 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 748280001135 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 748280001136 putative translocon binding site; other site 748280001137 protein-rRNA interface [nucleotide binding]; other site 748280001138 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 748280001139 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 748280001140 G-X-X-G motif; other site 748280001141 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 748280001142 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 748280001143 23S rRNA interface [nucleotide binding]; other site 748280001144 5S rRNA interface [nucleotide binding]; other site 748280001145 putative antibiotic binding site [chemical binding]; other site 748280001146 L25 interface [polypeptide binding]; other site 748280001147 L27 interface [polypeptide binding]; other site 748280001148 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 748280001149 23S rRNA interface [nucleotide binding]; other site 748280001150 putative translocon interaction site; other site 748280001151 signal recognition particle (SRP54) interaction site; other site 748280001152 L23 interface [polypeptide binding]; other site 748280001153 trigger factor interaction site; other site 748280001154 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 748280001155 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 748280001156 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 748280001157 KOW motif; Region: KOW; cl00354 748280001158 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 748280001159 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 748280001160 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 748280001161 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 748280001162 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 748280001163 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 748280001164 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 748280001165 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 748280001166 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 748280001167 5S rRNA interface [nucleotide binding]; other site 748280001168 23S rRNA interface [nucleotide binding]; other site 748280001169 L5 interface [polypeptide binding]; other site 748280001170 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 748280001171 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 748280001172 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 748280001173 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 748280001174 23S rRNA binding site [nucleotide binding]; other site 748280001175 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 748280001176 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 748280001177 SecY translocase; Region: SecY; pfam00344 748280001178 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 748280001179 rRNA binding site [nucleotide binding]; other site 748280001180 predicted 30S ribosome binding site; other site 748280001181 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 748280001182 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 748280001183 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 748280001184 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 748280001185 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 748280001186 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 748280001187 RNA binding surface [nucleotide binding]; other site 748280001188 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 748280001189 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 748280001190 alphaNTD homodimer interface [polypeptide binding]; other site 748280001191 alphaNTD - beta interaction site [polypeptide binding]; other site 748280001192 alphaNTD - beta' interaction site [polypeptide binding]; other site 748280001193 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 748280001194 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 748280001195 Glutaminase; Region: Glutaminase; cl00907 748280001196 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 748280001197 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 748280001198 MOSC domain; Region: MOSC; pfam03473 748280001199 Cache domain; Region: Cache_2; cl07034 748280001200 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280001201 dimer interface [polypeptide binding]; other site 748280001202 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280001203 putative CheW interface [polypeptide binding]; other site 748280001204 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 748280001205 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 748280001206 putative active site [active] 748280001207 catalytic triad [active] 748280001208 putative dimer interface [polypeptide binding]; other site 748280001209 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 748280001210 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 748280001211 Transporter associated domain; Region: CorC_HlyC; cl08393 748280001212 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 748280001213 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 748280001214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280001215 YCII-related domain; Region: YCII; cl00999 748280001216 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 748280001217 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 748280001218 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; cl15377 748280001219 TRAM domain; Region: TRAM; cl01282 748280001220 PAS domain S-box; Region: sensory_box; TIGR00229 748280001221 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 748280001222 putative active site [active] 748280001223 heme pocket [chemical binding]; other site 748280001224 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 748280001225 PAS domain; Region: PAS_9; pfam13426 748280001226 putative active site [active] 748280001227 heme pocket [chemical binding]; other site 748280001228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280001229 metal binding site [ion binding]; metal-binding site 748280001230 active site 748280001231 I-site; other site 748280001232 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 748280001233 Helix-turn-helix domain; Region: HTH_18; pfam12833 748280001234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280001235 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 748280001236 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 748280001237 catalytic loop [active] 748280001238 iron binding site [ion binding]; other site 748280001239 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 748280001240 FAD binding pocket [chemical binding]; other site 748280001241 FAD binding motif [chemical binding]; other site 748280001242 phosphate binding motif [ion binding]; other site 748280001243 beta-alpha-beta structure motif; other site 748280001244 NAD binding pocket [chemical binding]; other site 748280001245 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 748280001246 inter-subunit interface; other site 748280001247 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 748280001248 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 748280001249 iron-sulfur cluster [ion binding]; other site 748280001250 [2Fe-2S] cluster binding site [ion binding]; other site 748280001251 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 748280001252 putative alpha subunit interface [polypeptide binding]; other site 748280001253 putative active site [active] 748280001254 putative substrate binding site [chemical binding]; other site 748280001255 Fe binding site [ion binding]; other site 748280001256 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 748280001257 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 748280001258 octamer interface [polypeptide binding]; other site 748280001259 active site 748280001260 Muconolactone delta-isomerase; Region: MIase; cl01992 748280001261 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 748280001262 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 748280001263 dimer interface [polypeptide binding]; other site 748280001264 active site 748280001265 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 748280001266 PAS domain; Region: PAS_9; pfam13426 748280001267 putative active site [active] 748280001268 heme pocket [chemical binding]; other site 748280001269 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280001270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280001271 dimer interface [polypeptide binding]; other site 748280001272 putative CheW interface [polypeptide binding]; other site 748280001273 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 748280001274 Helix-turn-helix domains; Region: HTH; cl00088 748280001275 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280001276 GAF domain; Region: GAF_2; pfam13185 748280001277 GAF domain; Region: GAF; cl15785 748280001278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280001279 metal binding site [ion binding]; metal-binding site 748280001280 active site 748280001281 I-site; other site 748280001282 Uncharacterized conserved protein [Function unknown]; Region: COG1565 748280001283 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 748280001284 pteridine reductase; Provisional; Region: PRK09135 748280001285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001286 NAD(P) binding site [chemical binding]; other site 748280001287 active site 748280001288 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 748280001289 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 748280001290 Ligand Binding Site [chemical binding]; other site 748280001291 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; cl15754 748280001292 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 748280001293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001294 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 748280001295 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 748280001296 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 748280001297 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 748280001298 putative trimer interface [polypeptide binding]; other site 748280001299 putative active site [active] 748280001300 putative substrate binding site [chemical binding]; other site 748280001301 putative CoA binding site [chemical binding]; other site 748280001302 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 748280001303 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 748280001304 inhibitor-cofactor binding pocket; inhibition site 748280001305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001306 catalytic residue [active] 748280001307 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 748280001308 trimer interface [polypeptide binding]; other site 748280001309 active site 748280001310 substrate binding site [chemical binding]; other site 748280001311 CoA binding site [chemical binding]; other site 748280001312 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 748280001313 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280001314 catalytic residue [active] 748280001315 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 748280001316 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 748280001317 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280001318 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 748280001319 putative glycosyl transferase; Provisional; Region: PRK10307 748280001320 Acyltransferase family; Region: Acyl_transf_3; pfam01757 748280001321 OpgC protein; Region: OpgC_C; cl00792 748280001322 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 748280001323 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 748280001324 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 748280001325 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 748280001326 inhibitor-cofactor binding pocket; inhibition site 748280001327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001328 catalytic residue [active] 748280001329 Bacterial sugar transferase; Region: Bac_transf; cl00939 748280001330 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 748280001331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001332 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 748280001333 NAD(P) binding site [chemical binding]; other site 748280001334 homodimer interface [polypeptide binding]; other site 748280001335 substrate binding site [chemical binding]; other site 748280001336 active site 748280001337 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 protein; Region: CSP_CDS; cd04458 748280001338 DNA-binding site [nucleotide binding]; DNA binding site 748280001339 RNA-binding motif; other site 748280001340 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 748280001341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280001342 metal binding site [ion binding]; metal-binding site 748280001343 active site 748280001344 I-site; other site 748280001345 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 748280001346 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 748280001347 active site 748280001348 catalytic tetrad [active] 748280001349 Protein with unknown function (DUF469); Region: DUF469; cl01237 748280001350 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 748280001351 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 748280001352 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 748280001353 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 748280001354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280001355 catalytic residue [active] 748280001356 VanZ like family; Region: VanZ; cl01971 748280001357 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 748280001358 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 748280001359 motif II; other site 748280001360 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 748280001361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280001362 DNA-binding site [nucleotide binding]; DNA binding site 748280001363 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 748280001364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001365 homodimer interface [polypeptide binding]; other site 748280001366 catalytic residue [active] 748280001367 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 748280001368 active site residue [active] 748280001369 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 748280001370 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280001371 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 748280001372 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280001373 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 748280001374 tetramerization interface [polypeptide binding]; other site 748280001375 NAD(P) binding site [chemical binding]; other site 748280001376 catalytic residues [active] 748280001377 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 748280001378 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 748280001379 inhibitor-cofactor binding pocket; inhibition site 748280001380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001381 catalytic residue [active] 748280001382 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 748280001383 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280001384 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280001385 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 748280001386 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 748280001387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280001388 Helix-turn-helix domains; Region: HTH; cl00088 748280001389 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 748280001390 feedback inhibition sensing region; other site 748280001391 homohexameric interface [polypeptide binding]; other site 748280001392 nucleotide binding site [chemical binding]; other site 748280001393 N-acetyl-L-glutamate binding site [chemical binding]; other site 748280001394 FOG: CBS domain [General function prediction only]; Region: COG0517 748280001395 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_10; cd04623 748280001396 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 748280001397 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 748280001398 NAD binding site [chemical binding]; other site 748280001399 catalytic Zn binding site [ion binding]; other site 748280001400 structural Zn binding site [ion binding]; other site 748280001401 Transcriptional regulator [Transcription]; Region: IclR; COG1414 748280001402 Helix-turn-helix domains; Region: HTH; cl00088 748280001403 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280001404 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 748280001405 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 748280001406 FAD binding site [chemical binding]; other site 748280001407 substrate binding pocket [chemical binding]; other site 748280001408 catalytic base [active] 748280001409 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 748280001410 CoA-transferase family III; Region: CoA_transf_3; pfam02515 748280001411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001412 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280001413 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 748280001414 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 748280001415 Predicted membrane protein [Function unknown]; Region: COG3671 748280001416 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 748280001417 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 748280001418 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 748280001419 GTP/Mg2+ binding site [chemical binding]; other site 748280001420 G4 box; other site 748280001421 G5 box; other site 748280001422 G1 box; other site 748280001423 Switch I region; other site 748280001424 G2 box; other site 748280001425 G3 box; other site 748280001426 Switch II region; other site 748280001427 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 748280001428 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 includes...; Region: RuvC_resolvase; cl00243 748280001429 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 748280001430 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280001431 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 748280001432 Walker A/P-loop; other site 748280001433 ATP binding site [chemical binding]; other site 748280001434 Q-loop/lid; other site 748280001435 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280001436 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 748280001437 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 748280001438 ABC transporter signature motif; other site 748280001439 Walker B; other site 748280001440 D-loop; other site 748280001441 H-loop/switch region; other site 748280001442 YceI-like domain; Region: YceI; cl01001 748280001443 YceI-like domain; Region: YceI; cl01001 748280001444 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 748280001445 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280001446 Helix-turn-helix domains; Region: HTH; cl00088 748280001447 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; cl12038 748280001448 FtsZ protein binding site [polypeptide binding]; other site 748280001449 Ligase N family; Region: LIGANc; smart00532 748280001450 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 748280001451 nucleotide binding pocket [chemical binding]; other site 748280001452 K-X-D-G motif; other site 748280001453 catalytic site [active] 748280001454 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 748280001455 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 748280001456 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 748280001457 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 748280001458 Dimer interface [polypeptide binding]; other site 748280001459 BRCT sequence motif; other site 748280001460 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 748280001461 binding surface 748280001462 TPR motif; other site 748280001463 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 748280001464 binding surface 748280001465 TPR repeat; Region: TPR_11; pfam13414 748280001466 TPR motif; other site 748280001467 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 748280001468 active site 748280001469 tetramer interface; other site 748280001470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280001471 active site 748280001472 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 748280001473 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 748280001474 AMP-binding enzyme; Region: AMP-binding; cl15778 748280001475 AMP-binding enzyme; Region: AMP-binding; cl15778 748280001476 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280001477 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 748280001478 NAD(P) binding site [chemical binding]; other site 748280001479 catalytic residues [active] 748280001480 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 748280001481 FeS/SAM binding site; other site 748280001482 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 748280001483 putative trimer interface [polypeptide binding]; other site 748280001484 putative CoA binding site [chemical binding]; other site 748280001485 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 748280001486 S-adenosylmethionine binding site [chemical binding]; other site 748280001487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001488 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 748280001489 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 748280001490 inhibitor-cofactor binding pocket; inhibition site 748280001491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001492 catalytic residue [active] 748280001493 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 748280001494 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 748280001495 active site 748280001496 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 748280001497 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 748280001498 Probable Catalytic site; other site 748280001499 metal-binding site 748280001500 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 748280001501 flagellin; Provisional; Region: PRK12802 748280001502 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280001503 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 748280001504 FlaG protein; Region: FlaG; cl00591 748280001505 flagellar capping protein; Reviewed; Region: fliD; PRK08032 748280001506 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 748280001507 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 748280001508 Flagellar protein FliS; Region: FliS; cl00654 748280001509 Flagellar protein FliT; Region: FliT; cl05125 748280001510 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 748280001511 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 748280001512 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 748280001513 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 748280001514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001516 UbiA prenyltransferase family; Region: UbiA; cl00337 748280001517 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 748280001518 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 748280001519 Subunit I/III interface [polypeptide binding]; other site 748280001520 Subunit III/IV interface [polypeptide binding]; other site 748280001521 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 748280001522 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 748280001523 D-pathway; other site 748280001524 Putative ubiquinol binding site [chemical binding]; other site 748280001525 Low-spin heme (heme b) binding site [chemical binding]; other site 748280001526 Putative water exit pathway; other site 748280001527 Binuclear center (heme o3/CuB) [ion binding]; other site 748280001528 K-pathway; other site 748280001529 Putative proton exit pathway; other site 748280001530 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 748280001531 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280001532 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 748280001533 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 748280001534 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 748280001535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 748280001536 CHC2 zinc finger; Region: zf-CHC2; cl15369 748280001537 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 748280001538 Nup85 Nucleoporin; Region: Nucleopor_Nup85; pfam07575 748280001539 Helix-turn-helix domain; Region: HTH_39; pfam14090 748280001540 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 748280001541 integrase; Provisional; Region: PRK09692 748280001542 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 748280001543 active site 748280001544 Int/Topo IB signature motif; other site 748280001545 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 748280001546 hypothetical protein; Provisional; Region: PRK11820 748280001547 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 748280001548 Protein kinase domain; Region: Pkinase; pfam00069 748280001549 Catalytic domain of Protein Kinases; Region: PKc; cd00180 748280001550 active site 748280001551 ATP binding site [chemical binding]; other site 748280001552 substrate binding site [chemical binding]; other site 748280001553 activation loop (A-loop); other site 748280001554 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 748280001555 active site 748280001556 ribonuclease PH; Reviewed; Region: rph; PRK00173 748280001557 Ribonuclease PH; Region: RNase_PH_bact; cd11362 748280001558 hexamer interface [polypeptide binding]; other site 748280001559 active site 748280001560 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 748280001561 active site 748280001562 substrate binding sites [chemical binding]; other site 748280001563 sensor protein RstB; Provisional; Region: PRK10604 748280001564 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 748280001565 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 748280001566 ATP binding site [chemical binding]; other site 748280001567 Mg2+ binding site [ion binding]; other site 748280001568 G-X-G motif; other site 748280001569 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 748280001570 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 748280001571 active site 748280001572 phosphorylation site [posttranslational modification] 748280001573 intermolecular recognition site; other site 748280001574 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 748280001575 DNA binding site [nucleotide binding] 748280001576 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 748280001577 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 748280001578 NAD(P) binding site [chemical binding]; other site 748280001579 catalytic residues [active] 748280001580 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280001581 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 748280001582 non-specific DNA binding site [nucleotide binding]; other site 748280001583 salt bridge; other site 748280001584 sequence-specific DNA binding site [nucleotide binding]; other site 748280001585 Cupin domain; Region: Cupin_2; cl09118 748280001586 Peptidase C26; Region: Peptidase_C26; pfam07722 748280001587 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 748280001588 catalytic triad [active] 748280001589 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280001590 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 748280001591 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280001592 putative aminotransferase; Validated; Region: PRK07480 748280001593 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 748280001594 inhibitor-cofactor binding pocket; inhibition site 748280001595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001596 catalytic residue [active] 748280001597 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 748280001598 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 748280001599 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 748280001600 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280001601 Walker A/P-loop; other site 748280001602 ATP binding site [chemical binding]; other site 748280001603 Q-loop/lid; other site 748280001604 ABC transporter signature motif; other site 748280001605 Walker B; other site 748280001606 D-loop; other site 748280001607 H-loop/switch region; other site 748280001608 TOBE domain; Region: TOBE_2; cl01440 748280001609 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 748280001610 dimer interface [polypeptide binding]; other site 748280001611 conserved gate region; other site 748280001612 putative PBP binding loops; other site 748280001613 ABC-ATPase subunit interface; other site 748280001614 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 748280001615 dimer interface [polypeptide binding]; other site 748280001616 conserved gate region; other site 748280001617 putative PBP binding loops; other site 748280001618 ABC-ATPase subunit interface; other site 748280001619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001620 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280001621 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 748280001622 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 748280001623 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 748280001624 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 748280001625 seryl-tRNA synthetase; Provisional; Region: PRK05431 748280001626 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 748280001627 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 748280001628 Baseplate J-like protein; Region: Baseplate_J; cl01294 748280001629 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 748280001630 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 748280001631 Phage Tail Protein X; Region: Phage_tail_X; cl02088 748280001632 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 748280001633 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 748280001634 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 748280001635 Phage tail tube protein FII; Region: Phage_tube; cl01390 748280001636 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 748280001637 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 748280001638 Gp37 protein; Region: Gp37; pfam09646 748280001639 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 748280001640 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 748280001641 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 748280001642 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 748280001643 tandem repeat interface [polypeptide binding]; other site 748280001644 oligomer interface [polypeptide binding]; other site 748280001645 active site residues [active] 748280001646 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280001647 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 748280001648 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 748280001649 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 748280001650 gpW; Region: gpW; pfam02831 748280001651 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 748280001652 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 748280001653 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 748280001654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 748280001655 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280001656 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 748280001657 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 748280001658 non-specific DNA binding site [nucleotide binding]; other site 748280001659 salt bridge; other site 748280001660 sequence-specific DNA binding site [nucleotide binding]; other site 748280001661 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 748280001662 Catalytic site [active] 748280001663 BRO family, N-terminal domain; Region: Bro-N; cl10591 748280001664 Arc-like DNA binding domain; Region: Arc; pfam03869 748280001665 Arc-like DNA binding domain; Region: Arc; pfam03869 748280001666 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 748280001667 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 748280001668 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 748280001669 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 748280001670 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 748280001671 DNA binding site [nucleotide binding] 748280001672 Int/Topo IB signature motif; other site 748280001673 active site 748280001674 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 748280001675 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 748280001676 FMN binding site [chemical binding]; other site 748280001677 active site 748280001678 catalytic residues [active] 748280001679 substrate binding site [chemical binding]; other site 748280001680 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 748280001681 active site 748280001682 dimerization interface [polypeptide binding]; other site 748280001683 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 748280001684 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 748280001685 FeS/SAM binding site; other site 748280001686 HemN C-terminal domain; Region: HemN_C; pfam06969 748280001687 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 748280001688 homotrimer interaction site [polypeptide binding]; other site 748280001689 putative active site [active] 748280001690 LysE type translocator; Region: LysE; cl00565 748280001691 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280001692 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 748280001693 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 748280001694 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 748280001695 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 748280001696 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 748280001697 ssDNA binding site; other site 748280001698 generic binding surface II; other site 748280001699 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 748280001700 ATP binding site [chemical binding]; other site 748280001701 putative Mg++ binding site [ion binding]; other site 748280001702 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 748280001703 nucleotide binding region [chemical binding]; other site 748280001704 ATP-binding site [chemical binding]; other site 748280001705 Phosphate transporter family; Region: PHO4; cl00396 748280001706 Phosphate transporter family; Region: PHO4; cl00396 748280001707 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 748280001708 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 748280001709 Walker A/P-loop; other site 748280001710 ATP binding site [chemical binding]; other site 748280001711 Q-loop/lid; other site 748280001712 ABC transporter signature motif; other site 748280001713 Walker B; other site 748280001714 D-loop; other site 748280001715 H-loop/switch region; other site 748280001716 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 748280001717 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 748280001718 dimer interface [polypeptide binding]; other site 748280001719 conserved gate region; other site 748280001720 putative PBP binding loops; other site 748280001721 ABC-ATPase subunit interface; other site 748280001722 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 748280001723 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 748280001724 dimer interface [polypeptide binding]; other site 748280001725 conserved gate region; other site 748280001726 putative PBP binding loops; other site 748280001727 ABC-ATPase subunit interface; other site 748280001728 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 748280001729 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 748280001730 dimer interface [polypeptide binding]; other site 748280001731 substrate binding site [chemical binding]; other site 748280001732 catalytic triad [active] 748280001733 Preprotein translocase SecG subunit; Region: SecG; cl09123 748280001734 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 748280001735 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 748280001736 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 748280001737 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 748280001738 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 748280001739 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 748280001740 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 748280001741 putative dimer interface [polypeptide binding]; other site 748280001742 [2Fe-2S] cluster binding site [ion binding]; other site 748280001743 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 748280001744 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 748280001745 SLBB domain; Region: SLBB; pfam10531 748280001746 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 748280001747 NADH dehydrogenase subunit G; Validated; Region: PRK09129 748280001748 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 748280001749 catalytic loop [active] 748280001750 iron binding site [ion binding]; other site 748280001751 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 748280001752 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 748280001753 NADH dehydrogenase; Region: NADHdh; cl00469 748280001754 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 748280001755 4Fe-4S binding domain; Region: Fer4; cl02805 748280001756 4Fe-4S binding domain; Region: Fer4; cl02805 748280001757 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 748280001758 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 748280001759 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 748280001760 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 748280001761 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 748280001762 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 748280001763 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 748280001764 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 748280001765 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 748280001766 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 748280001767 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 748280001768 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 748280001769 putative acyl-acceptor binding pocket; other site 748280001770 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 748280001771 putative acyl-acceptor binding pocket; other site 748280001772 S-adenosylmethionine synthetase; Validated; Region: PRK05250 748280001773 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 748280001774 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 748280001775 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 748280001776 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 748280001777 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 748280001778 oligomerization interface [polypeptide binding]; other site 748280001779 active site 748280001780 NAD+ binding site [chemical binding]; other site 748280001781 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 748280001782 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 748280001783 FAD binding site [chemical binding]; other site 748280001784 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 748280001785 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280001786 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 748280001787 putative DNA binding site [nucleotide binding]; other site 748280001788 putative Zn2+ binding site [ion binding]; other site 748280001789 Helix-turn-helix domains; Region: HTH; cl00088 748280001790 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 748280001791 cofactor binding site; other site 748280001792 metal binding site [ion binding]; metal-binding site 748280001793 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 748280001794 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 748280001795 dimer interface [polypeptide binding]; other site 748280001796 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 748280001797 active site 748280001798 Fe binding site [ion binding]; other site 748280001799 Cupin domain; Region: Cupin_2; cl09118 748280001800 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 748280001801 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 748280001802 maleylacetoacetate isomerase; Region: maiA; TIGR01262 748280001803 GST_N family, Class Zeta 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_Zeta; cd03042 748280001804 C-terminal domain interface [polypeptide binding]; other site 748280001805 GSH binding site (G-site) [chemical binding]; other site 748280001806 putative dimer interface [polypeptide binding]; other site 748280001807 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 748280001808 dimer interface [polypeptide binding]; other site 748280001809 N-terminal domain interface [polypeptide binding]; other site 748280001810 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 748280001811 Cupin domain; Region: Cupin_2; cl09118 748280001812 Helix-turn-helix domain; Region: HTH_18; pfam12833 748280001813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280001814 EamA-like transporter family; Region: EamA; cl01037 748280001815 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280001816 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280001817 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 748280001818 THUMP domain; Region: THUMP; cl12076 748280001819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001820 adenine DNA glycosylase; Provisional; Region: PRK10880 748280001821 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 748280001822 minor groove reading motif; other site 748280001823 helix-hairpin-helix signature motif; other site 748280001824 substrate binding pocket [chemical binding]; other site 748280001825 active site 748280001826 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 748280001827 DNA binding and oxoG recognition site [nucleotide binding] 748280001828 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 748280001829 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280001830 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 748280001831 synthetase active site [active] 748280001832 NTP binding site [chemical binding]; other site 748280001833 metal binding site [ion binding]; metal-binding site 748280001834 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 748280001835 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 748280001836 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 748280001837 23S rRNA interface [nucleotide binding]; other site 748280001838 L3 interface [polypeptide binding]; other site 748280001839 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 748280001840 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 748280001841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001842 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 748280001843 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 748280001844 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 748280001845 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 748280001846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001847 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280001848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280001849 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 748280001850 apolar tunnel; other site 748280001851 heme binding site [chemical binding]; other site 748280001852 dimerization interface [polypeptide binding]; other site 748280001853 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 748280001854 homooctamer interface [polypeptide binding]; other site 748280001855 active site 748280001856 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 748280001857 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 748280001858 MoxR-like ATPases [General function prediction only]; Region: COG0714 748280001859 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 748280001860 Walker A motif; other site 748280001861 ATP binding site [chemical binding]; other site 748280001862 Walker B motif; other site 748280001863 arginine finger; other site 748280001864 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 748280001865 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 748280001866 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 748280001867 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 748280001868 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 748280001869 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 748280001870 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 748280001871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280001872 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 748280001873 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280001874 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 748280001875 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 748280001876 putative peptidoglycan binding site; other site 748280001877 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 748280001878 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 748280001879 S-adenosylmethionine binding site [chemical binding]; other site 748280001880 Survival protein SurE; Region: SurE; cl00448 748280001881 Quinolinate synthetase A protein; Region: NadA; cl00420 748280001882 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 748280001883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001884 CoA-ligase; Region: Ligase_CoA; cl02894 748280001885 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280001886 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 748280001887 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280001888 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 748280001889 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 748280001890 RimM N-terminal domain; Region: RimM; pfam01782 748280001891 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 748280001892 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 748280001893 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 748280001894 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 748280001895 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 748280001896 DNA binding site [nucleotide binding] 748280001897 active site 748280001898 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 748280001899 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 748280001900 Int/Topo IB signature motif; other site 748280001901 active site 748280001902 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 748280001903 Clp amino terminal domain; Region: Clp_N; pfam02861 748280001904 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 748280001905 Walker A motif; other site 748280001906 ATP binding site [chemical binding]; other site 748280001907 Walker B motif; other site 748280001908 arginine finger; other site 748280001909 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 748280001910 Walker A motif; other site 748280001911 ATP binding site [chemical binding]; other site 748280001912 Walker B motif; other site 748280001913 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 748280001914 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 748280001915 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 protein; Region: CSP_CDS; cd04458 748280001916 DNA-binding site [nucleotide binding]; DNA binding site 748280001917 RNA-binding motif; other site 748280001918 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 748280001919 isocitrate dehydrogenase; Validated; Region: PRK07362 748280001920 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 748280001921 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 748280001922 active site 748280001923 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 748280001924 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 748280001925 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 748280001926 MutS domain I; Region: MutS_I; pfam01624 748280001927 MutS domain II; Region: MutS_II; pfam05188 748280001928 MutS family domain IV; Region: MutS_IV; pfam05190 748280001929 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 748280001930 Walker A/P-loop; other site 748280001931 ATP binding site [chemical binding]; other site 748280001932 Q-loop/lid; other site 748280001933 ABC transporter signature motif; other site 748280001934 Walker B; other site 748280001935 D-loop; other site 748280001936 H-loop/switch region; other site 748280001937 Predicted transcriptional regulators [Transcription]; Region: COG1510 748280001938 Helix-turn-helix domains; Region: HTH; cl00088 748280001939 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 748280001940 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 748280001941 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 748280001942 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 748280001943 helicase Cas3; Provisional; Region: PRK09694 748280001944 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 748280001945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280001946 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 748280001947 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 748280001948 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 748280001949 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 748280001950 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 748280001951 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 748280001952 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 748280001953 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 748280001954 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 748280001955 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 748280001956 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 748280001957 inhibitor-cofactor binding pocket; inhibition site 748280001958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001959 catalytic residue [active] 748280001960 Cupin domain; Region: Cupin_2; cl09118 748280001961 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 748280001962 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280001963 tetrameric interface [polypeptide binding]; other site 748280001964 NAD binding site [chemical binding]; other site 748280001965 catalytic residues [active] 748280001966 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 748280001967 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; cl09108 748280001968 phosphate binding site [ion binding]; other site 748280001969 Helix-turn-helix domains; Region: HTH; cl00088 748280001970 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 748280001971 dimerization interface [polypeptide binding]; other site 748280001972 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280001973 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 748280001974 active site 748280001975 phosphorylation site [posttranslational modification] 748280001976 intermolecular recognition site; other site 748280001977 dimerization interface [polypeptide binding]; other site 748280001978 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 748280001979 Walker A motif; other site 748280001980 ATP binding site [chemical binding]; other site 748280001981 Walker B motif; other site 748280001982 arginine finger; other site 748280001983 Helix-turn-helix domains; Region: HTH; cl00088 748280001984 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 748280001985 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 748280001986 dimer interface [polypeptide binding]; other site 748280001987 phosphorylation site [posttranslational modification] 748280001988 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 748280001989 ATP binding site [chemical binding]; other site 748280001990 Mg2+ binding site [ion binding]; other site 748280001991 G-X-G motif; other site 748280001992 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 748280001993 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 748280001994 Walker A/P-loop; other site 748280001995 ATP binding site [chemical binding]; other site 748280001996 Q-loop/lid; other site 748280001997 ABC transporter signature motif; other site 748280001998 Walker B; other site 748280001999 D-loop; other site 748280002000 H-loop/switch region; other site 748280002001 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 748280002002 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 748280002003 putative PBP binding loops; other site 748280002004 dimer interface [polypeptide binding]; other site 748280002005 ABC-ATPase subunit interface; other site 748280002006 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 748280002007 NMT1-like family; Region: NMT1_2; cl15260 748280002008 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 748280002009 active site 748280002010 dimerization interface [polypeptide binding]; other site 748280002011 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 748280002012 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 748280002013 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 748280002014 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 748280002015 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 748280002016 ligand binding site [chemical binding]; other site 748280002017 flexible hinge region; other site 748280002018 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 748280002019 putative switch regulator; other site 748280002020 non-specific DNA interactions [nucleotide binding]; other site 748280002021 DNA binding site [nucleotide binding] 748280002022 sequence specific DNA binding site [nucleotide binding]; other site 748280002023 putative cAMP binding site [chemical binding]; other site 748280002024 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 748280002025 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 748280002026 FeS/SAM binding site; other site 748280002027 HemN C-terminal domain; Region: HemN_C; pfam06969 748280002028 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280002029 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 748280002030 Predicted transcriptional regulator [Transcription]; Region: COG1959 748280002031 Helix-turn-helix domains; Region: HTH; cl00088 748280002032 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 748280002033 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 748280002034 heme-binding site [chemical binding]; other site 748280002035 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 748280002036 FAD binding pocket [chemical binding]; other site 748280002037 FAD binding motif [chemical binding]; other site 748280002038 phosphate binding motif [ion binding]; other site 748280002039 beta-alpha-beta structure motif; other site 748280002040 NAD binding pocket [chemical binding]; other site 748280002041 Heme binding pocket [chemical binding]; other site 748280002042 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 748280002043 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 748280002044 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 748280002045 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 748280002046 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 748280002047 dimerization interface [polypeptide binding]; other site 748280002048 substrate binding site [chemical binding]; other site 748280002049 active site 748280002050 calcium binding site [ion binding]; other site 748280002051 Acetokinase family; Region: Acetate_kinase; cl01029 748280002052 propionate/acetate kinase; Provisional; Region: PRK12379 748280002053 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 748280002054 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 748280002055 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 748280002056 NAD binding site [chemical binding]; other site 748280002057 homotetramer interface [polypeptide binding]; other site 748280002058 homodimer interface [polypeptide binding]; other site 748280002059 substrate binding site [chemical binding]; other site 748280002060 active site 748280002061 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 748280002062 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 748280002063 Protein of unknown function (DUF502); Region: DUF502; cl01107 748280002064 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 748280002065 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 748280002066 dimer interface [polypeptide binding]; other site 748280002067 anticodon binding site; other site 748280002068 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 the...; Region: AspRS_core; cd00777 748280002069 homodimer interface [polypeptide binding]; other site 748280002070 motif 1; other site 748280002071 active site 748280002072 motif 2; other site 748280002073 GAD domain; Region: GAD; pfam02938 748280002074 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 the...; Region: AspRS_core; cd00777 748280002075 motif 3; other site 748280002076 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 748280002077 peroxidase; Provisional; Region: PRK15000 748280002078 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 748280002079 dimer interface [polypeptide binding]; other site 748280002080 decamer (pentamer of dimers) interface [polypeptide binding]; other site 748280002081 catalytic triad [active] 748280002082 peroxidatic and resolving cysteines [active] 748280002083 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 748280002084 intracellular protease, PfpI family; Region: PfpI; TIGR01382 748280002085 conserved cys residue [active] 748280002086 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 748280002087 active site 748280002088 catalytic triad [active] 748280002089 oxyanion hole [active] 748280002090 switch loop; other site 748280002091 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 748280002092 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 748280002093 Walker A/P-loop; other site 748280002094 ATP binding site [chemical binding]; other site 748280002095 Q-loop/lid; other site 748280002096 ABC transporter signature motif; other site 748280002097 Walker B; other site 748280002098 D-loop; other site 748280002099 H-loop/switch region; other site 748280002100 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 748280002101 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 748280002102 FtsX-like permease family; Region: FtsX; cl15850 748280002103 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 748280002104 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 748280002105 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 748280002106 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 748280002107 Dicarboxylate transport; Region: DctA-YdbH; cl14674 748280002108 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 748280002109 YceG-like family; Region: YceG; pfam02618 748280002110 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 748280002111 dimerization interface [polypeptide binding]; other site 748280002112 thymidylate kinase; Validated; Region: tmk; PRK00698 748280002113 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 748280002114 TMP-binding site; other site 748280002115 ATP-binding site [chemical binding]; other site 748280002116 DNA polymerase III subunit delta'; Validated; Region: PRK08699 748280002117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002118 PilZ domain; Region: PilZ; cl01260 748280002119 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 748280002120 active site 748280002121 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280002122 Chorismate mutase type II; Region: CM_2; cl00693 748280002123 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280002124 conserved cys residue [active] 748280002125 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 748280002126 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 748280002127 active site 748280002128 HIGH motif; other site 748280002129 dimer interface [polypeptide binding]; other site 748280002130 KMSKS motif; other site 748280002131 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 748280002132 phosphoenolpyruvate synthase; Validated; Region: PRK06464 748280002133 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 748280002134 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 748280002135 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; cl09155 748280002136 Dodecin; Region: Dodecin; cl01328 748280002137 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002138 Helix-turn-helix domains; Region: HTH; cl00088 748280002139 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 748280002140 putative effector binding pocket; other site 748280002141 dimerization interface [polypeptide binding]; other site 748280002142 EamA-like transporter family; Region: EamA; cl01037 748280002143 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280002144 EamA-like transporter family; Region: EamA; cl01037 748280002145 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; cl00391 748280002146 active site clefts [active] 748280002147 zinc binding site [ion binding]; other site 748280002148 dimer interface [polypeptide binding]; other site 748280002149 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 748280002150 Helix-turn-helix domains; Region: HTH; cl00088 748280002151 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 748280002152 dimerization interface [polypeptide binding]; other site 748280002153 diaminopimelate decarboxylase; Provisional; Region: PRK11165 748280002154 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 748280002155 active site 748280002156 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280002157 substrate binding site [chemical binding]; other site 748280002158 catalytic residues [active] 748280002159 dimer interface [polypeptide binding]; other site 748280002160 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 748280002161 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 748280002162 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 748280002163 ATP binding site [chemical binding]; other site 748280002164 putative Mg++ binding site [ion binding]; other site 748280002165 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 748280002166 nucleotide binding region [chemical binding]; other site 748280002167 ATP-binding site [chemical binding]; other site 748280002168 TRCF domain; Region: TRCF; cl04088 748280002169 PAS fold; Region: PAS_4; pfam08448 748280002170 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 748280002171 putative active site [active] 748280002172 heme pocket [chemical binding]; other site 748280002173 PAS domain S-box; Region: sensory_box; TIGR00229 748280002174 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; cl02459 748280002175 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 748280002176 PAS domain; Region: PAS_9; pfam13426 748280002177 putative active site [active] 748280002178 heme pocket [chemical binding]; other site 748280002179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002180 metal binding site [ion binding]; metal-binding site 748280002181 active site 748280002182 I-site; other site 748280002183 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 748280002184 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 748280002185 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 748280002186 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 748280002187 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 748280002188 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280002189 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280002190 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280002191 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 748280002192 putative homotetramer interface [polypeptide binding]; other site 748280002193 putative homodimer interface [polypeptide binding]; other site 748280002194 putative allosteric switch controlling residues; other site 748280002195 putative metal binding site [ion binding]; other site 748280002196 putative homodimer-homodimer interface [polypeptide binding]; other site 748280002197 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 748280002198 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 748280002199 metal-binding site [ion binding] 748280002200 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 748280002201 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 748280002202 generic binding surface II; other site 748280002203 generic binding surface I; other site 748280002204 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 748280002205 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 748280002206 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 748280002207 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 748280002208 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 748280002209 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 748280002210 Isochorismatase family; Region: Isochorismatase; pfam00857 748280002211 catalytic triad [active] 748280002212 dimer interface [polypeptide binding]; other site 748280002213 conserved cis-peptide bond; other site 748280002214 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280002215 FAD binding domain; Region: FAD_binding_4; pfam01565 748280002216 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280002217 4Fe-4S binding domain; Region: Fer4; cl02805 748280002218 putative acetyltransferase YhhY; Provisional; Region: PRK10140 748280002219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280002220 Coenzyme A binding pocket [chemical binding]; other site 748280002221 uracil-xanthine permease; Region: ncs2; TIGR00801 748280002222 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 748280002223 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280002224 active site 748280002225 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 748280002226 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 748280002227 putative GSH binding site [chemical binding]; other site 748280002228 catalytic residues [active] 748280002229 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 748280002230 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 748280002231 putative ion selectivity filter; other site 748280002232 putative pore gating glutamate residue; other site 748280002233 putative H+/Cl- coupling transport residue; other site 748280002234 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 748280002235 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; cl15754 748280002236 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 748280002237 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 748280002238 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 748280002239 active site 748280002240 substrate binding site [chemical binding]; other site 748280002241 cosubstrate binding site; other site 748280002242 catalytic site [active] 748280002243 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 748280002244 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 748280002245 dimerization interface [polypeptide binding]; other site 748280002246 putative ATP binding site [chemical binding]; other site 748280002247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002248 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 748280002249 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 748280002250 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280002251 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 748280002252 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 748280002253 Walker A motif; other site 748280002254 ATP binding site [chemical binding]; other site 748280002255 Walker B motif; other site 748280002256 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; cl12031 748280002257 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; cl00161 748280002258 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; cl00161 748280002259 hypothetical protein; Provisional; Region: PRK08999 748280002260 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 748280002261 active site 748280002262 8-oxo-dGMP binding site [chemical binding]; other site 748280002263 nudix motif; other site 748280002264 metal binding site [ion binding]; metal-binding site 748280002265 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 748280002266 thiamine phosphate binding site [chemical binding]; other site 748280002267 active site 748280002268 pyrophosphate binding site [ion binding]; other site 748280002269 UbiA prenyltransferase family; Region: UbiA; cl00337 748280002270 UTRA domain; Region: UTRA; cl01230 748280002271 LrgA family; Region: LrgA; cl00608 748280002272 LrgB-like family; Region: LrgB; cl00596 748280002273 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 748280002274 catalytic core [active] 748280002275 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 748280002276 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 748280002277 THF binding site; other site 748280002278 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 748280002279 substrate binding site [chemical binding]; other site 748280002280 THF binding site; other site 748280002281 zinc-binding site [ion binding]; other site 748280002282 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 748280002283 Helix-turn-helix domains; Region: HTH; cl00088 748280002284 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 748280002285 putative dimerization interface [polypeptide binding]; other site 748280002286 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 748280002287 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 748280002288 active site 748280002289 phosphorylation site [posttranslational modification] 748280002290 intermolecular recognition site; other site 748280002291 dimerization interface [polypeptide binding]; other site 748280002292 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 748280002293 Walker A motif; other site 748280002294 ATP binding site [chemical binding]; other site 748280002295 Walker B motif; other site 748280002296 arginine finger; other site 748280002297 Helix-turn-helix domains; Region: HTH; cl00088 748280002298 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 748280002299 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 748280002300 dimer interface [polypeptide binding]; other site 748280002301 phosphorylation site [posttranslational modification] 748280002302 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 748280002303 ATP binding site [chemical binding]; other site 748280002304 Mg2+ binding site [ion binding]; other site 748280002305 G-X-G motif; other site 748280002306 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 748280002307 glutamine synthetase; Provisional; Region: glnA; PRK09469 748280002308 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 748280002309 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280002310 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 748280002311 active site residue [active] 748280002312 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 748280002313 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 748280002314 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 748280002315 shikimate binding site; other site 748280002316 NAD(P) binding site [chemical binding]; other site 748280002317 Transglycosylase; Region: Transgly; cl07896 748280002318 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 748280002319 MgtE intracellular N domain; Region: MgtE_N; cl15244 748280002320 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 748280002321 Divalent cation transporter; Region: MgtE; cl00786 748280002322 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 748280002323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002324 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 748280002325 active site 748280002326 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 748280002327 Cupin superfamily protein; Region: Cupin_4; pfam08007 748280002328 JmjC domain, hydroxylase; Region: JmjC; cl15814 748280002329 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 748280002330 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 748280002331 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 748280002332 dihydrodipicolinate synthase; Region: dapA; TIGR00674 748280002333 dimer interface [polypeptide binding]; other site 748280002334 active site 748280002335 catalytic residue [active] 748280002336 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 748280002337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002338 Walker A/P-loop; other site 748280002339 ATP binding site [chemical binding]; other site 748280002340 Q-loop/lid; other site 748280002341 ABC transporter signature motif; other site 748280002342 Walker B; other site 748280002343 D-loop; other site 748280002344 H-loop/switch region; other site 748280002345 ABC transporter; Region: ABC_tran_2; pfam12848 748280002346 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280002347 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280002348 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 748280002349 NAD(P) binding site [chemical binding]; other site 748280002350 homotetramer interface [polypeptide binding]; other site 748280002351 homodimer interface [polypeptide binding]; other site 748280002352 active site 748280002353 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 748280002354 Helix-turn-helix domains; Region: HTH; cl00088 748280002355 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 748280002356 substrate binding site [chemical binding]; other site 748280002357 dimerization interface [polypeptide binding]; other site 748280002358 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 748280002359 Active Sites [active] 748280002360 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 748280002361 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 748280002362 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 748280002363 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 748280002364 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280002365 ligand binding site [chemical binding]; other site 748280002366 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 748280002367 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 748280002368 active site 748280002369 Riboflavin kinase; Region: Flavokinase; cl03312 748280002370 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 748280002371 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280002372 active site 748280002373 HIGH motif; other site 748280002374 nucleotide binding site [chemical binding]; other site 748280002375 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 748280002376 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 748280002377 active site 748280002378 KMSKS motif; other site 748280002379 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 748280002380 tRNA binding surface [nucleotide binding]; other site 748280002381 anticodon binding site; other site 748280002382 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 748280002383 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 748280002384 LytB protein; Region: LYTB; cl00507 748280002385 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 748280002386 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280002387 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 748280002388 substrate binding pocket [chemical binding]; other site 748280002389 membrane-bound complex binding site; other site 748280002390 hinge residues; other site 748280002391 heat shock protein 90; Provisional; Region: PRK05218 748280002392 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 748280002393 ATP binding site [chemical binding]; other site 748280002394 Mg2+ binding site [ion binding]; other site 748280002395 G-X-G motif; other site 748280002396 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 748280002397 thioredoxin 2; Provisional; Region: PRK10996 748280002398 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 748280002399 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 748280002400 catalytic residues [active] 748280002401 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 748280002402 putative active site [active] 748280002403 catalytic site [active] 748280002404 putative substrate binding site [chemical binding]; other site 748280002405 putative glutathione S-transferase; Provisional; Region: PRK10357 748280002406 GST_N family, unknown subfamily 3; 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_3; cd03049 748280002407 putative C-terminal domain interface [polypeptide binding]; other site 748280002408 putative GSH binding site (G-site) [chemical binding]; other site 748280002409 putative dimer interface [polypeptide binding]; other site 748280002410 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 748280002411 dimer interface [polypeptide binding]; other site 748280002412 N-terminal domain interface [polypeptide binding]; other site 748280002413 putative substrate binding pocket (H-site) [chemical binding]; other site 748280002414 Protein of unknown function (DUF541); Region: SIMPL; cl01077 748280002415 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 748280002416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002417 Walker A/P-loop; other site 748280002418 ATP binding site [chemical binding]; other site 748280002419 Q-loop/lid; other site 748280002420 ABC transporter signature motif; other site 748280002421 Walker B; other site 748280002422 D-loop; other site 748280002423 H-loop/switch region; other site 748280002424 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 748280002425 TM-ABC transporter signature motif; other site 748280002426 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 748280002427 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 748280002428 zinc binding site [ion binding]; other site 748280002429 putative ligand binding site [chemical binding]; other site 748280002430 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 748280002431 active site 748280002432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002433 Helix-turn-helix domains; Region: HTH; cl00088 748280002434 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 748280002435 putative effector binding pocket; other site 748280002436 dimerization interface [polypeptide binding]; other site 748280002437 amino acid transporter; Region: 2A0306; TIGR00909 748280002438 Spore germination protein; Region: Spore_permease; cl15802 748280002439 Spore germination protein; Region: Spore_permease; cl15802 748280002440 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 748280002441 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 748280002442 tetramer interface [polypeptide binding]; other site 748280002443 active site 748280002444 Mg2+/Mn2+ binding site [ion binding]; other site 748280002445 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 748280002446 dimer interface [polypeptide binding]; other site 748280002447 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 748280002448 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 748280002449 chaperone protein DnaJ; Provisional; Region: PRK10767 748280002450 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 748280002451 HSP70 interaction site [polypeptide binding]; other site 748280002452 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 748280002453 substrate binding site [polypeptide binding]; other site 748280002454 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 748280002455 Zn binding sites [ion binding]; other site 748280002456 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 748280002457 dimer interface [polypeptide binding]; other site 748280002458 putative proline-specific permease; Provisional; Region: proY; PRK10580 748280002459 Spore germination protein; Region: Spore_permease; cl15802 748280002460 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 748280002461 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 748280002462 putative Cl- selectivity filter; other site 748280002463 putative pore gating glutamate residue; other site 748280002464 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 748280002465 dimer interface [polypeptide binding]; other site 748280002466 allosteric magnesium binding site [ion binding]; other site 748280002467 active site 748280002468 aspartate-rich active site metal binding site; other site 748280002469 Schiff base residues; other site 748280002470 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 748280002471 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 748280002472 substrate-cofactor binding pocket; other site 748280002473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280002474 catalytic residue [active] 748280002475 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 748280002476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002477 NAD(P) binding site [chemical binding]; other site 748280002478 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 748280002479 dimer interface [polypeptide binding]; other site 748280002480 motif 1; other site 748280002481 active site 748280002482 motif 2; other site 748280002483 motif 3; other site 748280002484 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 748280002485 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 748280002486 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 748280002487 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 748280002488 active site 748280002489 motif I; other site 748280002490 motif II; other site 748280002491 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280002492 putative acyl-acceptor binding pocket; other site 748280002493 Protein of unknown function DUF45; Region: DUF45; cl00636 748280002494 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280002495 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 748280002496 dimer interface [polypeptide binding]; other site 748280002497 active site 748280002498 metal binding site [ion binding]; metal-binding site 748280002499 glutathione binding site [chemical binding]; other site 748280002500 MASE1; Region: MASE1; pfam05231 748280002501 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 748280002502 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; cl02459 748280002503 PAS fold; Region: PAS_4; pfam08448 748280002504 PAS domain S-box; Region: sensory_box; TIGR00229 748280002505 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 748280002506 putative active site [active] 748280002507 heme pocket [chemical binding]; other site 748280002508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002509 metal binding site [ion binding]; metal-binding site 748280002510 active site 748280002511 I-site; other site 748280002512 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 748280002513 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; cl15357 748280002514 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 748280002515 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280002516 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280002517 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280002518 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 748280002519 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; cl02459 748280002520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002521 metal binding site [ion binding]; metal-binding site 748280002522 active site 748280002523 I-site; other site 748280002524 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; cl02459 748280002525 PAS domain; Region: PAS_9; pfam13426 748280002526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002527 metal binding site [ion binding]; metal-binding site 748280002528 active site 748280002529 I-site; other site 748280002530 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 748280002531 phosphoserine phosphatase SerB; Region: serB; TIGR00338 748280002532 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 748280002533 motif II; other site 748280002534 DoxX; Region: DoxX; cl00976 748280002535 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 748280002536 Protein of unknown function (DUF692); Region: DUF692; cl01263 748280002537 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 748280002538 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 748280002539 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280002540 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 748280002541 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 748280002542 active site 748280002543 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 748280002544 active site 748280002545 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 748280002546 Ligand Binding Site [chemical binding]; other site 748280002547 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 748280002548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280002549 DNA-binding site [nucleotide binding]; DNA binding site 748280002550 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 748280002551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280002552 homodimer interface [polypeptide binding]; other site 748280002553 catalytic residue [active] 748280002554 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280002555 EamA-like transporter family; Region: EamA; cl01037 748280002556 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 748280002557 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 748280002558 potential catalytic triad [active] 748280002559 conserved cys residue [active] 748280002560 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 748280002561 FMN binding site [chemical binding]; other site 748280002562 active site 748280002563 substrate binding site [chemical binding]; other site 748280002564 catalytic residue [active] 748280002565 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 748280002566 dimer interface [polypeptide binding]; other site 748280002567 FMN binding site [chemical binding]; other site 748280002568 NADPH bind site [chemical binding]; other site 748280002569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280002570 Helix-turn-helix domains; Region: HTH; cl00088 748280002571 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280002572 Helix-turn-helix domains; Region: HTH; cl00088 748280002573 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 748280002574 dimerization interface [polypeptide binding]; other site 748280002575 substrate binding pocket [chemical binding]; other site 748280002576 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280002577 FAD binding domain; Region: FAD_binding_4; pfam01565 748280002578 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280002579 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 important for the assimilation of...; Region: APSK; cd02027 748280002580 ligand-binding site [chemical binding]; other site 748280002581 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 748280002582 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 748280002583 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280002584 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 748280002585 Tetratricopeptide repeat; Region: TPR_16; pfam13432 748280002586 TPR repeat; Region: TPR_11; pfam13414 748280002587 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 748280002588 binding surface 748280002589 TPR motif; other site 748280002590 Tetratricopeptide repeat; Region: TPR_12; pfam13424 748280002591 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 748280002592 binding surface 748280002593 TPR motif; other site 748280002594 TPR repeat; Region: TPR_11; pfam13414 748280002595 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 748280002596 binding surface 748280002597 TPR motif; other site 748280002598 TPR repeat; Region: TPR_11; pfam13414 748280002599 TPR repeat; Region: TPR_11; pfam13414 748280002600 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 748280002601 binding surface 748280002602 TPR motif; other site 748280002603 Tetratricopeptide repeat; Region: TPR_12; pfam13424 748280002604 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 748280002605 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 748280002606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002607 Flavin Reductases; Region: FlaRed; cl00801 748280002608 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 748280002609 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 748280002610 classical (c) SDRs; Region: SDR_c; cd05233 748280002611 NAD(P) binding site [chemical binding]; other site 748280002612 active site 748280002613 Cysteine dioxygenase type I; Region: CDO_I; cl15835 748280002614 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 748280002615 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 748280002616 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 748280002617 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 748280002618 dimer interface [polypeptide binding]; other site 748280002619 conserved gate region; other site 748280002620 putative PBP binding loops; other site 748280002621 ABC-ATPase subunit interface; other site 748280002622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002623 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 748280002624 Walker A/P-loop; other site 748280002625 ATP binding site [chemical binding]; other site 748280002626 Q-loop/lid; other site 748280002627 ABC transporter signature motif; other site 748280002628 Walker B; other site 748280002629 D-loop; other site 748280002630 H-loop/switch region; other site 748280002631 NifQ; Region: NifQ; pfam04891 748280002632 Helix-turn-helix domains; Region: HTH; cl00088 748280002633 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 748280002634 TOBE domain; Region: TOBE_2; cl01440 748280002635 TOBE domain; Region: TOBE_2; cl01440 748280002636 fumarate hydratase; Reviewed; Region: fumC; PRK00485 748280002637 Class II fumarases; Region: Fumarase_classII; cd01362 748280002638 active site 748280002639 tetramer interface [polypeptide binding]; other site 748280002640 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 748280002641 Fumarase C-terminus; Region: Fumerase_C; cl00795 748280002642 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 748280002643 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 748280002644 putative hydrophobic ligand binding site [chemical binding]; other site 748280002645 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 748280002646 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280002647 Protein of unknown function (DUF419); Region: DUF419; cl15265 748280002648 LysE type translocator; Region: LysE; cl00565 748280002649 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 748280002650 dimer interface [polypeptide binding]; other site 748280002651 OsmC-like protein; Region: OsmC; cl00767 748280002652 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280002653 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_10; cd07251 748280002654 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 748280002655 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 748280002656 Protein of unknown function, DUF488; Region: DUF488; cl01246 748280002657 GlpM protein; Region: GlpM; cl01212 748280002658 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280002659 Helix-turn-helix domains; Region: HTH; cl00088 748280002660 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 748280002661 dimerization interface [polypeptide binding]; other site 748280002662 substrate binding pocket [chemical binding]; other site 748280002663 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 748280002664 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280002665 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280002666 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 748280002667 N-terminal domain interface [polypeptide binding]; other site 748280002668 putative substrate binding pocket (H-site) [chemical binding]; other site 748280002669 dimer interface [polypeptide binding]; other site 748280002670 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 748280002671 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 748280002672 N-terminal plug; other site 748280002673 ligand-binding site [chemical binding]; other site 748280002674 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280002675 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 748280002676 dimerization interface [polypeptide binding]; other site 748280002677 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280002678 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280002679 dimer interface [polypeptide binding]; other site 748280002680 putative CheW interface [polypeptide binding]; other site 748280002681 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 748280002682 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 748280002683 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 748280002684 active site 748280002685 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 748280002686 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 748280002687 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 748280002688 Uncharacterized conserved protein [Function unknown]; Region: COG2308 748280002689 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 748280002690 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280002691 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280002692 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280002693 TfoX N-terminal domain; Region: TfoX_N; cl01167 748280002694 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 748280002695 nucleoside/Zn binding site; other site 748280002696 dimer interface [polypeptide binding]; other site 748280002697 catalytic motif [active] 748280002698 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 748280002699 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 748280002700 GMP synthase; Reviewed; Region: guaA; PRK00074 748280002701 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 748280002702 AMP/PPi binding site [chemical binding]; other site 748280002703 candidate oxyanion hole; other site 748280002704 catalytic triad [active] 748280002705 potential glutamine specificity residues [chemical binding]; other site 748280002706 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 748280002707 ATP Binding subdomain [chemical binding]; other site 748280002708 Ligand Binding sites [chemical binding]; other site 748280002709 Dimerization subdomain; other site 748280002710 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 748280002711 SmpB-tmRNA interface; other site 748280002712 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 748280002713 putative coenzyme Q binding site [chemical binding]; other site 748280002714 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 748280002715 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280002716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002717 metal binding site [ion binding]; metal-binding site 748280002718 active site 748280002719 I-site; other site 748280002720 Septum formation initiator; Region: DivIC; cl11433 748280002721 enolase; Provisional; Region: eno; PRK00077 748280002722 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 748280002723 dimer interface [polypeptide binding]; other site 748280002724 metal binding site [ion binding]; metal-binding site 748280002725 substrate binding pocket [chemical binding]; other site 748280002726 NeuB family; Region: NeuB; cl00496 748280002727 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 748280002728 CTP synthetase; Validated; Region: pyrG; PRK05380 748280002729 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 748280002730 Catalytic site [active] 748280002731 active site 748280002732 UTP binding site [chemical binding]; other site 748280002733 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 748280002734 active site 748280002735 putative oxyanion hole; other site 748280002736 catalytic triad [active] 748280002737 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 748280002738 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 748280002739 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 748280002740 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 748280002741 S-adenosylmethionine binding site [chemical binding]; other site 748280002742 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 748280002743 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 748280002744 active site 748280002745 putative substrate binding pocket [chemical binding]; other site 748280002746 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 748280002747 PAS domain S-box; Region: sensory_box; TIGR00229 748280002748 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 748280002749 putative active site [active] 748280002750 heme pocket [chemical binding]; other site 748280002751 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 748280002752 PAS domain; Region: PAS_9; pfam13426 748280002753 putative active site [active] 748280002754 heme pocket [chemical binding]; other site 748280002755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002756 metal binding site [ion binding]; metal-binding site 748280002757 active site 748280002758 I-site; other site 748280002759 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 748280002760 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 748280002761 PBCV-specific basic adaptor domain; Region: PBCV_basic_adap; pfam08789 748280002762 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 748280002763 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 748280002764 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 748280002765 putative active site [active] 748280002766 putative NTP binding site [chemical binding]; other site 748280002767 putative nucleic acid binding site [nucleotide binding]; other site 748280002768 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 748280002769 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; cl15754 748280002770 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 748280002771 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 748280002772 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280002773 non-specific DNA binding site [nucleotide binding]; other site 748280002774 salt bridge; other site 748280002775 sequence-specific DNA binding site [nucleotide binding]; other site 748280002776 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 748280002777 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 748280002778 Zn binding sites [ion binding]; other site 748280002779 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 748280002780 non-specific DNA binding site [nucleotide binding]; other site 748280002781 salt bridge; other site 748280002782 sequence-specific DNA binding site [nucleotide binding]; other site 748280002783 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 748280002784 non-specific DNA binding site [nucleotide binding]; other site 748280002785 salt bridge; other site 748280002786 sequence-specific DNA binding site [nucleotide binding]; other site 748280002787 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280002788 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 748280002789 Catalytic site [active] 748280002790 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 748280002791 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280002792 Walker A motif; other site 748280002793 ATP binding site [chemical binding]; other site 748280002794 Walker B motif; other site 748280002795 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 748280002796 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 748280002797 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 748280002798 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 748280002799 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 748280002800 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 748280002801 Phage-related minor tail protein [Function unknown]; Region: COG5281 748280002802 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 748280002803 Phage minor tail protein; Region: Phage_min_tail; cl01940 748280002804 Phage minor tail protein L; Region: Phage_tail_L; cl01908 748280002805 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 748280002806 MPN+ (JAMM) motif; other site 748280002807 Zinc-binding site [ion binding]; other site 748280002808 NlpC/P60 family; Region: NLPC_P60; cl11438 748280002809 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 748280002810 Phage-related protein, tail component [Function unknown]; Region: COG4733 748280002811 Putative phage tail protein; Region: Phage-tail_3; pfam13550 748280002812 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 748280002813 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 748280002814 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 748280002815 catalytic residue [active] 748280002816 integrase; Provisional; Region: PRK09692 748280002817 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 748280002818 active site 748280002819 Int/Topo IB signature motif; other site 748280002820 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 748280002821 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 748280002822 dimer interface [polypeptide binding]; other site 748280002823 putative anticodon binding site; other site 748280002824 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 748280002825 motif 1; other site 748280002826 active site 748280002827 motif 2; other site 748280002828 motif 3; other site 748280002829 peptide chain release factor 2; Validated; Region: prfB; PRK00578 748280002830 RF-1 domain; Region: RF-1; cl02875 748280002831 RF-1 domain; Region: RF-1; cl02875 748280002832 malate dehydrogenase; Provisional; Region: PRK05442 748280002833 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 748280002834 NAD(P) binding site [chemical binding]; other site 748280002835 dimer interface [polypeptide binding]; other site 748280002836 malate binding site [chemical binding]; other site 748280002837 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 748280002838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280002839 DNA-binding site [nucleotide binding]; DNA binding site 748280002840 UTRA domain; Region: UTRA; cl01230 748280002841 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 748280002842 Iron-sulfur protein interface; other site 748280002843 proximal quinone binding site [chemical binding]; other site 748280002844 SdhD (CybS) interface [polypeptide binding]; other site 748280002845 proximal heme binding site [chemical binding]; other site 748280002846 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 748280002847 SdhC subunit interface [polypeptide binding]; other site 748280002848 proximal heme binding site [chemical binding]; other site 748280002849 cardiolipin binding site; other site 748280002850 Iron-sulfur protein interface; other site 748280002851 proximal quinone binding site [chemical binding]; other site 748280002852 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 748280002853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002854 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 748280002855 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 748280002856 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; cl00159 748280002857 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 748280002858 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 748280002859 dimer interface [polypeptide binding]; other site 748280002860 Citrate synthase; Region: Citrate_synt; pfam00285 748280002861 active site 748280002862 citrylCoA binding site [chemical binding]; other site 748280002863 NADH binding [chemical binding]; other site 748280002864 cationic pore residues; other site 748280002865 oxalacetate/citrate binding site [chemical binding]; other site 748280002866 coenzyme A binding site [chemical binding]; other site 748280002867 catalytic triad [active] 748280002868 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 748280002869 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 748280002870 TPP-binding site [chemical binding]; other site 748280002871 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 748280002872 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 748280002873 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 748280002874 E3 interaction surface; other site 748280002875 lipoyl attachment site [posttranslational modification]; other site 748280002876 e3 binding domain; Region: E3_binding; pfam02817 748280002877 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 748280002878 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 748280002879 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280002880 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 748280002881 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 748280002882 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280002883 CoA-ligase; Region: Ligase_CoA; cl02894 748280002884 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 748280002885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002886 CoA-ligase; Region: Ligase_CoA; cl02894 748280002887 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 748280002888 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280002889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002890 Helix-turn-helix domains; Region: HTH; cl00088 748280002891 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 748280002892 putative effector binding pocket; other site 748280002893 dimerization interface [polypeptide binding]; other site 748280002894 Late embryogenesis abundant protein; Region: LEA_2; cl12118 748280002895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002896 Helix-turn-helix domains; Region: HTH; cl00088 748280002897 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 748280002898 putative dimerization interface [polypeptide binding]; other site 748280002899 putative outer membrane lipoprotein; Provisional; Region: PRK10510 748280002900 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280002901 ligand binding site [chemical binding]; other site 748280002902 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 748280002903 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 748280002904 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 748280002905 Walker A/P-loop; other site 748280002906 ATP binding site [chemical binding]; other site 748280002907 Q-loop/lid; other site 748280002908 ABC transporter signature motif; other site 748280002909 Walker B; other site 748280002910 D-loop; other site 748280002911 H-loop/switch region; other site 748280002912 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 748280002913 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 748280002914 active site 748280002915 YdjC-like protein; Region: YdjC; cl01344 748280002916 GtrA-like protein; Region: GtrA; cl00971 748280002917 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 748280002918 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 748280002919 Ligand binding site; other site 748280002920 Putative Catalytic site; other site 748280002921 DXD motif; other site 748280002922 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 748280002923 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 748280002924 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 748280002925 substrate binding site [chemical binding]; other site 748280002926 tetramer interface [polypeptide binding]; other site 748280002927 catalytic residue [active] 748280002928 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 748280002929 FixH; Region: FixH; cl01254 748280002930 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 748280002931 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280002932 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 748280002933 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 748280002934 Cytochrome c; Region: Cytochrom_C; cl11414 748280002935 Cytochrome c; Region: Cytochrom_C; cl11414 748280002936 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 748280002937 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 748280002938 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 748280002939 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 748280002940 Low-spin heme binding site [chemical binding]; other site 748280002941 Putative water exit pathway; other site 748280002942 Binuclear center (active site) [active] 748280002943 Putative proton exit pathway; other site 748280002944 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 748280002945 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 748280002946 Zn binding site [ion binding]; other site 748280002947 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 748280002948 aminopeptidase N; Provisional; Region: pepN; PRK14015 748280002949 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 748280002950 active site 748280002951 Zn binding site [ion binding]; other site 748280002952 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; cl15754 748280002953 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 748280002954 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 748280002955 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 748280002956 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 748280002957 Tetramer interface [polypeptide binding]; other site 748280002958 active site 748280002959 FMN-binding site [chemical binding]; other site 748280002960 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280002961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002962 Helix-turn-helix domains; Region: HTH; cl00088 748280002963 Growth-arrest specific micro-tubule binding; Region: GAS; pfam13851 748280002964 IS2 transposase TnpB; Reviewed; Region: PRK09409 748280002965 HTH-like domain; Region: HTH_21; pfam13276 748280002966 Integrase core domain; Region: rve; cl01316 748280002967 Integrase core domain; Region: rve_3; cl15866 748280002968 Helix-turn-helix domains; Region: HTH; cl00088 748280002969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 748280002970 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002971 Helix-turn-helix domains; Region: HTH; cl00088 748280002972 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 748280002973 dimerization interface [polypeptide binding]; other site 748280002974 integrase; Provisional; Region: PRK09692 748280002975 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 748280002976 active site 748280002977 Int/Topo IB signature motif; other site 748280002978 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280002979 Sel1 repeat; Region: Sel1; cl02723 748280002980 Sel1 repeat; Region: Sel1; cl02723 748280002981 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280002982 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 748280002983 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 748280002984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002985 Protein of unknown function DUF45; Region: DUF45; cl00636 748280002986 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 748280002987 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 748280002988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280002990 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 748280002991 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 748280002992 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 748280002993 HsdM N-terminal domain; Region: HsdM_N; pfam12161 748280002994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280002995 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 748280002996 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 748280002997 Protein of unknown function (DUF3729); Region: DUF3729; pfam12526 748280002998 DEAD-like helicases superfamily; Region: DEXDc; smart00487 748280002999 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 748280003000 ATP binding site [chemical binding]; other site 748280003001 putative Mg++ binding site [ion binding]; other site 748280003002 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 748280003003 nucleotide binding region [chemical binding]; other site 748280003004 ATP-binding site [chemical binding]; other site 748280003005 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 748280003006 aminotransferase; Validated; Region: PRK07337 748280003007 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 748280003008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003009 homodimer interface [polypeptide binding]; other site 748280003010 catalytic residue [active] 748280003011 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 748280003012 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 748280003013 Domain of unknown function DUF59; Region: DUF59; cl00941 748280003014 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 748280003015 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 748280003016 Walker A motif; other site 748280003017 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 748280003018 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 748280003019 active site 748280003020 HIGH motif; other site 748280003021 KMSKS motif; other site 748280003022 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 748280003023 tRNA binding surface [nucleotide binding]; other site 748280003024 anticodon binding site; other site 748280003025 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 748280003026 dimer interface [polypeptide binding]; other site 748280003027 putative tRNA-binding site [nucleotide binding]; other site 748280003028 Acylphosphatase; Region: Acylphosphatase; cl00551 748280003029 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 748280003030 PAS domain; Region: PAS_9; pfam13426 748280003031 putative active site [active] 748280003032 heme pocket [chemical binding]; other site 748280003033 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280003034 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280003035 dimer interface [polypeptide binding]; other site 748280003036 putative CheW interface [polypeptide binding]; other site 748280003037 Protein of unknown function (DUF328); Region: DUF328; cl01143 748280003038 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 748280003039 putative active site [active] 748280003040 dimerization interface [polypeptide binding]; other site 748280003041 putative tRNAtyr binding site [nucleotide binding]; other site 748280003042 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 catalyze...; Region: LT_GEWL; cd00254 748280003043 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280003044 catalytic residue [active] 748280003045 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 748280003046 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 748280003047 putative peptidoglycan binding site; other site 748280003048 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 748280003049 putative peptidoglycan binding site; other site 748280003050 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280003051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003052 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 748280003053 RNA/DNA hybrid binding site [nucleotide binding]; other site 748280003054 active site 748280003055 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 748280003056 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 748280003057 active site 748280003058 substrate binding site [chemical binding]; other site 748280003059 catalytic site [active] 748280003060 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 748280003061 substrate binding site; other site 748280003062 dimer interface; other site 748280003063 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 748280003064 homotrimer interaction site [polypeptide binding]; other site 748280003065 zinc binding site [ion binding]; other site 748280003066 CDP-binding sites; other site 748280003067 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 748280003068 tetramer (dimer of dimers) interface [polypeptide binding]; other site 748280003069 active site 748280003070 dimer interface [polypeptide binding]; other site 748280003071 transcriptional regulator PhoU; Provisional; Region: PRK11115 748280003072 PhoU domain; Region: PhoU; pfam01895 748280003073 PhoU domain; Region: PhoU; pfam01895 748280003074 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 748280003075 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 748280003076 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 748280003077 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 748280003078 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 748280003079 metal-binding site [ion binding] 748280003080 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280003081 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 748280003082 metal-binding site [ion binding] 748280003083 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280003084 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280003085 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; cl00207 748280003086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280003087 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 748280003088 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 748280003089 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 748280003090 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280003091 Walker A/P-loop; other site 748280003092 ATP binding site [chemical binding]; other site 748280003093 Q-loop/lid; other site 748280003094 ABC transporter signature motif; other site 748280003095 Walker B; other site 748280003096 D-loop; other site 748280003097 H-loop/switch region; other site 748280003098 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 748280003099 NMT1-like family; Region: NMT1_2; cl15260 748280003100 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 748280003101 Dehydratase family; Region: ILVD_EDD; cl00340 748280003102 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 748280003103 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280003104 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 748280003105 dimer interface [polypeptide binding]; other site 748280003106 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280003107 active site 748280003108 folate binding site [chemical binding]; other site 748280003109 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 748280003110 ATP cone domain; Region: ATP-cone; pfam03477 748280003111 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 748280003112 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 748280003113 catalytic motif [active] 748280003114 Zn binding site [ion binding]; other site 748280003115 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; cl00161 748280003116 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 748280003117 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 748280003118 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 748280003119 active site 748280003120 Zn binding site [ion binding]; other site 748280003121 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 748280003122 putative deacylase active site [active] 748280003123 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 748280003124 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 748280003125 active site 748280003126 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280003127 dimer interface [polypeptide binding]; other site 748280003128 substrate binding site [chemical binding]; other site 748280003129 catalytic residue [active] 748280003130 Arginase family; Region: Arginase; cl00306 748280003131 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280003132 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 748280003133 substrate binding pocket [chemical binding]; other site 748280003134 membrane-bound complex binding site; other site 748280003135 hinge residues; other site 748280003136 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 748280003137 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 748280003138 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 748280003139 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 748280003140 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280003141 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 748280003142 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 748280003143 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 748280003144 Protein of unknown function (DUF796); Region: DUF796; cl01226 748280003145 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 748280003146 Protein of unknown function (DUF877); Region: DUF877; pfam05943 748280003147 Protein of unknown function (DUF770); Region: DUF770; cl01402 748280003148 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 748280003149 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 748280003150 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 748280003151 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 748280003152 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 748280003153 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 748280003154 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 748280003155 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 748280003156 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 748280003157 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 748280003158 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 748280003159 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 748280003160 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 748280003161 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 748280003162 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280003163 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 748280003164 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 748280003165 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 748280003166 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 748280003167 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 748280003168 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 748280003169 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 748280003170 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 748280003171 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 748280003172 Clp amino terminal domain; Region: Clp_N; pfam02861 748280003173 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 748280003174 Walker A motif; other site 748280003175 ATP binding site [chemical binding]; other site 748280003176 Walker B motif; other site 748280003177 arginine finger; other site 748280003178 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 748280003179 Walker A motif; other site 748280003180 ATP binding site [chemical binding]; other site 748280003181 Walker B motif; other site 748280003182 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 748280003183 PAAR motif; Region: PAAR_motif; cl15808 748280003184 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 748280003185 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 748280003186 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 748280003187 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 748280003188 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 748280003189 putative DNA binding site [nucleotide binding]; other site 748280003190 putative Zn2+ binding site [ion binding]; other site 748280003191 Helix-turn-helix domains; Region: HTH; cl00088 748280003192 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280003193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003194 alanine racemase; Reviewed; Region: dadX; PRK03646 748280003195 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 748280003196 active site 748280003197 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280003198 substrate binding site [chemical binding]; other site 748280003199 catalytic residues [active] 748280003200 dimer interface [polypeptide binding]; other site 748280003201 Transcriptional regulators [Transcription]; Region: PurR; COG1609 748280003202 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 748280003203 DNA binding site [nucleotide binding] 748280003204 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 748280003205 putative dimerization interface [polypeptide binding]; other site 748280003206 putative ligand binding site [chemical binding]; other site 748280003207 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 748280003208 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 748280003209 ATP-binding site [chemical binding]; other site 748280003210 Gluconate-6-phosphate binding site [chemical binding]; other site 748280003211 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 748280003212 D-galactonate transporter; Region: 2A0114; TIGR00893 748280003213 putative substrate translocation pore; other site 748280003214 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 748280003215 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 748280003216 active site 748280003217 phosphorylation site [posttranslational modification] 748280003218 intermolecular recognition site; other site 748280003219 dimerization interface [polypeptide binding]; other site 748280003220 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 748280003221 DNA binding residues [nucleotide binding] 748280003222 dimerization interface [polypeptide binding]; other site 748280003223 CHASE domain; Region: CHASE; cl01369 748280003224 PAS domain S-box; Region: sensory_box; TIGR00229 748280003225 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 748280003226 putative active site [active] 748280003227 heme pocket [chemical binding]; other site 748280003228 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 748280003229 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 748280003230 putative active site [active] 748280003231 heme pocket [chemical binding]; other site 748280003232 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 748280003233 dimer interface [polypeptide binding]; other site 748280003234 phosphorylation site [posttranslational modification] 748280003235 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 748280003236 ATP binding site [chemical binding]; other site 748280003237 Mg2+ binding site [ion binding]; other site 748280003238 G-X-G motif; other site 748280003239 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 748280003240 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 748280003241 putative ligand binding site [chemical binding]; other site 748280003242 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280003243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003244 DNA-binding site [nucleotide binding]; DNA binding site 748280003245 FCD domain; Region: FCD; cl11656 748280003246 potential protein location (hypothetical protein NH8B_1148 [Pseudogulbenkiania sp. NH8B]) that overlaps RNA (tRNA-H) 748280003247 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 748280003248 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 748280003249 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 748280003250 homodimer interface [polypeptide binding]; other site 748280003251 NADP binding site [chemical binding]; other site 748280003252 substrate binding site [chemical binding]; other site 748280003253 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 748280003254 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280003255 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280003256 putative active site [active] 748280003257 putative substrate binding site [chemical binding]; other site 748280003258 putative cosubstrate binding site; other site 748280003259 catalytic site [active] 748280003260 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 748280003261 catalytic residues [active] 748280003262 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 748280003263 nudix motif; other site 748280003264 hypothetical protein; Provisional; Region: PRK10396 748280003265 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 748280003266 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 748280003267 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 748280003268 S-adenosylmethionine binding site [chemical binding]; other site 748280003269 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280003270 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 748280003271 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003272 DNA-binding site [nucleotide binding]; DNA binding site 748280003273 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 748280003274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003275 homodimer interface [polypeptide binding]; other site 748280003276 catalytic residue [active] 748280003277 LysE type translocator; Region: LysE; cl00565 748280003278 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 748280003279 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 748280003280 active site 748280003281 HIGH motif; other site 748280003282 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 748280003283 active site 748280003284 KMSKS motif; other site 748280003285 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 748280003286 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 748280003287 heme binding site [chemical binding]; other site 748280003288 ferroxidase pore; other site 748280003289 ferroxidase diiron center [ion binding]; other site 748280003290 Yip1 domain; Region: Yip1; cl12048 748280003291 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 748280003292 Benzoate membrane transport protein; Region: BenE; pfam03594 748280003293 benzoate transporter; Region: benE; TIGR00843 748280003294 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 748280003295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003296 DNA-binding site [nucleotide binding]; DNA binding site 748280003297 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 748280003298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003299 homodimer interface [polypeptide binding]; other site 748280003300 catalytic residue [active] 748280003301 LysE type translocator; Region: LysE; cl00565 748280003302 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 748280003303 catalytic triad [active] 748280003304 conserved cis-peptide bond; other site 748280003305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 748280003306 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 748280003307 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 748280003308 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 748280003309 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280003310 conserved cys residue [active] 748280003311 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003312 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280003313 LPP20 lipoprotein; Region: LPP20; cl15824 748280003314 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 748280003315 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 748280003316 putative ligand binding site [chemical binding]; other site 748280003317 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 748280003318 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 748280003319 catalytic loop [active] 748280003320 iron binding site [ion binding]; other site 748280003321 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 748280003322 FAD binding pocket [chemical binding]; other site 748280003323 conserved FAD binding motif [chemical binding]; other site 748280003324 phosphate binding motif [ion binding]; other site 748280003325 beta-alpha-beta structure motif; other site 748280003326 NAD binding pocket [chemical binding]; other site 748280003327 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 748280003328 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 748280003329 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 748280003330 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 748280003331 dimer interface [polypeptide binding]; other site 748280003332 conserved gate region; other site 748280003333 putative PBP binding loops; other site 748280003334 ABC-ATPase subunit interface; other site 748280003335 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 748280003336 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280003337 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 748280003338 Walker A/P-loop; other site 748280003339 ATP binding site [chemical binding]; other site 748280003340 Q-loop/lid; other site 748280003341 ABC transporter signature motif; other site 748280003342 Walker B; other site 748280003343 D-loop; other site 748280003344 H-loop/switch region; other site 748280003345 TOBE domain; Region: TOBE_2; cl01440 748280003346 LysE type translocator; Region: LysE; cl00565 748280003347 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 748280003348 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 748280003349 putative NAD(P) binding site [chemical binding]; other site 748280003350 dimer interface [polypeptide binding]; other site 748280003351 transcriptional activator TtdR; Provisional; Region: PRK09801 748280003352 Helix-turn-helix domains; Region: HTH; cl00088 748280003353 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 748280003354 putative effector binding pocket; other site 748280003355 dimerization interface [polypeptide binding]; other site 748280003356 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 748280003357 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280003358 excinuclease ABC subunit B; Provisional; Region: PRK05298 748280003359 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 748280003360 ATP binding site [chemical binding]; other site 748280003361 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 748280003362 nucleotide binding region [chemical binding]; other site 748280003363 ATP-binding site [chemical binding]; other site 748280003364 Ultra-violet resistance protein B; Region: UvrB; pfam12344 748280003365 UvrB/uvrC motif; Region: UVR; pfam02151 748280003366 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 protein; Region: CSP_CDS; cd04458 748280003367 DNA-binding site [nucleotide binding]; DNA binding site 748280003368 RNA-binding motif; other site 748280003369 Low molecular weight phosphatase family; Region: LMWPc; cd00115 748280003370 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 748280003371 active site 748280003372 CheB methylesterase; Region: CheB_methylest; pfam01339 748280003373 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280003374 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 748280003375 active site 748280003376 phosphorylation site [posttranslational modification] 748280003377 intermolecular recognition site; other site 748280003378 dimerization interface [polypeptide binding]; other site 748280003379 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 748280003380 Walker A motif; other site 748280003381 ATP binding site [chemical binding]; other site 748280003382 Walker B motif; other site 748280003383 arginine finger; other site 748280003384 Helix-turn-helix domains; Region: HTH; cl00088 748280003385 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 748280003386 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 748280003387 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 748280003388 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 748280003389 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 748280003390 MgtE intracellular N domain; Region: MgtE_N; cl15244 748280003391 FliG C-terminal domain; Region: FliG_C; pfam01706 748280003392 flagellar assembly protein H; Validated; Region: fliH; PRK05687 748280003393 Flagellar assembly protein FliH; Region: FliH; pfam02108 748280003394 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 748280003395 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 748280003396 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 748280003397 Walker A motif/ATP binding site; other site 748280003398 Walker B motif; other site 748280003399 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 748280003400 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 748280003401 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 748280003402 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 748280003403 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 748280003404 flagellar motor switch protein; Validated; Region: fliN; PRK05698 748280003405 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 748280003406 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 748280003407 FliP family; Region: FliP; cl00593 748280003408 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 748280003409 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280003410 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 748280003411 potential frameshift: common BLAST hit: gi|34498579|ref|NP_902794.1| flagellar biosynthetic protein FliR 748280003412 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 748280003413 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 748280003414 Transcriptional regulator; Region: Transcrip_reg; cl00361 748280003415 proline aminopeptidase P II; Provisional; Region: PRK10879 748280003416 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 748280003417 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 748280003418 active site 748280003419 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 748280003420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003422 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 748280003423 dimerization domain [polypeptide binding]; other site 748280003424 dimer interface [polypeptide binding]; other site 748280003425 catalytic residues [active] 748280003426 Gram-negative bacterial tonB protein; Region: TonB; cl10048 748280003427 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 748280003428 acyl-CoA binding pocket [chemical binding]; other site 748280003429 CoA binding site [chemical binding]; other site 748280003430 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 748280003431 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 748280003432 NAD binding site [chemical binding]; other site 748280003433 substrate binding site [chemical binding]; other site 748280003434 homodimer interface [polypeptide binding]; other site 748280003435 active site 748280003436 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 748280003437 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 748280003438 NADP binding site [chemical binding]; other site 748280003439 active site 748280003440 putative substrate binding site [chemical binding]; other site 748280003441 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 748280003442 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 748280003443 substrate binding site; other site 748280003444 tetramer interface; other site 748280003445 Cupin domain; Region: Cupin_2; cl09118 748280003446 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 748280003447 dimerization interface [polypeptide binding]; other site 748280003448 allosteric effector site; other site 748280003449 active site 748280003450 ADP/pyrophosphate binding site [chemical binding]; other site 748280003451 fructose-1,6-bisphosphate binding site; other site 748280003452 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 748280003453 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 748280003454 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 748280003455 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 748280003456 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; cl00159 748280003457 4Fe-4S binding domain; Region: Fer4; cl02805 748280003458 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 748280003459 [4Fe-4S] binding site [ion binding]; other site 748280003460 molybdopterin cofactor binding site; other site 748280003461 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 748280003462 molybdopterin cofactor binding site; other site 748280003463 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 748280003464 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 748280003465 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280003466 Beta-Casp domain; Region: Beta-Casp; cl12567 748280003467 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 748280003468 Clp protease; Region: CLP_protease; pfam00574 748280003469 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 748280003470 oligomer interface [polypeptide binding]; other site 748280003471 active site residues [active] 748280003472 pyruvate kinase; Provisional; Region: PRK06247 748280003473 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; cl09155 748280003474 domain interfaces; other site 748280003475 active site 748280003476 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 748280003477 tetrameric interface [polypeptide binding]; other site 748280003478 activator binding site; other site 748280003479 NADP binding site [chemical binding]; other site 748280003480 substrate binding site [chemical binding]; other site 748280003481 catalytic residues [active] 748280003482 putative oxidoreductase; Provisional; Region: PRK11579 748280003483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003484 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 748280003485 Domain of unknown function (DUF336); Region: DUF336; cl01249 748280003486 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 748280003487 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 748280003488 active site 748280003489 dimer interface [polypeptide binding]; other site 748280003490 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 748280003491 dimer interface [polypeptide binding]; other site 748280003492 active site 748280003493 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 748280003494 trimer interface [polypeptide binding]; other site 748280003495 eyelet of channel; other site 748280003496 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 748280003497 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 748280003498 active site 748280003499 motif I; other site 748280003500 motif II; other site 748280003501 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280003502 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 748280003503 putative substrate binding site [chemical binding]; other site 748280003504 putative ATP binding site [chemical binding]; other site 748280003505 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 748280003506 TM-ABC transporter signature motif; other site 748280003507 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 748280003508 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 748280003509 Walker A/P-loop; other site 748280003510 ATP binding site [chemical binding]; other site 748280003511 Q-loop/lid; other site 748280003512 ABC transporter signature motif; other site 748280003513 Walker B; other site 748280003514 D-loop; other site 748280003515 H-loop/switch region; other site 748280003516 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 748280003517 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 748280003518 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 748280003519 putative ligand binding site [chemical binding]; other site 748280003520 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 748280003521 P-loop; other site 748280003522 active site 748280003523 phosphorylation site [posttranslational modification] 748280003524 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 748280003525 P-loop; other site 748280003526 active site 748280003527 phosphorylation site [posttranslational modification] 748280003528 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 748280003529 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 748280003530 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 748280003531 putative substrate binding site [chemical binding]; other site 748280003532 putative ATP binding site [chemical binding]; other site 748280003533 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 748280003534 active site 748280003535 phosphorylation site [posttranslational modification] 748280003536 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 748280003537 dimerization domain swap beta strand [polypeptide binding]; other site 748280003538 regulatory protein interface [polypeptide binding]; other site 748280003539 active site 748280003540 regulatory phosphorylation site [posttranslational modification]; other site 748280003541 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 748280003542 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 748280003543 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 748280003544 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; cl09155 748280003545 Transcriptional regulators [Transcription]; Region: PurR; COG1609 748280003546 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 748280003547 DNA binding site [nucleotide binding] 748280003548 domain linker motif; other site 748280003549 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 748280003550 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 748280003551 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 748280003552 Subunit I/III interface [polypeptide binding]; other site 748280003553 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 748280003554 Subunit I/III interface [polypeptide binding]; other site 748280003555 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 748280003556 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 748280003557 D-pathway; other site 748280003558 Low-spin heme binding site [chemical binding]; other site 748280003559 Putative water exit pathway; other site 748280003560 Binuclear center (active site) [active] 748280003561 K-pathway; other site 748280003562 Putative proton exit pathway; other site 748280003563 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 748280003564 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280003565 Cytochrome c; Region: Cytochrom_C; cl11414 748280003566 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 748280003567 catalytic residues [active] 748280003568 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_5; cd06153 748280003569 homotrimer interaction site [polypeptide binding]; other site 748280003570 putative active site [active] 748280003571 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 748280003572 active site 748280003573 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280003574 Predicted membrane protein [Function unknown]; Region: COG4648 748280003575 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 748280003576 AMP-binding enzyme; Region: AMP-binding; cl15778 748280003577 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 748280003578 active site 2 [active] 748280003579 dimer interface [polypeptide binding]; other site 748280003580 active site 1 [active] 748280003581 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 748280003582 putative acyl-acceptor binding pocket; other site 748280003583 Predicted exporter [General function prediction only]; Region: COG4258 748280003584 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280003585 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 748280003586 NodB motif; other site 748280003587 active site 748280003588 catalytic site [active] 748280003589 metal binding site [ion binding]; metal-binding site 748280003590 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 748280003591 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 748280003592 dimer interface [polypeptide binding]; other site 748280003593 active site 748280003594 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 748280003595 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 748280003596 putative active site 1 [active] 748280003597 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280003598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003599 NAD(P) binding site [chemical binding]; other site 748280003600 active site 748280003601 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 748280003602 active site 2 [active] 748280003603 active site 1 [active] 748280003604 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 748280003605 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 748280003606 dimer interface [polypeptide binding]; other site 748280003607 active site 748280003608 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280003609 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280003610 putative acyl-acceptor binding pocket; other site 748280003611 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 748280003612 Ligand binding site; other site 748280003613 Putative Catalytic site; other site 748280003614 DXD motif; other site 748280003615 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 748280003616 S-adenosylmethionine binding site [chemical binding]; other site 748280003617 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 748280003618 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 748280003619 dimer interface [polypeptide binding]; other site 748280003620 ssDNA binding site [nucleotide binding]; other site 748280003621 tetramer (dimer of dimers) interface [polypeptide binding]; other site 748280003622 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 748280003623 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280003624 putative substrate translocation pore; other site 748280003625 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 748280003626 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 748280003627 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 748280003628 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 748280003629 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 748280003630 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 748280003631 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280003632 substrate binding pocket [chemical binding]; other site 748280003633 membrane-bound complex binding site; other site 748280003634 hinge residues; other site 748280003635 Predicted amidohydrolase [General function prediction only]; Region: COG0388 748280003636 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 748280003637 putative active site [active] 748280003638 catalytic triad [active] 748280003639 dimer interface [polypeptide binding]; other site 748280003640 putative aminotransferase; Provisional; Region: PRK12414 748280003641 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 748280003642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003643 homodimer interface [polypeptide binding]; other site 748280003644 catalytic residue [active] 748280003645 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280003646 Helix-turn-helix domains; Region: HTH; cl00088 748280003647 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 748280003648 dimerization interface [polypeptide binding]; other site 748280003649 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 748280003650 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 748280003651 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 748280003652 nudix motif; other site 748280003653 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 748280003654 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 748280003655 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 748280003656 heme binding site [chemical binding]; other site 748280003657 ferroxidase pore; other site 748280003658 ferroxidase diiron center [ion binding]; other site 748280003659 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 748280003660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 748280003661 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 748280003662 Di-iron ligands [ion binding]; other site 748280003663 Transposase; Region: DDE_Tnp_ISL3; pfam01610 748280003664 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 748280003665 homotrimer interaction site [polypeptide binding]; other site 748280003666 putative active site [active] 748280003667 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 748280003668 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 748280003669 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 748280003670 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 748280003671 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 748280003672 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 748280003673 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280003674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280003675 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 748280003676 exonuclease I; Provisional; Region: sbcB; PRK11779 748280003677 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 748280003678 active site 748280003679 substrate binding site [chemical binding]; other site 748280003680 catalytic site [active] 748280003681 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 748280003682 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 748280003683 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 748280003684 ATP binding site [chemical binding]; other site 748280003685 Mg2+ binding site [ion binding]; other site 748280003686 G-X-G motif; other site 748280003687 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 748280003688 ATP binding site [chemical binding]; other site 748280003689 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 748280003690 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 748280003691 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 748280003692 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 748280003693 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 748280003694 Protein export membrane protein; Region: SecD_SecF; cl14618 748280003695 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 748280003696 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 748280003697 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 748280003698 Protein export membrane protein; Region: SecD_SecF; cl14618 748280003699 Preprotein translocase subunit; Region: YajC; cl00806 748280003700 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 748280003701 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 748280003702 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 748280003703 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 748280003704 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 748280003705 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 748280003706 active site 748280003707 dimer interface [polypeptide binding]; other site 748280003708 motif 1; other site 748280003709 motif 2; other site 748280003710 motif 3; other site 748280003711 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 748280003712 anticodon binding site; other site 748280003713 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 748280003714 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 748280003715 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 748280003716 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 748280003717 ribosomal protein L20; Region: rpl20; CHL00068 748280003718 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 748280003719 23S rRNA binding site [nucleotide binding]; other site 748280003720 L21 binding site [polypeptide binding]; other site 748280003721 L13 binding site [polypeptide binding]; other site 748280003722 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 748280003723 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 748280003724 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 748280003725 dimer interface [polypeptide binding]; other site 748280003726 motif 1; other site 748280003727 active site 748280003728 motif 2; other site 748280003729 motif 3; other site 748280003730 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 748280003731 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 748280003732 putative tRNA-binding site [nucleotide binding]; other site 748280003733 B3/4 domain; Region: B3_4; cl11458 748280003734 tRNA synthetase B5 domain; Region: B5; cl08394 748280003735 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 748280003736 dimer interface [polypeptide binding]; other site 748280003737 motif 1; other site 748280003738 motif 3; other site 748280003739 motif 2; other site 748280003740 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 748280003741 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 748280003742 IHF - DNA interface [nucleotide binding]; other site 748280003743 IHF dimer interface [polypeptide binding]; other site 748280003744 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 748280003745 DNA binding residues [nucleotide binding] 748280003746 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 748280003747 S-adenosylmethionine binding site [chemical binding]; other site 748280003748 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 748280003749 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280003750 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280003751 dimer interface [polypeptide binding]; other site 748280003752 putative CheW interface [polypeptide binding]; other site 748280003753 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 748280003754 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 748280003755 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 748280003756 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 748280003757 potential frameshift: common BLAST hit: gi|82702860|ref|YP_412426.1| glycine cleavage T protein (aminomethyl transferase) 748280003758 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 748280003759 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 748280003760 H-NS histone family; Region: Histone_HNS; pfam00816 748280003761 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 748280003762 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 748280003763 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 748280003764 putative active site [active] 748280003765 Zn binding site [ion binding]; other site 748280003766 Phasin protein; Region: Phasin_2; cl11491 748280003767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 748280003768 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 748280003769 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 748280003770 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 748280003771 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 748280003772 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 748280003773 FOG: CBS domain [General function prediction only]; Region: COG0517 748280003774 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 748280003775 FOG: CBS domain [General function prediction only]; Region: COG0517 748280003776 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 748280003777 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 748280003778 PAS domain; Region: PAS_9; pfam13426 748280003779 putative active site [active] 748280003780 heme pocket [chemical binding]; other site 748280003781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280003782 metal binding site [ion binding]; metal-binding site 748280003783 active site 748280003784 I-site; other site 748280003785 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 748280003786 Cupin domain; Region: Cupin_2; cl09118 748280003787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003788 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280003789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003790 LysE type translocator; Region: LysE; cl00565 748280003791 seryl-tRNA synthetase; Provisional; Region: PRK05431 748280003792 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 748280003793 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 bound...; Region: SerRS_core; cd00770 748280003794 dimer interface [polypeptide binding]; other site 748280003795 active site 748280003796 motif 1; other site 748280003797 motif 2; other site 748280003798 motif 3; other site 748280003799 recombination factor protein RarA; Reviewed; Region: PRK13342 748280003800 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 748280003801 Walker A motif; other site 748280003802 ATP binding site [chemical binding]; other site 748280003803 Walker B motif; other site 748280003804 arginine finger; other site 748280003805 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 748280003806 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 748280003807 NAD synthetase; Provisional; Region: PRK13981 748280003808 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 748280003809 multimer interface [polypeptide binding]; other site 748280003810 active site 748280003811 catalytic triad [active] 748280003812 protein interface 1 [polypeptide binding]; other site 748280003813 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 748280003814 homodimer interface [polypeptide binding]; other site 748280003815 NAD binding pocket [chemical binding]; other site 748280003816 ATP binding pocket [chemical binding]; other site 748280003817 Mg binding site [ion binding]; other site 748280003818 active-site loop [active] 748280003819 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280003820 Protein of unknown function, DUF482; Region: DUF482; pfam04339 748280003821 Transcriptional regulators [Transcription]; Region: FadR; COG2186 748280003822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003823 DNA-binding site [nucleotide binding]; DNA binding site 748280003824 FCD domain; Region: FCD; cl11656 748280003825 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 748280003826 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 748280003827 putative NAD(P) binding site [chemical binding]; other site 748280003828 active site 748280003829 putative substrate binding site [chemical binding]; other site 748280003830 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 748280003831 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 748280003832 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 748280003833 putative substrate translocation pore; other site 748280003834 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 748280003835 intersubunit interface [polypeptide binding]; other site 748280003836 active site 748280003837 Zn2+ binding site [ion binding]; other site 748280003838 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 748280003839 fructose-bisphosphate aldolase; Region: PLN02858 748280003840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003841 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280003842 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280003843 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280003844 conserved cys residue [active] 748280003845 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 748280003846 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 748280003847 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 748280003848 active site 748280003849 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280003850 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 748280003851 dimer interface [polypeptide binding]; other site 748280003852 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280003853 active site 748280003854 folate binding site [chemical binding]; other site 748280003855 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 748280003856 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 748280003857 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 748280003858 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 748280003859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003860 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 748280003861 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 748280003862 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; cl00159 748280003863 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 748280003864 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280003865 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 748280003866 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 748280003867 active site 748280003868 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 748280003869 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280003870 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280003871 putative active site [active] 748280003872 putative substrate binding site [chemical binding]; other site 748280003873 putative cosubstrate binding site; other site 748280003874 catalytic site [active] 748280003875 Sodium:solute symporter family; Region: SSF; cl00456 748280003876 Sodium:solute symporter family; Region: SSF; cl00456 748280003877 Creatinine amidohydrolase; Region: Creatininase; cl00618 748280003878 Cache domain; Region: Cache_1; pfam02743 748280003879 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 748280003880 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280003881 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280003882 dimer interface [polypeptide binding]; other site 748280003883 putative CheW interface [polypeptide binding]; other site 748280003884 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 748280003885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003886 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 748280003887 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280003888 conserved cys residue [active] 748280003889 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280003890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003891 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 748280003892 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 748280003893 Isochorismatase family; Region: Isochorismatase; pfam00857 748280003894 catalytic triad [active] 748280003895 metal binding site [ion binding]; metal-binding site 748280003896 conserved cis-peptide bond; other site 748280003897 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 748280003898 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 748280003899 active site 748280003900 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 748280003901 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 748280003902 putative active site [active] 748280003903 putative metal binding site [ion binding]; other site 748280003904 Archease protein family (MTH1598/TM1083); Region: Archease; cl00606 748280003905 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 748280003906 hypothetical protein; Reviewed; Region: PRK09588 748280003907 histidine kinase; Provisional; Region: PRK13557 748280003908 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 748280003909 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 748280003910 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280003911 Zn2+ binding site [ion binding]; other site 748280003912 Mg2+ binding site [ion binding]; other site 748280003913 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 748280003914 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 748280003915 ATP binding site [chemical binding]; other site 748280003916 Mg2+ binding site [ion binding]; other site 748280003917 G-X-G motif; other site 748280003918 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280003919 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; cl15306 748280003920 substrate binding pocket [chemical binding]; other site 748280003921 membrane-bound complex binding site; other site 748280003922 hinge residues; other site 748280003923 transcriptional regulator; Provisional; Region: PRK10632 748280003924 Helix-turn-helix domains; Region: HTH; cl00088 748280003925 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 748280003926 putative effector binding pocket; other site 748280003927 putative dimerization interface [polypeptide binding]; other site 748280003928 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 748280003929 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 748280003930 substrate binding site [chemical binding]; other site 748280003931 catalytic Zn binding site [ion binding]; other site 748280003932 NAD binding site [chemical binding]; other site 748280003933 structural Zn binding site [ion binding]; other site 748280003934 dimer interface [polypeptide binding]; other site 748280003935 Predicted esterase [General function prediction only]; Region: COG0627 748280003936 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; cl12031 748280003937 choline dehydrogenase; Validated; Region: PRK02106 748280003938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003939 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 748280003940 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280003941 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 748280003942 tetrameric interface [polypeptide binding]; other site 748280003943 NAD binding site [chemical binding]; other site 748280003944 catalytic residues [active] 748280003945 benzoate transport; Region: 2A0115; TIGR00895 748280003946 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 748280003947 putative substrate translocation pore; other site 748280003948 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 748280003949 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280003950 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280003951 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280003952 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280003953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280003954 Walker A/P-loop; other site 748280003955 ATP binding site [chemical binding]; other site 748280003956 Q-loop/lid; other site 748280003957 ABC transporter signature motif; other site 748280003958 Walker B; other site 748280003959 D-loop; other site 748280003960 H-loop/switch region; other site 748280003961 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 748280003962 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_1; cd08460 748280003963 putative substrate binding pocket [chemical binding]; other site 748280003964 putative dimerization interface [polypeptide binding]; other site 748280003965 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 748280003966 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 748280003967 dimer interface [polypeptide binding]; other site 748280003968 active site 748280003969 heme binding site [chemical binding]; other site 748280003970 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 748280003971 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 748280003972 ATP binding site [chemical binding]; other site 748280003973 putative Mg++ binding site [ion binding]; other site 748280003974 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 748280003975 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 748280003976 nucleotide binding region [chemical binding]; other site 748280003977 ATP-binding site [chemical binding]; other site 748280003978 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 748280003979 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 748280003980 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280003981 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280003982 putative active site [active] 748280003983 putative substrate binding site [chemical binding]; other site 748280003984 putative cosubstrate binding site; other site 748280003985 catalytic site [active] 748280003986 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 748280003987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003988 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 748280003989 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 748280003990 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; cl00159 748280003991 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280003992 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 748280003993 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 748280003994 active site 748280003995 dimer interface [polypeptide binding]; other site 748280003996 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 748280003997 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 748280003998 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 748280003999 dimer interface [polypeptide binding]; other site 748280004000 decamer (pentamer of dimers) interface [polypeptide binding]; other site 748280004001 catalytic triad [active] 748280004002 NMT1-like family; Region: NMT1_2; cl15260 748280004003 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 748280004004 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 748280004005 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 748280004006 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280004007 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 748280004008 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 748280004009 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 748280004010 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 748280004011 putative peptidoglycan binding site; other site 748280004012 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280004013 Heme NO binding; Region: HNOB; cl15268 748280004014 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 748280004015 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 748280004016 putative active site [active] 748280004017 putative FMN binding site [chemical binding]; other site 748280004018 putative substrate binding site [chemical binding]; other site 748280004019 putative catalytic residue [active] 748280004020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280004021 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 748280004022 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280004023 4Fe-4S binding domain; Region: Fer4; cl02805 748280004024 Cysteine-rich domain; Region: CCG; pfam02754 748280004025 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 748280004026 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 748280004027 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 748280004028 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 748280004029 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 748280004030 [2Fe-2S] cluster binding site [ion binding]; other site 748280004031 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 748280004032 putative alpha subunit interface [polypeptide binding]; other site 748280004033 putative active site [active] 748280004034 putative substrate binding site [chemical binding]; other site 748280004035 Fe binding site [ion binding]; other site 748280004036 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 748280004037 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 748280004038 FAD binding pocket [chemical binding]; other site 748280004039 FAD binding motif [chemical binding]; other site 748280004040 phosphate binding motif [ion binding]; other site 748280004041 beta-alpha-beta structure motif; other site 748280004042 NAD binding pocket [chemical binding]; other site 748280004043 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 748280004044 catalytic loop [active] 748280004045 iron binding site [ion binding]; other site 748280004046 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 748280004047 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 748280004048 Walker A/P-loop; other site 748280004049 ATP binding site [chemical binding]; other site 748280004050 Q-loop/lid; other site 748280004051 ABC transporter signature motif; other site 748280004052 Walker B; other site 748280004053 D-loop; other site 748280004054 H-loop/switch region; other site 748280004055 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 748280004056 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 748280004057 dimer interface [polypeptide binding]; other site 748280004058 conserved gate region; other site 748280004059 putative PBP binding loops; other site 748280004060 ABC-ATPase subunit interface; other site 748280004061 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280004062 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280004063 conserved cys residue [active] 748280004064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280004065 NMT1-like family; Region: NMT1_2; cl15260 748280004066 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 748280004067 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 748280004068 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 748280004069 putative substrate translocation pore; other site 748280004070 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 748280004071 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 748280004072 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 748280004073 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 748280004074 catalytic residues [active] 748280004075 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 748280004076 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 748280004077 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 748280004078 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 748280004079 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280004080 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 748280004081 dimer interface [polypeptide binding]; other site 748280004082 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280004083 active site 748280004084 folate binding site [chemical binding]; other site 748280004085 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280004086 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 748280004087 Cytochrome c; Region: Cytochrom_C; cl11414 748280004088 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 748280004089 Low-spin heme binding site [chemical binding]; other site 748280004090 D-pathway; other site 748280004091 Putative water exit pathway; other site 748280004092 K-pathway; other site 748280004093 Binuclear center (active site) [active] 748280004094 Putative proton exit pathway; other site 748280004095 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 748280004096 Subunit I/III interface [polypeptide binding]; other site 748280004097 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 748280004098 Walker A motif; other site 748280004099 ATP binding site [chemical binding]; other site 748280004100 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 748280004101 Walker B motif; other site 748280004102 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 748280004103 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 748280004104 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 748280004105 Cytochrome c; Region: Cytochrom_C; cl11414 748280004106 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 748280004107 Cytochrome c; Region: Cytochrom_C; cl11414 748280004108 Cytochrome c; Region: Cytochrom_C; cl11414 748280004109 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 748280004110 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 748280004111 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280004112 Helix-turn-helix domains; Region: HTH; cl00088 748280004113 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280004114 Helix-turn-helix domains; Region: HTH; cl00088 748280004115 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280004116 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 748280004117 putative C-terminal domain interface [polypeptide binding]; other site 748280004118 putative GSH binding site (G-site) [chemical binding]; other site 748280004119 putative dimer interface [polypeptide binding]; other site 748280004120 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 748280004121 putative N-terminal domain interface [polypeptide binding]; other site 748280004122 putative dimer interface [polypeptide binding]; other site 748280004123 putative substrate binding pocket (H-site) [chemical binding]; other site 748280004124 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280004125 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 748280004126 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 748280004127 FeS/SAM binding site; other site 748280004128 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 748280004129 Cytochrome c; Region: Cytochrom_C; cl11414 748280004130 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 748280004131 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 748280004132 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280004133 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 748280004134 ligand binding site [chemical binding]; other site 748280004135 Helix-turn-helix domains; Region: HTH; cl00088 748280004136 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 748280004137 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 748280004138 putative substrate translocation pore; other site 748280004139 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 748280004140 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 748280004141 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 748280004142 [4Fe-4S] binding site [ion binding]; other site 748280004143 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 748280004144 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 748280004145 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 748280004146 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 748280004147 molybdopterin cofactor binding site; other site 748280004148 nitrate reductase, beta subunit; Region: narH; TIGR01660 748280004149 4Fe-4S binding domain; Region: Fer4; cl02805 748280004150 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 748280004151 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 748280004152 Site-specific recombinase; Region: SpecificRecomb; cl15411 748280004153 Nitrate and nitrite sensing; Region: NIT; pfam08376 748280004154 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 748280004155 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004156 dimer interface [polypeptide binding]; other site 748280004157 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280004158 putative CheW interface [polypeptide binding]; other site 748280004159 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 748280004160 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 748280004161 FeS/SAM binding site; other site 748280004162 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 748280004163 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 748280004164 active site clefts [active] 748280004165 zinc binding site [ion binding]; other site 748280004166 dimer interface [polypeptide binding]; other site 748280004167 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 748280004168 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 748280004169 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 748280004170 dimerization interface [polypeptide binding]; other site 748280004171 GAF domain; Region: GAF; cl15785 748280004172 Histidine kinase; Region: HisKA_3; pfam07730 748280004173 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 748280004174 ATP binding site [chemical binding]; other site 748280004175 Mg2+ binding site [ion binding]; other site 748280004176 G-X-G motif; other site 748280004177 transcriptional regulator NarL; Provisional; Region: PRK10651 748280004178 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 748280004179 active site 748280004180 phosphorylation site [posttranslational modification] 748280004181 intermolecular recognition site; other site 748280004182 dimerization interface [polypeptide binding]; other site 748280004183 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 748280004184 DNA binding residues [nucleotide binding] 748280004185 dimerization interface [polypeptide binding]; other site 748280004186 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 748280004187 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280004188 PAS fold; Region: PAS_4; pfam08448 748280004189 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 748280004190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280004191 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 748280004192 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 748280004193 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 748280004194 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 748280004195 inhibitor site; inhibition site 748280004196 active site 748280004197 dimer interface [polypeptide binding]; other site 748280004198 catalytic residue [active] 748280004199 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 748280004200 dimer interface [polypeptide binding]; other site 748280004201 NADP binding site [chemical binding]; other site 748280004202 catalytic residues [active] 748280004203 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280004204 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280004205 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 748280004206 dimerization interface [polypeptide binding]; other site 748280004207 ligand binding site [chemical binding]; other site 748280004208 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 748280004209 Proline racemase; Region: Pro_racemase; pfam05544 748280004210 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 748280004211 active site 748280004212 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 748280004213 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; cl15754 748280004214 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 748280004215 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 748280004216 active site residue [active] 748280004217 selenophosphate synthetase; Provisional; Region: PRK00943 748280004218 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 748280004219 dimerization interface [polypeptide binding]; other site 748280004220 putative ATP binding site [chemical binding]; other site 748280004221 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 748280004222 Catalytic site [active] 748280004223 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 748280004224 Clp amino terminal domain; Region: Clp_N; pfam02861 748280004225 Clp amino terminal domain; Region: Clp_N; pfam02861 748280004226 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 748280004227 Walker A motif; other site 748280004228 ATP binding site [chemical binding]; other site 748280004229 Walker B motif; other site 748280004230 arginine finger; other site 748280004231 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 748280004232 Walker A motif; other site 748280004233 ATP binding site [chemical binding]; other site 748280004234 Walker B motif; other site 748280004235 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 748280004236 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 748280004237 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 748280004238 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 748280004239 ANTAR domain; Region: ANTAR; cl04297 748280004240 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 748280004241 NMT1-like family; Region: NMT1_2; cl15260 748280004242 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 748280004243 dimer interface [polypeptide binding]; other site 748280004244 conserved gate region; other site 748280004245 putative PBP binding loops; other site 748280004246 ABC-ATPase subunit interface; other site 748280004247 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 748280004248 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 748280004249 Walker A/P-loop; other site 748280004250 ATP binding site [chemical binding]; other site 748280004251 Q-loop/lid; other site 748280004252 ABC transporter signature motif; other site 748280004253 Walker B; other site 748280004254 D-loop; other site 748280004255 H-loop/switch region; other site 748280004256 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 748280004257 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 748280004258 putative substrate translocation pore; other site 748280004259 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 748280004260 active site 748280004261 Protein kinase domain; Region: Pkinase; pfam00069 748280004262 Catalytic domain of Protein Kinases; Region: PKc; cd00180 748280004263 active site 748280004264 ATP binding site [chemical binding]; other site 748280004265 substrate binding site [chemical binding]; other site 748280004266 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280004267 substrate binding site [chemical binding]; other site 748280004268 activation loop (A-loop); other site 748280004269 activation loop (A-loop); other site 748280004270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280004271 Helix-turn-helix domains; Region: HTH; cl00088 748280004272 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 748280004273 dimerization interface [polypeptide binding]; other site 748280004274 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 748280004275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280004276 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 748280004277 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 748280004278 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 748280004279 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 748280004280 [2Fe-2S] cluster binding site [ion binding]; other site 748280004281 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 748280004282 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 748280004283 [4Fe-4S] binding site [ion binding]; other site 748280004284 molybdopterin cofactor binding site; other site 748280004285 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 748280004286 molybdopterin cofactor binding site; other site 748280004287 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 748280004288 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 748280004289 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280004290 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 748280004291 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 748280004292 trimer interface [polypeptide binding]; other site 748280004293 eyelet of channel; other site 748280004294 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 748280004295 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 748280004296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280004297 homodimer interface [polypeptide binding]; other site 748280004298 catalytic residue [active] 748280004299 FliW protein; Region: FliW; cl00740 748280004300 putative protease; Provisional; Region: PRK15452 748280004301 Peptidase family U32; Region: Peptidase_U32; cl03113 748280004302 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 748280004303 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 748280004304 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 748280004305 active site 748280004306 HIGH motif; other site 748280004307 KMSK motif region; other site 748280004308 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 748280004309 tRNA binding surface [nucleotide binding]; other site 748280004310 anticodon binding site; other site 748280004311 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280004312 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 748280004313 substrate binding pocket [chemical binding]; other site 748280004314 membrane-bound complex binding site; other site 748280004315 hinge residues; other site 748280004316 putative acyltransferase; Provisional; Region: PRK05790 748280004317 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 748280004318 dimer interface [polypeptide binding]; other site 748280004319 active site 748280004320 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 748280004321 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 748280004322 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 748280004323 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 748280004324 RNA binding surface [nucleotide binding]; other site 748280004325 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280004326 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 748280004327 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 748280004328 substrate binding site [chemical binding]; other site 748280004329 ligand binding site [chemical binding]; other site 748280004330 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 748280004331 substrate binding site [chemical binding]; other site 748280004332 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 748280004333 tartrate dehydrogenase; Provisional; Region: PRK08194 748280004334 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 748280004335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280004336 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 748280004337 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 748280004338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280004339 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 748280004340 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280004341 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 748280004342 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280004343 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280004344 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 748280004345 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280004346 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280004347 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 748280004348 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280004349 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 748280004350 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 748280004351 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 748280004352 dimerization interface 3.5A [polypeptide binding]; other site 748280004353 active site 748280004354 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 monomeric; Region: PRAI; cd00405 748280004355 active site 748280004356 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 748280004357 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 748280004358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280004359 catalytic residue [active] 748280004360 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 748280004361 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 748280004362 substrate binding site [chemical binding]; other site 748280004363 active site 748280004364 catalytic residues [active] 748280004365 heterodimer interface [polypeptide binding]; other site 748280004366 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 748280004367 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 748280004368 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 748280004369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280004370 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 748280004371 L-serine binding site [chemical binding]; other site 748280004372 ACT domain interface; other site 748280004373 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280004374 FAD binding domain; Region: FAD_binding_4; pfam01565 748280004375 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 748280004376 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 748280004377 C-terminal domain interface [polypeptide binding]; other site 748280004378 GSH binding site (G-site) [chemical binding]; other site 748280004379 dimer interface [polypeptide binding]; other site 748280004380 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 748280004381 dimer interface [polypeptide binding]; other site 748280004382 N-terminal domain interface [polypeptide binding]; other site 748280004383 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 748280004384 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 748280004385 active site 748280004386 phosphorylation site [posttranslational modification] 748280004387 intermolecular recognition site; other site 748280004388 dimerization interface [polypeptide binding]; other site 748280004389 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 748280004390 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 748280004391 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 748280004392 active site 748280004393 phosphorylation site [posttranslational modification] 748280004394 intermolecular recognition site; other site 748280004395 CheB methylesterase; Region: CheB_methylest; pfam01339 748280004396 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 748280004397 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 748280004398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280004399 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 748280004400 putative CheA interaction surface; other site 748280004401 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280004402 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 748280004403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004404 dimer interface [polypeptide binding]; other site 748280004405 putative CheW interface [polypeptide binding]; other site 748280004406 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 748280004407 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 748280004408 putative binding surface; other site 748280004409 active site 748280004410 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 748280004411 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 748280004412 ATP binding site [chemical binding]; other site 748280004413 Mg2+ binding site [ion binding]; other site 748280004414 G-X-G motif; other site 748280004415 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 748280004416 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 748280004417 anti sigma factor interaction site; other site 748280004418 regulatory phosphorylation site [posttranslational modification]; other site 748280004419 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280004420 Response regulator receiver domain; Region: Response_reg; pfam00072 748280004421 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 748280004422 active site 748280004423 phosphorylation site [posttranslational modification] 748280004424 intermolecular recognition site; other site 748280004425 dimerization interface [polypeptide binding]; other site 748280004426 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 748280004427 metabolite-proton symporter; Region: 2A0106; TIGR00883 748280004428 putative substrate translocation pore; other site 748280004429 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 748280004430 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 748280004431 metal binding site [ion binding]; metal-binding site 748280004432 putative dimer interface [polypeptide binding]; other site 748280004433 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 748280004434 Helix-turn-helix domains; Region: HTH; cl00088 748280004435 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 748280004436 dimerization interface [polypeptide binding]; other site 748280004437 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 748280004438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004439 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 748280004440 Protein of unknown function (DUF466); Region: DUF466; cl01082 748280004441 carbon starvation protein A; Provisional; Region: PRK15015 748280004442 Carbon starvation protein CstA; Region: CstA; pfam02554 748280004443 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 748280004444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 748280004445 Cache domain; Region: Cache_2; cl07034 748280004446 Histidine kinase; Region: HisKA_3; pfam07730 748280004447 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 748280004448 ATP binding site [chemical binding]; other site 748280004449 Mg2+ binding site [ion binding]; other site 748280004450 G-X-G motif; other site 748280004451 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280004452 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 748280004453 active site 748280004454 phosphorylation site [posttranslational modification] 748280004455 intermolecular recognition site; other site 748280004456 dimerization interface [polypeptide binding]; other site 748280004457 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 748280004458 dimerization interface [polypeptide binding]; other site 748280004459 DNA binding residues [nucleotide binding] 748280004460 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 748280004461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004462 Walker A/P-loop; other site 748280004463 ATP binding site [chemical binding]; other site 748280004464 Q-loop/lid; other site 748280004465 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280004466 ABC transporter; Region: ABC_tran_2; pfam12848 748280004467 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280004468 UGMP family protein; Validated; Region: PRK09604 748280004469 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 748280004470 OsmC-like protein; Region: OsmC; cl00767 748280004471 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 748280004472 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280004473 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 748280004474 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280004475 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280004476 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 748280004477 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 748280004478 FlgD Ig-like domain; Region: FlgD_ig; cl15790 748280004479 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 748280004480 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280004481 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 748280004482 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280004483 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 748280004484 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 748280004485 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280004486 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 748280004487 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280004488 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280004489 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 748280004490 Flagellar L-ring protein; Region: FlgH; cl00905 748280004491 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 748280004492 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 748280004493 Rod binding protein; Region: Rod-binding; cl01626 748280004494 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 748280004495 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 748280004496 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 748280004497 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280004498 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280004499 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 748280004500 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280004501 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 748280004502 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 748280004503 putative active site [active] 748280004504 Zn binding site [ion binding]; other site 748280004505 enoyl-CoA hydratase; Provisional; Region: PRK05995 748280004506 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 748280004507 substrate binding site [chemical binding]; other site 748280004508 oxyanion hole (OAH) forming residues; other site 748280004509 trimer interface [polypeptide binding]; other site 748280004510 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 748280004511 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 748280004512 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 748280004513 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280004514 metal binding site [ion binding]; metal-binding site 748280004515 active site 748280004516 I-site; other site 748280004517 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 748280004518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004519 Walker A/P-loop; other site 748280004520 ATP binding site [chemical binding]; other site 748280004521 Q-loop/lid; other site 748280004522 ABC transporter signature motif; other site 748280004523 Walker B; other site 748280004524 D-loop; other site 748280004525 H-loop/switch region; other site 748280004526 TOBE domain; Region: TOBE_2; cl01440 748280004527 TOBE domain; Region: TOBE_2; cl01440 748280004528 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 748280004529 dimer interface [polypeptide binding]; other site 748280004530 conserved gate region; other site 748280004531 putative PBP binding loops; other site 748280004532 ABC-ATPase subunit interface; other site 748280004533 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 748280004534 dimer interface [polypeptide binding]; other site 748280004535 conserved gate region; other site 748280004536 putative PBP binding loops; other site 748280004537 ABC-ATPase subunit interface; other site 748280004538 PAS domain S-box; Region: sensory_box; TIGR00229 748280004539 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 748280004540 putative active site [active] 748280004541 heme pocket [chemical binding]; other site 748280004542 GAF domain; Region: GAF_2; pfam13185 748280004543 GAF domain; Region: GAF; cl15785 748280004544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280004545 metal binding site [ion binding]; metal-binding site 748280004546 active site 748280004547 I-site; other site 748280004548 arginine decarboxylase; Provisional; Region: PRK05354 748280004549 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 748280004550 dimer interface [polypeptide binding]; other site 748280004551 active site 748280004552 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280004553 catalytic residues [active] 748280004554 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 748280004555 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280004556 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280004557 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 748280004558 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 748280004559 dimer interface [polypeptide binding]; other site 748280004560 phosphorylation site [posttranslational modification] 748280004561 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 748280004562 ATP binding site [chemical binding]; other site 748280004563 Mg2+ binding site [ion binding]; other site 748280004564 G-X-G motif; other site 748280004565 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280004566 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 748280004567 active site 748280004568 phosphorylation site [posttranslational modification] 748280004569 intermolecular recognition site; other site 748280004570 dimerization interface [polypeptide binding]; other site 748280004571 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 748280004572 Walker A motif; other site 748280004573 ATP binding site [chemical binding]; other site 748280004574 Walker B motif; other site 748280004575 arginine finger; other site 748280004576 Helix-turn-helix domains; Region: HTH; cl00088 748280004577 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004578 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004579 dimer interface [polypeptide binding]; other site 748280004580 putative CheW interface [polypeptide binding]; other site 748280004581 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 748280004582 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 748280004583 Cache domain; Region: Cache_1; pfam02743 748280004584 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 748280004585 dimerization interface [polypeptide binding]; other site 748280004586 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004587 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004588 dimer interface [polypeptide binding]; other site 748280004589 putative CheW interface [polypeptide binding]; other site 748280004590 HDOD domain; Region: HDOD; pfam08668 748280004591 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280004592 Zn2+ binding site [ion binding]; other site 748280004593 Mg2+ binding site [ion binding]; other site 748280004594 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 748280004595 dimer interface [polypeptide binding]; other site 748280004596 phosphorylation site [posttranslational modification] 748280004597 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 748280004598 ATP binding site [chemical binding]; other site 748280004599 Mg2+ binding site [ion binding]; other site 748280004600 G-X-G motif; other site 748280004601 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 748280004602 Response regulator receiver domain; Region: Response_reg; pfam00072 748280004603 active site 748280004604 phosphorylation site [posttranslational modification] 748280004605 intermolecular recognition site; other site 748280004606 dimerization interface [polypeptide binding]; other site 748280004607 PAS domain S-box; Region: sensory_box; TIGR00229 748280004608 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 748280004609 putative active site [active] 748280004610 heme pocket [chemical binding]; other site 748280004611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280004612 metal binding site [ion binding]; metal-binding site 748280004613 active site 748280004614 I-site; other site 748280004615 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 748280004616 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 748280004617 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 748280004618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280004619 Helix-turn-helix domains; Region: HTH; cl00088 748280004620 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 748280004621 putative effector binding pocket; other site 748280004622 dimerization interface [polypeptide binding]; other site 748280004623 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 748280004624 active site 748280004625 Zn binding site [ion binding]; other site 748280004626 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 748280004627 putative uracil binding site [chemical binding]; other site 748280004628 putative active site [active] 748280004629 EamA-like transporter family; Region: EamA; cl01037 748280004630 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 748280004631 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280004632 active site 748280004633 substrate binding site [chemical binding]; other site 748280004634 catalytic site [active] 748280004635 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 748280004636 active site 748280004637 catalytic residues [active] 748280004638 metal binding site [ion binding]; metal-binding site 748280004639 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 748280004640 substrate binding pocket [chemical binding]; other site 748280004641 membrane-bound complex binding site; other site 748280004642 hinge residues; other site 748280004643 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 748280004644 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 748280004645 PrpF protein; Region: PrpF; pfam04303 748280004646 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 748280004647 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 748280004648 substrate binding site [chemical binding]; other site 748280004649 ligand binding site [chemical binding]; other site 748280004650 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 748280004651 substrate binding site [chemical binding]; other site 748280004652 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 748280004653 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 748280004654 dimer interface [polypeptide binding]; other site 748280004655 active site 748280004656 citrylCoA binding site [chemical binding]; other site 748280004657 oxalacetate/citrate binding site [chemical binding]; other site 748280004658 coenzyme A binding site [chemical binding]; other site 748280004659 catalytic triad [active] 748280004660 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 748280004661 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 748280004662 tetramer interface [polypeptide binding]; other site 748280004663 active site 748280004664 Mg2+/Mn2+ binding site [ion binding]; other site 748280004665 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 748280004666 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280004667 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 748280004668 DNA binding residues [nucleotide binding] 748280004669 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 748280004670 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 748280004671 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 748280004672 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 748280004673 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 748280004674 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 748280004675 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 748280004676 protein binding site [polypeptide binding]; other site 748280004677 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 748280004678 protein binding site [polypeptide binding]; other site 748280004679 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280004680 GTP-binding protein LepA; Provisional; Region: PRK05433 748280004681 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 748280004682 G1 box; other site 748280004683 putative GEF interaction site [polypeptide binding]; other site 748280004684 GTP/Mg2+ binding site [chemical binding]; other site 748280004685 Switch I region; other site 748280004686 G2 box; other site 748280004687 G3 box; other site 748280004688 Switch II region; other site 748280004689 G4 box; other site 748280004690 G5 box; other site 748280004691 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 748280004692 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 748280004693 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 748280004694 signal peptidase I; Provisional; Region: PRK10861 748280004695 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 748280004696 Catalytic site [active] 748280004697 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 748280004698 putative major pilin subunit; Provisional; Region: PRK10574 748280004699 ribonuclease III; Reviewed; Region: rnc; PRK00102 748280004700 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 748280004701 dimerization interface [polypeptide binding]; other site 748280004702 active site 748280004703 metal binding site [ion binding]; metal-binding site 748280004704 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 748280004705 GTPase Era; Reviewed; Region: era; PRK00089 748280004706 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 748280004707 G1 box; other site 748280004708 GTP/Mg2+ binding site [chemical binding]; other site 748280004709 Switch I region; other site 748280004710 G2 box; other site 748280004711 Switch II region; other site 748280004712 G3 box; other site 748280004713 G4 box; other site 748280004714 G5 box; other site 748280004715 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 748280004716 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 748280004717 Recombination protein O N terminal; Region: RecO_N; cl15812 748280004718 Recombination protein O C terminal; Region: RecO_C; pfam02565 748280004719 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 the...; Region: PNPsynthase; cd00003 748280004720 active site 748280004721 hydrophilic channel; other site 748280004722 dimerization interface [polypeptide binding]; other site 748280004723 catalytic residues [active] 748280004724 active site lid [active] 748280004725 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 748280004726 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 748280004727 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 748280004728 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280004729 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 748280004730 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280004731 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 748280004732 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 748280004733 ATP binding site [chemical binding]; other site 748280004734 putative Mg++ binding site [ion binding]; other site 748280004735 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 748280004736 nucleotide binding region [chemical binding]; other site 748280004737 Helicase associated domain (HA2); Region: HA2; cl04503 748280004738 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 748280004739 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 748280004740 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 748280004741 catalytic site [active] 748280004742 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 748280004743 active site 748280004744 catalytic site [active] 748280004745 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 748280004746 Helix-turn-helix domains; Region: HTH; cl00088 748280004747 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 748280004748 substrate binding site [chemical binding]; other site 748280004749 dimerization interface [polypeptide binding]; other site 748280004750 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 748280004751 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 748280004752 Walker A/P-loop; other site 748280004753 ATP binding site [chemical binding]; other site 748280004754 Q-loop/lid; other site 748280004755 ABC transporter signature motif; other site 748280004756 Walker B; other site 748280004757 D-loop; other site 748280004758 H-loop/switch region; other site 748280004759 TOBE-like domain; Region: TOBE_3; pfam12857 748280004760 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 748280004761 dimer interface [polypeptide binding]; other site 748280004762 conserved gate region; other site 748280004763 putative PBP binding loops; other site 748280004764 ABC-ATPase subunit interface; other site 748280004765 sulfate transport protein; Provisional; Region: cysT; CHL00187 748280004766 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 748280004767 dimer interface [polypeptide binding]; other site 748280004768 conserved gate region; other site 748280004769 putative PBP binding loops; other site 748280004770 ABC-ATPase subunit interface; other site 748280004771 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 748280004772 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 748280004773 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004774 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004775 dimer interface [polypeptide binding]; other site 748280004776 putative CheW interface [polypeptide binding]; other site 748280004777 phosphate acetyltransferase; Reviewed; Region: PRK05632 748280004778 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004779 DRTGG domain; Region: DRTGG; cl12147 748280004780 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 748280004781 Acetokinase family; Region: Acetate_kinase; cl01029 748280004782 propionate/acetate kinase; Provisional; Region: PRK12379 748280004783 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 748280004784 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 748280004785 [2Fe-2S] cluster binding site [ion binding]; other site 748280004786 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 748280004787 alpha subunit interface [polypeptide binding]; other site 748280004788 active site 748280004789 substrate binding site [chemical binding]; other site 748280004790 Fe binding site [ion binding]; other site 748280004791 EamA-like transporter family; Region: EamA; cl01037 748280004792 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280004793 EamA-like transporter family; Region: EamA; cl01037 748280004794 EamA-like transporter family; Region: EamA; cl01037 748280004795 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 748280004796 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 748280004797 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 748280004798 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 includes...; Region: RuvC_resolvase; cl00243 748280004799 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 748280004800 RNA binding site [nucleotide binding]; other site 748280004801 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 748280004802 Chromate transporter; Region: Chromate_transp; pfam02417 748280004803 Chromate transporter; Region: Chromate_transp; pfam02417 748280004804 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 748280004805 structural tetrad; other site 748280004806 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 748280004807 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280004808 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280004809 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 748280004810 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 748280004811 dimer interface [polypeptide binding]; other site 748280004812 conserved gate region; other site 748280004813 putative PBP binding loops; other site 748280004814 ABC-ATPase subunit interface; other site 748280004815 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 748280004816 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 748280004817 Walker A/P-loop; other site 748280004818 ATP binding site [chemical binding]; other site 748280004819 Q-loop/lid; other site 748280004820 ABC transporter signature motif; other site 748280004821 Walker B; other site 748280004822 D-loop; other site 748280004823 H-loop/switch region; other site 748280004824 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 748280004825 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 748280004826 substrate binding pocket [chemical binding]; other site 748280004827 membrane-bound complex binding site; other site 748280004828 hinge residues; other site 748280004829 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280004830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280004831 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 748280004832 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 748280004833 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280004834 DNA-binding site [nucleotide binding]; DNA binding site 748280004835 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 748280004836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280004837 homodimer interface [polypeptide binding]; other site 748280004838 catalytic residue [active] 748280004839 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 748280004840 thiamine phosphate binding site [chemical binding]; other site 748280004841 active site 748280004842 pyrophosphate binding site [ion binding]; other site 748280004843 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 748280004844 ThiS interaction site; other site 748280004845 putative active site [active] 748280004846 tetramer interface [polypeptide binding]; other site 748280004847 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 748280004848 thiS-thiF/thiG interaction site; other site 748280004849 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 748280004850 ThiC-associated domain; Region: ThiC-associated; pfam13667 748280004851 ThiC family; Region: ThiC; cl08031 748280004852 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 748280004853 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 748280004854 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 748280004855 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280004856 PYR/PP interface [polypeptide binding]; other site 748280004857 dimer interface [polypeptide binding]; other site 748280004858 TPP binding site [chemical binding]; other site 748280004859 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 748280004860 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 748280004861 TPP-binding site; other site 748280004862 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 748280004863 Helix-turn-helix domains; Region: HTH; cl00088 748280004864 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280004865 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 748280004866 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 748280004867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004868 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 748280004869 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 748280004870 metal ion-dependent adhesion site (MIDAS); other site 748280004871 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 748280004872 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 748280004873 Cache domain; Region: Cache_1; pfam02743 748280004874 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 748280004875 dimerization interface [polypeptide binding]; other site 748280004876 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004878 dimer interface [polypeptide binding]; other site 748280004879 putative CheW interface [polypeptide binding]; other site 748280004880 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 748280004881 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 748280004882 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 748280004883 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280004884 PYR/PP interface [polypeptide binding]; other site 748280004885 dimer interface [polypeptide binding]; other site 748280004886 TPP binding site [chemical binding]; other site 748280004887 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 748280004888 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 748280004889 TPP-binding site; other site 748280004890 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 748280004891 Helix-turn-helix domains; Region: HTH; cl00088 748280004892 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280004893 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280004894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280004895 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280004896 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 748280004897 non-specific DNA binding site [nucleotide binding]; other site 748280004898 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280004899 salt bridge; other site 748280004900 sequence-specific DNA binding site [nucleotide binding]; other site 748280004901 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 748280004902 Catalytic site [active] 748280004903 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280004904 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 748280004905 putative transposase OrfB; Reviewed; Region: PHA02517 748280004906 Integrase core domain; Region: rve; cl01316 748280004907 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 748280004908 AAA domain; Region: AAA_22; pfam13401 748280004909 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280004910 non-specific DNA binding site [nucleotide binding]; other site 748280004911 salt bridge; other site 748280004912 sequence-specific DNA binding site [nucleotide binding]; other site 748280004913 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 748280004914 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 748280004915 IHF dimer interface [polypeptide binding]; other site 748280004916 IHF - DNA interface [nucleotide binding]; other site 748280004917 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 748280004918 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 748280004919 amidase catalytic site [active] 748280004920 Zn binding residues [ion binding]; other site 748280004921 substrate binding site [chemical binding]; other site 748280004922 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 748280004923 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 748280004924 Protein of unknown function (DUF935); Region: DUF935; pfam06074 748280004925 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 748280004926 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 748280004927 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 748280004928 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 748280004929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004930 AAA domain; Region: AAA_21; pfam13304 748280004931 Walker A/P-loop; other site 748280004932 ATP binding site [chemical binding]; other site 748280004933 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 748280004934 ABC transporter signature motif; other site 748280004935 Walker B; other site 748280004936 D-loop; other site 748280004937 H-loop/switch region; other site 748280004938 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 748280004939 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 748280004940 active site 748280004941 DNA binding site [nucleotide binding] 748280004942 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 748280004943 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 748280004944 Catalytic site [active] 748280004945 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 748280004946 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 748280004947 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 748280004948 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280004949 Sel1 repeat; Region: Sel1; cl02723 748280004950 Sel1 repeat; Region: Sel1; cl02723 748280004951 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 748280004952 SEC-C motif; Region: SEC-C; pfam02810 748280004953 Mu-like prophage I protein [General function prediction only]; Region: COG4388 748280004954 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 748280004955 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 748280004956 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 748280004957 cofactor binding site; other site 748280004958 DNA binding site [nucleotide binding] 748280004959 substrate interaction site [chemical binding]; other site 748280004960 Competence protein CoiA-like family; Region: CoiA; cl11541 748280004961 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 748280004962 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280004963 Mu-like prophage protein [General function prediction only]; Region: COG3941 748280004964 tape measure domain; Region: tape_meas_nterm; TIGR02675 748280004965 DNA-specific endonuclease I; Provisional; Region: PRK15137 748280004966 Endonuclease I; Region: Endonuclease_1; cl01003 748280004967 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004968 phosphoglycolate phosphatase; Provisional; Region: PRK13222 748280004969 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 748280004970 motif II; other site 748280004971 threonine dehydratase; Reviewed; Region: PRK09224 748280004972 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 748280004973 tetramer interface [polypeptide binding]; other site 748280004974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280004975 catalytic residue [active] 748280004976 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 748280004977 putative Ile/Val binding site [chemical binding]; other site 748280004978 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 748280004979 putative Ile/Val binding site [chemical binding]; other site 748280004980 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 748280004981 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280004982 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 748280004983 Protein of unknown function (DUF493); Region: DUF493; cl01102 748280004984 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 748280004985 lipoyl synthase; Provisional; Region: PRK05481 748280004986 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 748280004987 FeS/SAM binding site; other site 748280004988 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 748280004989 Cytochrome C'; Region: Cytochrom_C_2; cl01610 748280004990 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 748280004991 metal binding site 2 [ion binding]; metal-binding site 748280004992 putative DNA binding helix; other site 748280004993 metal binding site 1 [ion binding]; metal-binding site 748280004994 dimer interface [polypeptide binding]; other site 748280004995 structural Zn2+ binding site [ion binding]; other site 748280004996 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 748280004997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280004998 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 748280004999 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 748280005000 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 748280005001 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 748280005002 ABC-ATPase subunit interface; other site 748280005003 dimer interface [polypeptide binding]; other site 748280005004 putative PBP binding regions; other site 748280005005 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 748280005006 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 748280005007 metal binding site [ion binding]; metal-binding site 748280005008 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 748280005009 enoyl-CoA hydratase; Provisional; Region: PRK09076 748280005010 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 748280005011 substrate binding site [chemical binding]; other site 748280005012 oxyanion hole (OAH) forming residues; other site 748280005013 trimer interface [polypeptide binding]; other site 748280005014 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 748280005015 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280005016 SurA N-terminal domain; Region: SurA_N_3; cl07813 748280005017 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 748280005018 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280005019 BolA-like protein; Region: BolA; cl00386 748280005020 YCII-related domain; Region: YCII; cl00999 748280005021 Intracellular septation protein A; Region: IspA; cl01098 748280005022 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 748280005023 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 748280005024 Uncharacterized conserved protein [Function unknown]; Region: COG1739 748280005025 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 748280005026 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 748280005027 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 748280005028 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 748280005029 motif II; other site 748280005030 ParA-like protein; Provisional; Region: PHA02518 748280005031 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 748280005032 P-loop; other site 748280005033 Magnesium ion binding site [ion binding]; other site 748280005034 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 748280005035 PAS domain; Region: PAS_9; pfam13426 748280005036 putative active site [active] 748280005037 heme pocket [chemical binding]; other site 748280005038 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280005039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005040 dimer interface [polypeptide binding]; other site 748280005041 putative CheW interface [polypeptide binding]; other site 748280005042 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 748280005043 putative active site [active] 748280005044 putative catalytic site [active] 748280005045 PII uridylyl-transferase; Provisional; Region: PRK03059 748280005046 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280005047 metal binding triad; other site 748280005048 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 748280005049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280005050 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 748280005051 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 748280005052 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 748280005053 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 748280005054 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 748280005055 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 748280005056 multifunctional aminopeptidase A; Provisional; Region: PRK00913 748280005057 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 748280005058 interface (dimer of trimers) [polypeptide binding]; other site 748280005059 Substrate-binding/catalytic site; other site 748280005060 Zn-binding sites [ion binding]; other site 748280005061 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 748280005062 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 748280005063 Staphylococcal nuclease homologues; Region: SNc; smart00318 748280005064 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 748280005065 Catalytic site; other site 748280005066 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; cl12031 748280005067 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280005068 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 748280005069 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 748280005070 putative active site [active] 748280005071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005072 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 748280005073 catalytic triad [active] 748280005074 Smr domain; Region: Smr; cl02619 748280005075 thioredoxin reductase; Provisional; Region: PRK10262 748280005076 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280005077 Sel1 repeat; Region: Sel1; cl02723 748280005078 Sel1 repeat; Region: Sel1; cl02723 748280005079 Sel1 repeat; Region: Sel1; cl02723 748280005080 Sel1 repeat; Region: Sel1; cl02723 748280005081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280005082 Helix-turn-helix domains; Region: HTH; cl00088 748280005083 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280005084 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 748280005085 putative active site [active] 748280005086 Zinc-finger domain; Region: zf-CHCC; cl01821 748280005087 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 748280005088 homodimer interface [polypeptide binding]; other site 748280005089 substrate-cofactor binding pocket; other site 748280005090 catalytic residue [active] 748280005091 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 748280005092 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280005093 metal binding triad; other site 748280005094 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 748280005095 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280005096 metal binding triad; other site 748280005097 TIGR02099 family protein; Region: TIGR02099 748280005098 AsmA-like C-terminal region; Region: AsmA_2; cl15864 748280005099 Predicted amidohydrolase [General function prediction only]; Region: COG0388 748280005100 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 748280005101 putative active site [active] 748280005102 catalytic triad [active] 748280005103 dimer interface [polypeptide binding]; other site 748280005104 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 748280005105 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 748280005106 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 748280005107 Helix-turn-helix domains; Region: HTH; cl00088 748280005108 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 748280005109 dimerizarion interface [polypeptide binding]; other site 748280005110 CrgA pocket; other site 748280005111 substrate binding pocket [chemical binding]; other site 748280005112 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 748280005113 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 748280005114 octamer interface [polypeptide binding]; other site 748280005115 active site 748280005116 Muconolactone delta-isomerase; Region: MIase; cl01992 748280005117 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 748280005118 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 748280005119 dimer interface [polypeptide binding]; other site 748280005120 active site 748280005121 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 748280005122 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 748280005123 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 748280005124 putative alpha subunit interface [polypeptide binding]; other site 748280005125 putative active site [active] 748280005126 putative substrate binding site [chemical binding]; other site 748280005127 Fe binding site [ion binding]; other site 748280005128 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 748280005129 inter-subunit interface; other site 748280005130 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 748280005131 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 748280005132 catalytic loop [active] 748280005133 iron binding site [ion binding]; other site 748280005134 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 748280005135 FAD binding pocket [chemical binding]; other site 748280005136 FAD binding motif [chemical binding]; other site 748280005137 phosphate binding motif [ion binding]; other site 748280005138 beta-alpha-beta structure motif; other site 748280005139 NAD binding pocket [chemical binding]; other site 748280005140 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 748280005141 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280005142 putative NAD(P) binding site [chemical binding]; other site 748280005143 active site 748280005144 benzoate transporter; Region: benE; TIGR00843 748280005145 Benzoate membrane transport protein; Region: BenE; pfam03594 748280005146 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 748280005147 Helix-turn-helix domains; Region: HTH; cl00088 748280005148 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 748280005149 dimerization interface [polypeptide binding]; other site 748280005150 Helix-turn-helix domains; Region: HTH; cl00088 748280005151 benzoate transport; Region: 2A0115; TIGR00895 748280005152 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 748280005153 putative substrate translocation pore; other site 748280005154 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 748280005155 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; cl12031 748280005156 Predicted esterase [General function prediction only]; Region: COG0400 748280005157 MarC family integral membrane protein; Region: MarC; cl00919 748280005158 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 in...; Region: Frataxin; cl00238 748280005159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280005160 Helix-turn-helix domains; Region: HTH; cl00088 748280005161 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 748280005162 putative effector binding pocket; other site 748280005163 dimerization interface [polypeptide binding]; other site 748280005164 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 748280005165 AMP-binding enzyme; Region: AMP-binding; cl15778 748280005166 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280005167 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 748280005168 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280005169 tetrameric interface [polypeptide binding]; other site 748280005170 NAD binding site [chemical binding]; other site 748280005171 catalytic residues [active] 748280005172 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 748280005173 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 748280005174 substrate binding pocket [chemical binding]; other site 748280005175 FAD binding site [chemical binding]; other site 748280005176 catalytic base [active] 748280005177 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 748280005178 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 748280005179 substrate binding site [chemical binding]; other site 748280005180 oxyanion hole (OAH) forming residues; other site 748280005181 trimer interface [polypeptide binding]; other site 748280005182 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; cl15762 748280005183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005184 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 748280005185 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 748280005186 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 748280005187 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 748280005188 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 748280005189 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280005190 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 748280005191 Walker A motif; other site 748280005192 ATP binding site [chemical binding]; other site 748280005193 Walker B motif; other site 748280005194 arginine finger; other site 748280005195 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 748280005196 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280005197 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 748280005198 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 748280005199 Baseplate J-like protein; Region: Baseplate_J; cl01294 748280005200 Baseplate J-like protein; Region: Baseplate_J; cl01294 748280005201 PA14 domain; Region: PA14; cl08459 748280005202 Baseplate J-like protein; Region: Baseplate_J; cl01294 748280005203 Cupin domain; Region: Cupin_2; cl09118 748280005204 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 748280005205 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 748280005206 Walker A/P-loop; other site 748280005207 ATP binding site [chemical binding]; other site 748280005208 Q-loop/lid; other site 748280005209 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 748280005210 ABC transporter signature motif; other site 748280005211 Walker B; other site 748280005212 D-loop; other site 748280005213 H-loop/switch region; other site 748280005214 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 748280005215 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 748280005216 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 748280005217 active site 748280005218 phosphorylation site [posttranslational modification] 748280005219 intermolecular recognition site; other site 748280005220 dimerization interface [polypeptide binding]; other site 748280005221 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 748280005222 DNA binding residues [nucleotide binding] 748280005223 dimerization interface [polypeptide binding]; other site 748280005224 Ion channel; Region: Ion_trans_2; cl11596 748280005225 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 748280005226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005227 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 748280005228 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 748280005229 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 748280005230 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 748280005231 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 748280005232 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 748280005233 active site 748280005234 tetramer interface [polypeptide binding]; other site 748280005235 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 748280005236 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 748280005237 FMN binding site [chemical binding]; other site 748280005238 active site 748280005239 catalytic residues [active] 748280005240 substrate binding site [chemical binding]; other site 748280005241 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280005242 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 748280005243 Catalytic site [active] 748280005244 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 748280005245 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 748280005246 ATP binding site [chemical binding]; other site 748280005247 Mg++ binding site [ion binding]; other site 748280005248 motif III; other site 748280005249 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 748280005250 nucleotide binding region [chemical binding]; other site 748280005251 ATP-binding site [chemical binding]; other site 748280005252 DbpA RNA binding domain; Region: DbpA; pfam03880 748280005253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280005254 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; cl15306 748280005255 substrate binding pocket [chemical binding]; other site 748280005256 membrane-bound complex binding site; other site 748280005257 hinge residues; other site 748280005258 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 748280005259 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 748280005260 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 748280005261 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 748280005262 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 748280005263 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 748280005264 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 748280005265 putative substrate translocation pore; other site 748280005266 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 748280005267 Helix-turn-helix domains; Region: HTH; cl00088 748280005268 transcriptional activator TtdR; Provisional; Region: PRK09801 748280005269 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 748280005270 putative effector binding pocket; other site 748280005271 putative dimerization interface [polypeptide binding]; other site 748280005272 Predicted transcriptional regulator [Transcription]; Region: COG2345 748280005273 Helix-turn-helix domains; Region: HTH; cl00088 748280005274 Helix-turn-helix domains; Region: HTH; cl00088 748280005275 EamA-like transporter family; Region: EamA; cl01037 748280005276 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280005277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280005278 Isochorismatase family; Region: Isochorismatase; pfam00857 748280005279 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 748280005280 catalytic triad [active] 748280005281 conserved cis-peptide bond; other site 748280005282 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 748280005283 active site 748280005284 nucleophile elbow; other site 748280005285 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 748280005286 FAD binding pocket [chemical binding]; other site 748280005287 conserved FAD binding motif [chemical binding]; other site 748280005288 phosphate binding motif [ion binding]; other site 748280005289 beta-alpha-beta structure motif; other site 748280005290 NAD binding pocket [chemical binding]; other site 748280005291 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 748280005292 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 748280005293 putative substrate translocation pore; other site 748280005294 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280005295 Helix-turn-helix domains; Region: HTH; cl00088 748280005296 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 748280005297 dimerization interface [polypeptide binding]; other site 748280005298 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 748280005299 CoenzymeA binding site [chemical binding]; other site 748280005300 subunit interaction site [polypeptide binding]; other site 748280005301 PHB binding site; other site 748280005302 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 748280005303 DNA binding residues [nucleotide binding] 748280005304 dimerization interface [polypeptide binding]; other site 748280005305 Predicted amidohydrolase [General function prediction only]; Region: COG0388 748280005306 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 748280005307 putative active site [active] 748280005308 catalytic triad [active] 748280005309 putative dimer interface [polypeptide binding]; other site 748280005310 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 748280005311 Spore germination protein; Region: Spore_permease; cl15802 748280005312 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 748280005313 putative FMN binding site [chemical binding]; other site 748280005314 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 748280005315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005316 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 748280005317 catalytic triad [active] 748280005318 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 748280005319 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 748280005320 Walker A motif; other site 748280005321 homodimer interface [polypeptide binding]; other site 748280005322 ATP binding site [chemical binding]; other site 748280005323 hydroxycobalamin binding site [chemical binding]; other site 748280005324 Walker B motif; other site 748280005325 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 748280005326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005327 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 748280005328 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 748280005329 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280005330 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 748280005331 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 748280005332 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 748280005333 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 748280005334 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 748280005335 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280005336 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280005337 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 748280005338 CbiD; Region: CbiD; cl00828 748280005339 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 748280005340 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 748280005341 putative active site [active] 748280005342 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 748280005343 putative active site [active] 748280005344 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 748280005345 Precorrin-8X methylmutase; Region: CbiC; pfam02570 748280005346 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280005347 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 748280005348 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 748280005349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005350 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 748280005351 metal ion-dependent adhesion site (MIDAS); other site 748280005352 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 748280005353 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 748280005354 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 748280005355 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 748280005356 dimer interface [polypeptide binding]; other site 748280005357 [2Fe-2S] cluster binding site [ion binding]; other site 748280005358 High-affinity nickel-transport protein; Region: NicO; cl00964 748280005359 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 748280005360 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280005361 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 748280005362 putative substrate translocation pore; other site 748280005363 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 748280005364 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 748280005365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280005366 catalytic residue [active] 748280005367 CobD/Cbib protein; Region: CobD_Cbib; cl00561 748280005368 cobyric acid synthase; Provisional; Region: PRK00784 748280005369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005371 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 748280005372 catalytic triad [active] 748280005373 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 748280005374 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 748280005375 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 748280005376 putative NAD(P) binding site [chemical binding]; other site 748280005377 active site 748280005378 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280005379 thiamine pyrophosphate protein; Validated; Region: PRK08199 748280005380 dimer interface [polypeptide binding]; other site 748280005381 PYR/PP interface [polypeptide binding]; other site 748280005382 TPP binding site [chemical binding]; other site 748280005383 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 748280005384 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 748280005385 TPP-binding site [chemical binding]; other site 748280005386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 748280005387 MOSC domain; Region: MOSC; pfam03473 748280005388 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 748280005389 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 748280005390 catalytic triad [active] 748280005391 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 748280005392 DNA binding site [nucleotide binding] 748280005393 Int/Topo IB signature motif; other site 748280005394 active site 748280005395 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 748280005396 Uncharacterized conserved protein [Function unknown]; Region: COG4983 748280005397 AAA domain; Region: AAA_25; pfam13481 748280005398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005399 Walker A motif; other site 748280005400 ATP binding site [chemical binding]; other site 748280005401 Walker B motif; other site 748280005402 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 748280005403 Isochorismatase family; Region: Isochorismatase; pfam00857 748280005404 catalytic triad [active] 748280005405 conserved cis-peptide bond; other site 748280005406 Family of unknown function (DUF500); Region: DUF500; cl01109 748280005407 LemA family; Region: LemA; cl00742 748280005408 Repair protein; Region: Repair_PSII; cl01535 748280005409 Repair protein; Region: Repair_PSII; cl01535 748280005410 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 748280005411 L,D-transpeptidase; Provisional; Region: PRK10260 748280005412 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280005413 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280005414 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 748280005415 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 748280005416 putative active site [active] 748280005417 putative metal binding site [ion binding]; other site 748280005418 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 748280005419 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 748280005420 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280005421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005422 dimer interface [polypeptide binding]; other site 748280005423 putative CheW interface [polypeptide binding]; other site 748280005424 hypothetical protein; Provisional; Region: PRK08609 748280005425 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 748280005426 active site 748280005427 primer binding site [nucleotide binding]; other site 748280005428 NTP binding site [chemical binding]; other site 748280005429 metal binding triad [ion binding]; metal-binding site 748280005430 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 A site; Region: RaiA; cd00552 748280005431 30S subunit binding site; other site 748280005432 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 protein; Region: CSP_CDS; cd04458 748280005433 DNA-binding site [nucleotide binding]; DNA binding site 748280005434 RNA-binding motif; other site 748280005435 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 748280005436 dimer interface [polypeptide binding]; other site 748280005437 phosphorylation site [posttranslational modification] 748280005438 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 748280005439 ATP binding site [chemical binding]; other site 748280005440 Mg2+ binding site [ion binding]; other site 748280005441 G-X-G motif; other site 748280005442 Uncharacterized conserved protein [Function unknown]; Region: COG3287 748280005443 FIST N domain; Region: FIST; cl10701 748280005444 FIST C domain; Region: FIST_C; pfam10442 748280005445 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; cl15306 748280005446 substrate binding pocket [chemical binding]; other site 748280005447 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 748280005448 membrane-bound complex binding site; other site 748280005449 hinge residues; other site 748280005450 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 748280005451 Cytochrome b562; Region: Cytochrom_B562; cl01546 748280005452 exonuclease subunit SbcD; Provisional; Region: PRK10966 748280005453 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 748280005454 active site 748280005455 metal binding site [ion binding]; metal-binding site 748280005456 DNA binding site [nucleotide binding] 748280005457 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 748280005458 exonuclease subunit SbcC; Provisional; Region: PRK10246 748280005459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005460 Walker A/P-loop; other site 748280005461 ATP binding site [chemical binding]; other site 748280005462 Q-loop/lid; other site 748280005463 exonuclease subunit SbcC; Provisional; Region: PRK10246 748280005464 exonuclease subunit SbcC; Provisional; Region: PRK10246 748280005465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005466 ABC transporter signature motif; other site 748280005467 Walker B; other site 748280005468 D-loop; other site 748280005469 H-loop/switch region; other site 748280005470 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 748280005471 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; cl15377 748280005472 FeS/SAM binding site; other site 748280005473 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 748280005474 exonuclease subunit SbcD; Provisional; Region: PRK10966 748280005475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005476 AAA domain; Region: AAA_23; pfam13476 748280005477 Walker A/P-loop; other site 748280005478 ATP binding site [chemical binding]; other site 748280005479 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 748280005480 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005481 Q-loop/lid; other site 748280005482 ABC transporter signature motif; other site 748280005483 Walker B; other site 748280005484 D-loop; other site 748280005485 H-loop/switch region; other site 748280005486 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 748280005487 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 748280005488 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 748280005489 non-specific DNA binding site [nucleotide binding]; other site 748280005490 salt bridge; other site 748280005491 sequence-specific DNA binding site [nucleotide binding]; other site 748280005492 AAA domain; Region: AAA_22; pfam13401 748280005493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005494 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 748280005495 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 748280005496 non-specific DNA binding site [nucleotide binding]; other site 748280005497 salt bridge; other site 748280005498 sequence-specific DNA binding site [nucleotide binding]; other site 748280005499 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 748280005500 Restriction endonuclease; Region: Mrr_cat; cl00516 748280005501 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 748280005502 metal binding triad [ion binding]; metal-binding site 748280005503 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 748280005504 AAA domain; Region: AAA_23; pfam13476 748280005505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005506 Walker A/P-loop; other site 748280005507 ATP binding site [chemical binding]; other site 748280005508 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280005509 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005510 ABC transporter signature motif; other site 748280005511 Walker B; other site 748280005512 D-loop; other site 748280005513 H-loop/switch region; other site 748280005514 HNH endonuclease; Region: HNH_5; pfam14279 748280005515 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 748280005516 PLD-like domain; Region: PLDc_2; pfam13091 748280005517 putative active site [active] 748280005518 catalytic site [active] 748280005519 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 748280005520 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 748280005521 dimer interface [polypeptide binding]; other site 748280005522 putative radical transfer pathway; other site 748280005523 diiron center [ion binding]; other site 748280005524 tyrosyl radical; other site 748280005525 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 748280005526 ATP cone domain; Region: ATP-cone; pfam03477 748280005527 ATP cone domain; Region: ATP-cone; pfam03477 748280005528 Class I ribonucleotide reductase; Region: RNR_I; cd01679 748280005529 active site 748280005530 dimer interface [polypeptide binding]; other site 748280005531 catalytic residues [active] 748280005532 effector binding site; other site 748280005533 R2 peptide binding site; other site 748280005534 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 748280005535 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 748280005536 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 748280005537 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 748280005538 RNA binding surface [nucleotide binding]; other site 748280005539 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 748280005540 active site 748280005541 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 748280005542 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 748280005543 PgaD-like protein; Region: PgaD; cl14676 748280005544 N-glycosyltransferase; Provisional; Region: PRK11204 748280005545 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 748280005546 DXD motif; other site 748280005547 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 748280005548 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 748280005549 putative active site [active] 748280005550 putative metal binding site [ion binding]; other site 748280005551 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 748280005552 Nitrogen regulatory protein P-II; Region: P-II; cl00412 748280005553 Nitrogen regulatory protein P-II; Region: P-II; smart00938 748280005554 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 748280005555 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 748280005556 dimerization interface [polypeptide binding]; other site 748280005557 ATP binding site [chemical binding]; other site 748280005558 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 748280005559 dimerization interface [polypeptide binding]; other site 748280005560 ATP binding site [chemical binding]; other site 748280005561 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 748280005562 putative active site [active] 748280005563 catalytic triad [active] 748280005564 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 748280005565 Helix-turn-helix domains; Region: HTH; cl00088 748280005566 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 748280005567 dimerization interface [polypeptide binding]; other site 748280005568 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 748280005569 heme-binding site [chemical binding]; other site 748280005570 GAF domain; Region: GAF_2; pfam13185 748280005571 GAF domain; Region: GAF; cl15785 748280005572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280005573 metal binding site [ion binding]; metal-binding site 748280005574 active site 748280005575 I-site; other site 748280005576 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 748280005577 LysE type translocator; Region: LysE; cl00565 748280005578 HemK family putative methylases; Region: hemK_fam; TIGR00536 748280005579 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 748280005580 S-adenosylmethionine binding site [chemical binding]; other site 748280005581 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 748280005582 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 748280005583 active site 748280005584 substrate binding site [chemical binding]; other site 748280005585 metal binding site [ion binding]; metal-binding site 748280005586 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 748280005587 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 748280005588 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 748280005589 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 748280005590 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 748280005591 glutamine binding [chemical binding]; other site 748280005592 catalytic triad [active] 748280005593 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 748280005594 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 748280005595 non-specific DNA binding site [nucleotide binding]; other site 748280005596 salt bridge; other site 748280005597 sequence-specific DNA binding site [nucleotide binding]; other site 748280005598 hypothetical protein; Provisional; Region: PRK06847 748280005599 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 748280005600 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; cl00075 748280005601 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 748280005602 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 748280005603 non-specific DNA binding site [nucleotide binding]; other site 748280005604 salt bridge; other site 748280005605 sequence-specific DNA binding site [nucleotide binding]; other site 748280005606 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 748280005607 catalytic residue [active] 748280005608 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 748280005609 Prophage antirepressor [Transcription]; Region: COG3617 748280005610 BRO family, N-terminal domain; Region: Bro-N; cl10591 748280005611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005612 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 748280005613 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 748280005614 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 748280005615 integrase; Provisional; Region: PRK09692 748280005616 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 748280005617 active site 748280005618 Int/Topo IB signature motif; other site 748280005619 Integrase core domain; Region: rve; cl01316 748280005620 Integrase core domain; Region: rve_3; cl15866 748280005621 Helix-turn-helix domains; Region: HTH; cl00088 748280005622 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 748280005623 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 748280005624 active site 748280005625 Zn binding site [ion binding]; other site 748280005626 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 748280005627 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 748280005628 substrate binding pocket [chemical binding]; other site 748280005629 membrane-bound complex binding site; other site 748280005630 hinge residues; other site 748280005631 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 748280005632 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 748280005633 metal binding site [ion binding]; metal-binding site 748280005634 putative dimer interface [polypeptide binding]; other site 748280005635 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 748280005636 Helix-turn-helix domains; Region: HTH; cl00088 748280005637 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 748280005638 dimerization interface [polypeptide binding]; other site 748280005639 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 748280005640 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 748280005641 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 748280005642 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 748280005643 PhoU domain; Region: PhoU; pfam01895 748280005644 PhoU domain; Region: PhoU; pfam01895 748280005645 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 748280005646 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280005647 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280005648 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005649 Walker A/P-loop; other site 748280005650 ATP binding site [chemical binding]; other site 748280005651 Q-loop/lid; other site 748280005652 ABC transporter signature motif; other site 748280005653 Walker B; other site 748280005654 D-loop; other site 748280005655 H-loop/switch region; other site 748280005656 TOBE domain; Region: TOBE_2; cl01440 748280005657 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 748280005658 dimer interface [polypeptide binding]; other site 748280005659 conserved gate region; other site 748280005660 putative PBP binding loops; other site 748280005661 ABC-ATPase subunit interface; other site 748280005662 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 748280005663 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 748280005664 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 748280005665 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280005666 DNA-binding site [nucleotide binding]; DNA binding site 748280005667 transcriptional regulator protein; Region: phnR; TIGR03337 748280005668 UTRA domain; Region: UTRA; cl01230 748280005669 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 748280005670 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 748280005671 AMP-binding enzyme; Region: AMP-binding; cl15778 748280005672 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 748280005673 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 748280005674 catalytic residues [active] 748280005675 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 748280005676 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; cl12031 748280005677 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 748280005678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280005679 putative substrate translocation pore; other site 748280005680 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 748280005681 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 748280005682 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 748280005683 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 748280005684 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 748280005685 NADP binding site [chemical binding]; other site 748280005686 dimer interface [polypeptide binding]; other site 748280005687 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 748280005688 Ligand Binding Site [chemical binding]; other site 748280005689 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 748280005690 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 748280005691 [2Fe-2S] cluster binding site [ion binding]; other site 748280005692 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 748280005693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005694 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 748280005695 DNA binding residues [nucleotide binding] 748280005696 dimerization interface [polypeptide binding]; other site 748280005697 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 748280005698 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 748280005699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005700 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 748280005701 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 748280005702 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 748280005703 beta-ketothiolase; Provisional; Region: PRK09051 748280005704 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 748280005705 dimer interface [polypeptide binding]; other site 748280005706 active site 748280005707 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 748280005708 AMP-binding enzyme; Region: AMP-binding; cl15778 748280005709 AMP-binding enzyme; Region: AMP-binding; cl15778 748280005710 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280005711 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280005712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280005713 active site 748280005714 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280005715 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 748280005716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005717 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280005718 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 748280005719 substrate binding site [chemical binding]; other site 748280005720 oxyanion hole (OAH) forming residues; other site 748280005721 trimer interface [polypeptide binding]; other site 748280005722 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 748280005723 PAS domain; Region: PAS_9; pfam13426 748280005724 putative active site [active] 748280005725 heme pocket [chemical binding]; other site 748280005726 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 748280005727 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280005728 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005729 dimer interface [polypeptide binding]; other site 748280005730 putative CheW interface [polypeptide binding]; other site 748280005731 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 748280005732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005733 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280005734 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 748280005735 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 748280005736 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 748280005737 Cupin domain; Region: Cupin_2; cl09118 748280005738 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 748280005739 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280005740 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280005741 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 748280005742 putative metal binding site [ion binding]; other site 748280005743 putative homotetramer interface [polypeptide binding]; other site 748280005744 putative homodimer interface [polypeptide binding]; other site 748280005745 putative homodimer-homodimer interface [polypeptide binding]; other site 748280005746 putative allosteric switch controlling residues; other site 748280005747 High-affinity nickel-transport protein; Region: NicO; cl00964 748280005748 High-affinity nickel-transport protein; Region: NicO; cl00964 748280005749 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 748280005750 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 748280005751 putative hydrophobic ligand binding site [chemical binding]; other site 748280005752 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 748280005753 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280005754 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 748280005755 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 748280005756 RNA polymerase sigma factor; Provisional; Region: PRK12511 748280005757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280005758 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 748280005759 DNA binding residues [nucleotide binding] 748280005760 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280005761 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280005762 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280005763 metal binding site [ion binding]; metal-binding site 748280005764 active site 748280005765 I-site; other site 748280005766 UreD urease accessory protein; Region: UreD; cl00530 748280005767 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 748280005768 alpha-gamma subunit interface [polypeptide binding]; other site 748280005769 beta-gamma subunit interface [polypeptide binding]; other site 748280005770 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 748280005771 gamma-beta subunit interface [polypeptide binding]; other site 748280005772 alpha-beta subunit interface [polypeptide binding]; other site 748280005773 urease subunit alpha; Reviewed; Region: ureC; PRK13207 748280005774 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 748280005775 subunit interactions [polypeptide binding]; other site 748280005776 active site 748280005777 flap region; other site 748280005778 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 748280005779 dimer interface [polypeptide binding]; other site 748280005780 catalytic residues [active] 748280005781 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 748280005782 UreF; Region: UreF; pfam01730 748280005783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005784 HupE / UreJ protein; Region: HupE_UreJ; cl01011 748280005785 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 748280005786 non-specific DNA binding site [nucleotide binding]; other site 748280005787 salt bridge; other site 748280005788 sequence-specific DNA binding site [nucleotide binding]; other site 748280005789 HipA N-terminal domain; Region: Couple_hipA; cl11853 748280005790 HipA-like N-terminal domain; Region: HipA_N; pfam07805 748280005791 HipA-like C-terminal domain; Region: HipA_C; pfam07804 748280005792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005793 NAD(P) binding site [chemical binding]; other site 748280005794 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 748280005795 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 748280005796 metal binding site [ion binding]; metal-binding site 748280005797 putative dimer interface [polypeptide binding]; other site 748280005798 Predicted membrane protein [Function unknown]; Region: COG2860 748280005799 UPF0126 domain; Region: UPF0126; pfam03458 748280005800 UPF0126 domain; Region: UPF0126; pfam03458 748280005801 benzoate transport; Region: 2A0115; TIGR00895 748280005802 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 748280005803 putative substrate translocation pore; other site 748280005804 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 748280005805 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 748280005806 GST_N family, Class Zeta 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_Zeta; cd03042 748280005807 maleylacetoacetate isomerase; Region: maiA; TIGR01262 748280005808 C-terminal domain interface [polypeptide binding]; other site 748280005809 GSH binding site (G-site) [chemical binding]; other site 748280005810 putative dimer interface [polypeptide binding]; other site 748280005811 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 748280005812 dimer interface [polypeptide binding]; other site 748280005813 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 748280005814 N-terminal domain interface [polypeptide binding]; other site 748280005815 salicylate hydroxylase; Provisional; Region: PRK08163 748280005816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280005817 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 748280005818 Cupin domain; Region: Cupin_2; cl09118 748280005819 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 748280005820 Helix-turn-helix domains; Region: HTH; cl00088 748280005821 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 748280005822 substrate binding pocket [chemical binding]; other site 748280005823 dimerization interface [polypeptide binding]; other site 748280005824 Helix-turn-helix domains; Region: HTH; cl00088 748280005825 LysR family transcriptional regulator; Provisional; Region: PRK14997 748280005826 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 748280005827 putative effector binding pocket; other site 748280005828 dimerization interface [polypeptide binding]; other site 748280005829 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 748280005830 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 748280005831 catalytic residues [active] 748280005832 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 748280005833 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280005834 NAD binding site [chemical binding]; other site 748280005835 substrate binding site [chemical binding]; other site 748280005836 putative active site [active] 748280005837 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 748280005838 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 748280005839 Cl- selectivity filter; other site 748280005840 Cl- binding residues [ion binding]; other site 748280005841 pore gating glutamate residue; other site 748280005842 dimer interface [polypeptide binding]; other site 748280005843 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 748280005844 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 748280005845 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 748280005846 DNA binding residues [nucleotide binding] 748280005847 dimer interface [polypeptide binding]; other site 748280005848 putative metal binding site [ion binding]; other site 748280005849 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280005850 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; cl00207 748280005851 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280005852 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280005853 Helix-turn-helix domains; Region: HTH; cl00088 748280005854 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 748280005855 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 748280005856 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280005857 Coenzyme A binding pocket [chemical binding]; other site 748280005858 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280005859 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005860 dimer interface [polypeptide binding]; other site 748280005861 putative CheW interface [polypeptide binding]; other site 748280005862 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280005863 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 748280005864 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 748280005865 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 748280005866 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 748280005867 NAD binding site [chemical binding]; other site 748280005868 Phe binding site; other site 748280005869 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 748280005870 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 748280005871 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 748280005872 Cl- selectivity filter; other site 748280005873 Cl- binding residues [ion binding]; other site 748280005874 pore gating glutamate residue; other site 748280005875 dimer interface [polypeptide binding]; other site 748280005876 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 748280005877 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 748280005878 NMT1-like family; Region: NMT1_2; cl15260 748280005879 Sulfatase; Region: Sulfatase; cl10460 748280005880 choline-sulfatase; Region: chol_sulfatase; TIGR03417 748280005881 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 748280005882 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280005883 Helix-turn-helix domains; Region: HTH; cl00088 748280005884 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 748280005885 dimerization interface [polypeptide binding]; other site 748280005886 substrate binding pocket [chemical binding]; other site 748280005887 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 748280005888 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 748280005889 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 748280005890 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 748280005891 [4Fe-4S] binding site [ion binding]; other site 748280005892 molybdopterin cofactor binding site; other site 748280005893 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 748280005894 molybdopterin cofactor binding site; other site 748280005895 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 748280005896 non-specific DNA binding site [nucleotide binding]; other site 748280005897 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280005898 salt bridge; other site 748280005899 sequence-specific DNA binding site [nucleotide binding]; other site 748280005900 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 748280005901 Catalytic site [active] 748280005902 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280005903 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 748280005904 putative transposase OrfB; Reviewed; Region: PHA02517 748280005905 Integrase core domain; Region: rve; cl01316 748280005906 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 748280005907 AAA domain; Region: AAA_22; pfam13401 748280005908 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280005909 non-specific DNA binding site [nucleotide binding]; other site 748280005910 salt bridge; other site 748280005911 sequence-specific DNA binding site [nucleotide binding]; other site 748280005912 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 748280005913 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 748280005914 IHF dimer interface [polypeptide binding]; other site 748280005915 IHF - DNA interface [nucleotide binding]; other site 748280005916 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 748280005917 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 748280005918 amidase catalytic site [active] 748280005919 Zn binding residues [ion binding]; other site 748280005920 substrate binding site [chemical binding]; other site 748280005921 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 748280005922 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 748280005923 Protein of unknown function (DUF935); Region: DUF935; pfam06074 748280005924 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 748280005925 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 748280005926 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 748280005927 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 748280005928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005929 AAA domain; Region: AAA_21; pfam13304 748280005930 Walker A/P-loop; other site 748280005931 ATP binding site [chemical binding]; other site 748280005932 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 748280005933 ABC transporter signature motif; other site 748280005934 Walker B; other site 748280005935 D-loop; other site 748280005936 H-loop/switch region; other site 748280005937 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 748280005938 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 748280005939 active site 748280005940 DNA binding site [nucleotide binding] 748280005941 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 748280005942 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 748280005943 Catalytic site [active] 748280005944 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 748280005945 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 748280005946 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 748280005947 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280005948 Sel1 repeat; Region: Sel1; cl02723 748280005949 Sel1 repeat; Region: Sel1; cl02723 748280005950 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 748280005951 SEC-C motif; Region: SEC-C; pfam02810 748280005952 Mu-like prophage I protein [General function prediction only]; Region: COG4388 748280005953 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 748280005954 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 748280005955 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 748280005956 cofactor binding site; other site 748280005957 DNA binding site [nucleotide binding] 748280005958 substrate interaction site [chemical binding]; other site 748280005959 Competence protein CoiA-like family; Region: CoiA; cl11541 748280005960 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 748280005961 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280005962 Mu-like prophage protein [General function prediction only]; Region: COG3941 748280005963 tape measure domain; Region: tape_meas_nterm; TIGR02675 748280005964 DNA-specific endonuclease I; Provisional; Region: PRK15137 748280005965 Endonuclease I; Region: Endonuclease_1; cl01003 748280005966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280005967 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; cl00159 748280005968 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 748280005969 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 748280005970 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 748280005971 putative dimer interface [polypeptide binding]; other site 748280005972 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 748280005973 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 748280005974 SLBB domain; Region: SLBB; pfam10531 748280005975 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 748280005976 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 748280005977 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 748280005978 putative dimer interface [polypeptide binding]; other site 748280005979 [2Fe-2S] cluster binding site [ion binding]; other site 748280005980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280005981 Helix-turn-helix domains; Region: HTH; cl00088 748280005982 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 748280005983 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; cl00200 748280005984 amphipathic channel; other site 748280005985 Asn-Pro-Ala signature motifs; other site 748280005986 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 748280005987 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 748280005988 P loop; other site 748280005989 Nucleotide binding site [chemical binding]; other site 748280005990 DTAP/Switch II; other site 748280005991 Switch I; other site 748280005992 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 748280005993 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 748280005994 P loop; other site 748280005995 Nucleotide binding site [chemical binding]; other site 748280005996 DTAP/Switch II; other site 748280005997 Switch I; other site 748280005998 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 748280005999 Low molecular weight phosphatase family; Region: LMWPc; cd00115 748280006000 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 748280006001 active site 748280006002 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 748280006003 dimerization interface [polypeptide binding]; other site 748280006004 putative DNA binding site [nucleotide binding]; other site 748280006005 putative Zn2+ binding site [ion binding]; other site 748280006006 potassium uptake protein; Region: kup; TIGR00794 748280006007 K+ potassium transporter; Region: K_trans; cl15781 748280006008 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 748280006009 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 748280006010 active site 748280006011 phosphorylation site [posttranslational modification] 748280006012 intermolecular recognition site; other site 748280006013 dimerization interface [polypeptide binding]; other site 748280006014 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 748280006015 DNA binding site [nucleotide binding] 748280006016 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 748280006017 GAF domain; Region: GAF; cl15785 748280006018 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 748280006019 dimer interface [polypeptide binding]; other site 748280006020 phosphorylation site [posttranslational modification] 748280006021 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 748280006022 ATP binding site [chemical binding]; other site 748280006023 Mg2+ binding site [ion binding]; other site 748280006024 G-X-G motif; other site 748280006025 putative chaperone; Provisional; Region: PRK11678 748280006026 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 748280006027 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 748280006028 substrate binding pocket [chemical binding]; other site 748280006029 membrane-bound complex binding site; other site 748280006030 hinge residues; other site 748280006031 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280006032 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 748280006033 dimer interface [polypeptide binding]; other site 748280006034 conserved gate region; other site 748280006035 putative PBP binding loops; other site 748280006036 ABC-ATPase subunit interface; other site 748280006037 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280006038 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 748280006039 dimer interface [polypeptide binding]; other site 748280006040 conserved gate region; other site 748280006041 putative PBP binding loops; other site 748280006042 ABC-ATPase subunit interface; other site 748280006043 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 748280006044 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 748280006045 Walker A/P-loop; other site 748280006046 ATP binding site [chemical binding]; other site 748280006047 Q-loop/lid; other site 748280006048 ABC transporter signature motif; other site 748280006049 Walker B; other site 748280006050 D-loop; other site 748280006051 H-loop/switch region; other site 748280006052 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280006053 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280006054 conserved cys residue [active] 748280006055 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 748280006056 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 748280006057 inhibitor-cofactor binding pocket; inhibition site 748280006058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006059 catalytic residue [active] 748280006060 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 748280006061 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 748280006062 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280006063 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 748280006064 NAD(P) binding site [chemical binding]; other site 748280006065 catalytic residues [active] 748280006066 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 748280006067 CoenzymeA binding site [chemical binding]; other site 748280006068 subunit interaction site [polypeptide binding]; other site 748280006069 PHB binding site; other site 748280006070 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280006071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280006072 Helix-turn-helix domains; Region: HTH; cl00088 748280006073 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280006074 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 748280006075 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 748280006076 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280006077 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280006078 Helix-turn-helix domains; Region: HTH; cl00088 748280006079 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 748280006080 dimerization interface [polypeptide binding]; other site 748280006081 substrate binding pocket [chemical binding]; other site 748280006082 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 748280006083 Integral membrane protein TerC family; Region: TerC; cl10468 748280006084 Peptidase family M48; Region: Peptidase_M48; cl12018 748280006085 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 748280006086 Helix-turn-helix domains; Region: HTH; cl00088 748280006087 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 748280006088 dimerization interface [polypeptide binding]; other site 748280006089 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 748280006090 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 748280006091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280006092 putative acyl-acceptor binding pocket; other site 748280006093 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 748280006094 dimerization interface [polypeptide binding]; other site 748280006095 putative DNA binding site [nucleotide binding]; other site 748280006096 putative Zn2+ binding site [ion binding]; other site 748280006097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280006098 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 748280006099 active site 748280006100 phosphorylation site [posttranslational modification] 748280006101 intermolecular recognition site; other site 748280006102 dimerization interface [polypeptide binding]; other site 748280006103 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 748280006104 DNA binding site [nucleotide binding] 748280006105 PAS fold; Region: PAS_7; pfam12860 748280006106 PAS domain S-box; Region: sensory_box; TIGR00229 748280006107 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 748280006108 putative active site [active] 748280006109 heme pocket [chemical binding]; other site 748280006110 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 748280006111 dimer interface [polypeptide binding]; other site 748280006112 phosphorylation site [posttranslational modification] 748280006113 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 748280006114 ATP binding site [chemical binding]; other site 748280006115 G-X-G motif; other site 748280006116 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 748280006117 active site 748280006118 phosphorylation site [posttranslational modification] 748280006119 intermolecular recognition site; other site 748280006120 dimerization interface [polypeptide binding]; other site 748280006121 acyl-CoA synthetase; Validated; Region: PRK08162 748280006122 AMP-binding enzyme; Region: AMP-binding; cl15778 748280006123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280006124 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 748280006125 Ligand binding site [chemical binding]; other site 748280006126 Electron transfer flavoprotein domain; Region: ETF; pfam01012 748280006127 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 748280006128 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 748280006129 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 748280006130 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280006131 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280006132 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280006133 active site 748280006134 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280006135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280006136 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280006137 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 748280006138 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 748280006139 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 748280006140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280006141 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280006142 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 748280006143 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 748280006144 substrate binding site [chemical binding]; other site 748280006145 oxyanion hole (OAH) forming residues; other site 748280006146 trimer interface [polypeptide binding]; other site 748280006147 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; cl15762 748280006148 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 748280006149 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 748280006150 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 748280006151 Walker A/P-loop; other site 748280006152 ATP binding site [chemical binding]; other site 748280006153 Q-loop/lid; other site 748280006154 ABC transporter signature motif; other site 748280006155 Walker B; other site 748280006156 D-loop; other site 748280006157 H-loop/switch region; other site 748280006158 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280006159 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 748280006160 FtsX-like permease family; Region: FtsX; cl15850 748280006161 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280006162 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 748280006163 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 748280006164 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 748280006165 [2Fe-2S] cluster binding site [ion binding]; other site 748280006166 Domain of unknown function DUF59; Region: DUF59; cl00941 748280006167 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 748280006168 trimerization site [polypeptide binding]; other site 748280006169 active site 748280006170 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 748280006171 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 748280006172 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280006173 catalytic residue [active] 748280006174 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 748280006175 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 748280006176 FeS assembly ATPase SufC; Region: sufC; TIGR01978 748280006177 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 748280006178 Walker A/P-loop; other site 748280006179 ATP binding site [chemical binding]; other site 748280006180 Q-loop/lid; other site 748280006181 ABC transporter signature motif; other site 748280006182 Walker B; other site 748280006183 D-loop; other site 748280006184 H-loop/switch region; other site 748280006185 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 748280006186 putative ABC transporter; Region: ycf24; CHL00085 748280006187 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 748280006188 Helix-turn-helix domains; Region: HTH; cl00088 748280006189 Helix-turn-helix domains; Region: HTH; cl00088 748280006190 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 748280006191 Helix-turn-helix domains; Region: HTH; cl00088 748280006192 LysR family transcriptional regulator; Provisional; Region: PRK14997 748280006193 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 748280006194 putative effector binding pocket; other site 748280006195 dimerization interface [polypeptide binding]; other site 748280006196 Fusaric acid resistance protein family; Region: FUSC; pfam04632 748280006197 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 748280006198 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 748280006199 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 748280006200 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 748280006201 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 748280006202 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280006203 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 748280006204 GAF domain; Region: GAF; cl15785 748280006205 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 748280006206 Walker A motif; other site 748280006207 ATP binding site [chemical binding]; other site 748280006208 Walker B motif; other site 748280006209 arginine finger; other site 748280006210 Helix-turn-helix domains; Region: HTH; cl00088 748280006211 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 748280006212 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 748280006213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280006214 Walker A/P-loop; other site 748280006215 ATP binding site [chemical binding]; other site 748280006216 Q-loop/lid; other site 748280006217 ABC transporter signature motif; other site 748280006218 Walker B; other site 748280006219 D-loop; other site 748280006220 H-loop/switch region; other site 748280006221 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 748280006222 active site 748280006223 catalytic residues [active] 748280006224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280006225 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280006226 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280006227 NAD(P) binding site [chemical binding]; other site 748280006228 catalytic residues [active] 748280006229 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 748280006230 Cytochrome c; Region: Cytochrom_C; cl11414 748280006231 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 748280006232 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 748280006233 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 748280006234 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 748280006235 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 748280006236 FeS/SAM binding site; other site 748280006237 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 748280006238 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 748280006239 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 748280006240 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 748280006241 AMP-binding enzyme; Region: AMP-binding; cl15778 748280006242 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280006243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006244 Helix-turn-helix domains; Region: HTH; cl00088 748280006245 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 748280006246 dimerization interface [polypeptide binding]; other site 748280006247 Arginase family; Region: Arginase; cl00306 748280006248 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280006249 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280006250 NAD(P) binding site [chemical binding]; other site 748280006251 catalytic residues [active] 748280006252 Sodium:solute symporter family; Region: SSF; cl00456 748280006253 choline dehydrogenase; Validated; Region: PRK02106 748280006254 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 748280006255 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 748280006256 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 748280006257 G1 box; other site 748280006258 putative GEF interaction site [polypeptide binding]; other site 748280006259 GTP/Mg2+ binding site [chemical binding]; other site 748280006260 Switch I region; other site 748280006261 G2 box; other site 748280006262 G3 box; other site 748280006263 Switch II region; other site 748280006264 G4 box; other site 748280006265 G5 box; other site 748280006266 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 748280006267 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 748280006268 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 748280006269 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 748280006270 selenocysteine synthase; Provisional; Region: PRK04311 748280006271 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 748280006272 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 748280006273 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 748280006274 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 748280006275 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 748280006276 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 748280006277 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 748280006278 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 748280006279 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 748280006280 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 748280006281 [4Fe-4S] binding site [ion binding]; other site 748280006282 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 748280006283 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 748280006284 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 748280006285 molybdopterin cofactor binding site; other site 748280006286 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 748280006287 nudix motif; other site 748280006288 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 748280006289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280006290 putative substrate translocation pore; other site 748280006291 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 748280006292 Helix-turn-helix domains; Region: HTH; cl00088 748280006293 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280006294 pyruvate carboxylase; Reviewed; Region: PRK12999 748280006295 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280006296 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280006297 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 748280006298 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 748280006299 active site 748280006300 catalytic residues [active] 748280006301 metal binding site [ion binding]; metal-binding site 748280006302 homodimer binding site [polypeptide binding]; other site 748280006303 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 748280006304 carboxyltransferase (CT) interaction site; other site 748280006305 biotinylation site [posttranslational modification]; other site 748280006306 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 748280006307 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 748280006308 FAD binding site [chemical binding]; other site 748280006309 lipoyl synthase; Provisional; Region: PRK05481 748280006310 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 748280006311 FeS/SAM binding site; other site 748280006312 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 748280006313 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280006314 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280006315 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 748280006316 dimer interface [polypeptide binding]; other site 748280006317 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280006318 active site 748280006319 folate binding site [chemical binding]; other site 748280006320 glycine dehydrogenase; Provisional; Region: PRK05367 748280006321 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 748280006322 tetramer interface [polypeptide binding]; other site 748280006323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006324 catalytic residue [active] 748280006325 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 748280006326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006327 tetramer interface [polypeptide binding]; other site 748280006328 catalytic residue [active] 748280006329 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 748280006330 lipoyl attachment site [posttranslational modification]; other site 748280006331 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 748280006332 non-specific DNA binding site [nucleotide binding]; other site 748280006333 salt bridge; other site 748280006334 sequence-specific DNA binding site [nucleotide binding]; other site 748280006335 CHASE3 domain; Region: CHASE3; cl05000 748280006336 PAS fold; Region: PAS; pfam00989 748280006337 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 748280006338 putative active site [active] 748280006339 heme pocket [chemical binding]; other site 748280006340 PAS fold; Region: PAS_4; pfam08448 748280006341 GAF domain; Region: GAF_2; pfam13185 748280006342 GAF domain; Region: GAF; cl15785 748280006343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006344 metal binding site [ion binding]; metal-binding site 748280006345 active site 748280006346 I-site; other site 748280006347 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 748280006348 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 748280006349 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 748280006350 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280006351 substrate binding pocket [chemical binding]; other site 748280006352 membrane-bound complex binding site; other site 748280006353 hinge residues; other site 748280006354 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280006355 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 748280006356 dimer interface [polypeptide binding]; other site 748280006357 conserved gate region; other site 748280006358 putative PBP binding loops; other site 748280006359 ABC-ATPase subunit interface; other site 748280006360 DNA gyrase subunit A; Validated; Region: PRK05560 748280006361 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 in DNA...; Region: TOP4c; cd00187 748280006362 CAP-like domain; other site 748280006363 active site 748280006364 primary dimer interface [polypeptide binding]; other site 748280006365 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006366 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006367 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006368 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006369 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006370 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006371 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 748280006372 CoenzymeA binding site [chemical binding]; other site 748280006373 subunit interaction site [polypeptide binding]; other site 748280006374 PHB binding site; other site 748280006375 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 748280006376 CoenzymeA binding site [chemical binding]; other site 748280006377 subunit interaction site [polypeptide binding]; other site 748280006378 PHB binding site; other site 748280006379 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 748280006380 homodimer interface [polypeptide binding]; other site 748280006381 substrate-cofactor binding pocket; other site 748280006382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006383 catalytic residue [active] 748280006384 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 748280006385 putative substrate translocation pore; other site 748280006386 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280006387 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 748280006388 S-adenosylmethionine binding site [chemical binding]; other site 748280006389 Chorismate mutase type II; Region: CM_2; cl00693 748280006390 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 748280006391 Prephenate dehydratase; Region: PDT; pfam00800 748280006392 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 748280006393 putative L-Phe binding site [chemical binding]; other site 748280006394 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 748280006395 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280006396 conserved cys residue [active] 748280006397 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 748280006398 NeuB family; Region: NeuB; cl00496 748280006399 OsmC-like protein; Region: OsmC; cl00767 748280006400 GAF domain; Region: GAF; cl15785 748280006401 GAF domain; Region: GAF_2; pfam13185 748280006402 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 748280006403 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 748280006404 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 748280006405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280006406 Helix-turn-helix domains; Region: HTH; cl00088 748280006407 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 748280006408 CoenzymeA binding site [chemical binding]; other site 748280006409 subunit interaction site [polypeptide binding]; other site 748280006410 PHB binding site; other site 748280006411 enoyl-CoA hydratase; Provisional; Region: PRK06142 748280006412 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 748280006413 substrate binding site [chemical binding]; other site 748280006414 oxyanion hole (OAH) forming residues; other site 748280006415 trimer interface [polypeptide binding]; other site 748280006416 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 748280006417 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 748280006418 dimerization interface [polypeptide binding]; other site 748280006419 ligand binding site [chemical binding]; other site 748280006420 ferrochelatase; Reviewed; Region: hemH; PRK00035 748280006421 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 748280006422 C-terminal domain interface [polypeptide binding]; other site 748280006423 active site 748280006424 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 748280006425 active site 748280006426 N-terminal domain interface [polypeptide binding]; other site 748280006427 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 748280006428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280006429 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 748280006430 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 748280006431 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280006432 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 748280006433 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 748280006434 active site 748280006435 HIGH motif; other site 748280006436 dimer interface [polypeptide binding]; other site 748280006437 KMSKS motif; other site 748280006438 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 748280006439 RNA binding surface [nucleotide binding]; other site 748280006440 Sulfatase; Region: Sulfatase; cl10460 748280006441 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 748280006442 DHH family; Region: DHH; pfam01368 748280006443 DHHA1 domain; Region: DHHA1; pfam02272 748280006444 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 748280006445 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 748280006446 RmuC family; Region: RmuC; pfam02646 748280006447 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 748280006448 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 748280006449 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 748280006450 dimer interface [polypeptide binding]; other site 748280006451 active site residues [active] 748280006452 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 748280006453 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 748280006454 acetyl-CoA synthetase; Provisional; Region: PRK04319 748280006455 AMP-binding enzyme; Region: AMP-binding; cl15778 748280006456 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280006457 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 748280006458 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 748280006459 tetramer interface [polypeptide binding]; other site 748280006460 TPP-binding site [chemical binding]; other site 748280006461 heterodimer interface [polypeptide binding]; other site 748280006462 phosphorylation loop region [posttranslational modification] 748280006463 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 748280006464 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 748280006465 alpha subunit interface [polypeptide binding]; other site 748280006466 TPP binding site [chemical binding]; other site 748280006467 heterodimer interface [polypeptide binding]; other site 748280006468 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280006469 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 748280006470 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 748280006471 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 748280006472 E3 interaction surface; other site 748280006473 lipoyl attachment site [posttranslational modification]; other site 748280006474 e3 binding domain; Region: E3_binding; pfam02817 748280006475 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 748280006476 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280006477 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280006478 acyl-CoA synthetase; Validated; Region: PRK09192 748280006479 AMP-binding enzyme; Region: AMP-binding; cl15778 748280006480 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280006481 putative acyl-acceptor binding pocket; other site 748280006482 Helix-turn-helix domains; Region: HTH; cl00088 748280006483 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 748280006484 dimerization interface [polypeptide binding]; other site 748280006485 putative cyanate transporter; Provisional; Region: cynX; PRK09705 748280006486 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 748280006487 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 748280006488 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 748280006489 substrate binding pocket [chemical binding]; other site 748280006490 membrane-bound complex binding site; other site 748280006491 hinge residues; other site 748280006492 cytosine deaminase; Provisional; Region: PRK05985 748280006493 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 748280006494 active site 748280006495 Cytochrome c; Region: Cytochrom_C; cl11414 748280006496 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280006497 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 748280006498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280006499 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280006500 putative replication initiation protein; Region: PHA00330 748280006501 translation initiation factor Sui1; Validated; Region: PRK06824 748280006502 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 748280006503 Predicted RNA interaction site [nucleotide binding]; other site 748280006504 putative binding site; other site 748280006505 Mutations affecting start-site selection; other site 748280006506 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 748280006507 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 748280006508 G1 box; other site 748280006509 putative GEF interaction site [polypeptide binding]; other site 748280006510 GTP/Mg2+ binding site [chemical binding]; other site 748280006511 Switch I region; other site 748280006512 G2 box; other site 748280006513 G3 box; other site 748280006514 Switch II region; other site 748280006515 G4 box; other site 748280006516 G5 box; other site 748280006517 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 748280006518 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 748280006519 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 748280006520 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 748280006521 NAD(P) binding site [chemical binding]; other site 748280006522 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 748280006523 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280006524 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 748280006525 metal-binding site [ion binding] 748280006526 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280006527 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280006528 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 748280006529 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 748280006530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 748280006531 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280006532 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 748280006533 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280006534 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280006535 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 748280006536 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 748280006537 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 748280006538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006539 metal binding site [ion binding]; metal-binding site 748280006540 active site 748280006541 I-site; other site 748280006542 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 748280006543 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 748280006544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006545 metal binding site [ion binding]; metal-binding site 748280006546 active site 748280006547 I-site; other site 748280006548 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 748280006549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280006550 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 748280006551 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 748280006552 catalytic triad [active] 748280006553 dimer interface [polypeptide binding]; other site 748280006554 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280006555 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 748280006556 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280006557 putative metal binding site [ion binding]; other site 748280006558 lytic murein transglycosylase; Provisional; Region: PRK11619 748280006559 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 catalyze...; Region: LT_GEWL; cd00254 748280006560 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280006561 catalytic residue [active] 748280006562 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 748280006563 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280006564 putative NAD(P) binding site [chemical binding]; other site 748280006565 active site 748280006566 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 748280006567 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 748280006568 active site 748280006569 NTP binding site [chemical binding]; other site 748280006570 metal binding triad [ion binding]; metal-binding site 748280006571 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 748280006572 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 748280006573 PrpF protein; Region: PrpF; pfam04303 748280006574 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 748280006575 active site 748280006576 catalytic triad [active] 748280006577 oxyanion hole [active] 748280006578 FtsH Extracellular; Region: FtsH_ext; pfam06480 748280006579 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 748280006580 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 748280006581 Walker A motif; other site 748280006582 ATP binding site [chemical binding]; other site 748280006583 Walker B motif; other site 748280006584 arginine finger; other site 748280006585 Peptidase family M41; Region: Peptidase_M41; pfam01434 748280006586 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 748280006587 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 748280006588 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 748280006589 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 748280006590 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 748280006591 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280006592 ligand binding site [chemical binding]; other site 748280006593 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 748280006594 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280006595 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280006596 putative aminotransferase; Validated; Region: PRK07480 748280006597 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 748280006598 inhibitor-cofactor binding pocket; inhibition site 748280006599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006600 catalytic residue [active] 748280006601 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280006602 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280006603 Peptidase C26; Region: Peptidase_C26; pfam07722 748280006604 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 748280006605 catalytic triad [active] 748280006606 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 748280006607 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 748280006608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280006609 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280006610 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 748280006611 non-specific DNA binding site [nucleotide binding]; other site 748280006612 salt bridge; other site 748280006613 sequence-specific DNA binding site [nucleotide binding]; other site 748280006614 Cupin domain; Region: Cupin_2; cl09118 748280006615 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 748280006616 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 748280006617 NAD(P) binding site [chemical binding]; other site 748280006618 catalytic residues [active] 748280006619 Protein of unknown function (DUF520); Region: DUF520; cl00723 748280006620 LysE type translocator; Region: LysE; cl00565 748280006621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280006622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280006623 Family description; Region: UvrD_C_2; cl15862 748280006624 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 748280006625 putative active site [active] 748280006626 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280006627 Domain of unknown function DUF59; Region: DUF59; cl00941 748280006628 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 748280006629 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 protein; Region: CSP_CDS; cd04458 748280006630 DNA-binding site [nucleotide binding]; DNA binding site 748280006631 RNA-binding motif; other site 748280006632 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 748280006633 Dienelactone hydrolase family; Region: DLH; pfam01738 748280006634 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; cl12031 748280006635 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 748280006636 non-specific DNA binding site [nucleotide binding]; other site 748280006637 salt bridge; other site 748280006638 sequence-specific DNA binding site [nucleotide binding]; other site 748280006639 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 748280006640 Ligand Binding Site [chemical binding]; other site 748280006641 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 748280006642 active site 748280006643 tellurium resistance terB-like protein; Region: terB_like; cl11965 748280006644 metal binding site [ion binding]; metal-binding site 748280006645 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 748280006646 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 748280006647 DNA binding site [nucleotide binding] 748280006648 Int/Topo IB signature motif; other site 748280006649 active site 748280006650 Competence-damaged protein; Region: CinA; cl00666 748280006651 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 748280006652 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 748280006653 active site 748280006654 dimer interface [polypeptide binding]; other site 748280006655 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 748280006656 dimer interface [polypeptide binding]; other site 748280006657 active site 748280006658 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 748280006659 putative active site [active] 748280006660 putative substrate binding site [chemical binding]; other site 748280006661 catalytic site [active] 748280006662 dimer interface [polypeptide binding]; other site 748280006663 Peptidase family M48; Region: Peptidase_M48; cl12018 748280006664 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 748280006665 aromatic arch; other site 748280006666 DCoH dimer interaction site [polypeptide binding]; other site 748280006667 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 748280006668 DCoH tetramer interaction site [polypeptide binding]; other site 748280006669 substrate binding site [chemical binding]; other site 748280006670 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 748280006671 GTPase RsgA; Reviewed; Region: PRK00098 748280006672 RNA binding site [nucleotide binding]; other site 748280006673 homodimer interface [polypeptide binding]; other site 748280006674 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 748280006675 GTPase/Zn-binding domain interface [polypeptide binding]; other site 748280006676 GTP/Mg2+ binding site [chemical binding]; other site 748280006677 G4 box; other site 748280006678 G5 box; other site 748280006679 G1 box; other site 748280006680 Switch I region; other site 748280006681 G2 box; other site 748280006682 G3 box; other site 748280006683 Switch II region; other site 748280006684 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 748280006685 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 748280006686 NAD(P) binding site [chemical binding]; other site 748280006687 homotetramer interface [polypeptide binding]; other site 748280006688 homodimer interface [polypeptide binding]; other site 748280006689 active site 748280006690 GAF domain; Region: GAF; cl15785 748280006691 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 748280006692 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 748280006693 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 748280006694 DNA binding site [nucleotide binding] 748280006695 Int/Topo IB signature motif; other site 748280006696 active site 748280006697 Helix-turn-helix domains; Region: HTH; cl00088 748280006698 potential frameshift: common BLAST hit: gi|251791805|ref|YP_003006526.1| Integrase catalytic region 748280006699 HTH-like domain; Region: HTH_21; pfam13276 748280006700 Integrase core domain; Region: rve; cl01316 748280006701 Integrase core domain; Region: rve; cl01316 748280006702 Integrase core domain; Region: rve_3; cl15866 748280006703 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 748280006704 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 748280006705 active site 748280006706 phosphorylation site [posttranslational modification] 748280006707 intermolecular recognition site; other site 748280006708 dimerization interface [polypeptide binding]; other site 748280006709 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 748280006710 DNA binding site [nucleotide binding] 748280006711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280006712 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 748280006713 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 748280006714 dimer interface [polypeptide binding]; other site 748280006715 phosphorylation site [posttranslational modification] 748280006716 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 748280006717 ATP binding site [chemical binding]; other site 748280006718 Mg2+ binding site [ion binding]; other site 748280006719 G-X-G motif; other site 748280006720 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280006721 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 748280006722 putative substrate translocation pore; other site 748280006723 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 748280006724 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 748280006725 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 748280006726 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280006727 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280006728 Helix-turn-helix domains; Region: HTH; cl00088 748280006729 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 748280006730 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 748280006731 Helix-turn-helix domains; Region: HTH; cl00088 748280006732 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 748280006733 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 748280006734 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 748280006735 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 748280006736 Protein export membrane protein; Region: SecD_SecF; cl14618 748280006737 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280006738 Phospholipid methyltransferase; Region: PEMT; cl00763 748280006739 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 748280006740 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 748280006741 active site 748280006742 dimer interface [polypeptide binding]; other site 748280006743 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 748280006744 Ligand Binding Site [chemical binding]; other site 748280006745 Molecular Tunnel; other site 748280006746 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 748280006747 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 748280006748 Ligand binding site; other site 748280006749 Putative Catalytic site; other site 748280006750 DXD motif; other site 748280006751 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 748280006752 Methyltransferase domain; Region: Methyltransf_31; pfam13847 748280006753 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 748280006754 S-adenosylmethionine binding site [chemical binding]; other site 748280006755 Flp/Fap pilin component; Region: Flp_Fap; cl01585 748280006756 Flp/Fap pilin component; Region: Flp_Fap; cl01585 748280006757 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 748280006758 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 748280006759 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280006760 Walker A motif; other site 748280006761 ATP binding site [chemical binding]; other site 748280006762 Walker B motif; other site 748280006763 arginine finger; other site 748280006764 SAF domain; Region: SAF; cl00555 748280006765 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 748280006766 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 748280006767 BON domain; Region: BON; cl02771 748280006768 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 748280006769 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 748280006770 TadE-like protein; Region: TadE; cl10688 748280006771 TadE-like protein; Region: TadE; cl10688 748280006772 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; cl09944 748280006773 active site 748280006774 phosphorylation site [posttranslational modification] 748280006775 intermolecular recognition site; other site 748280006776 dimerization interface [polypeptide binding]; other site 748280006777 AAA domain; Region: AAA_31; pfam13614 748280006778 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 748280006779 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 748280006780 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 748280006781 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 748280006782 ATP binding site [chemical binding]; other site 748280006783 Walker A motif; other site 748280006784 hexamer interface [polypeptide binding]; other site 748280006785 Walker B motif; other site 748280006786 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 748280006787 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 748280006788 TPR repeat; Region: TPR_11; pfam13414 748280006789 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 748280006790 binding surface 748280006791 TPR motif; other site 748280006792 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 748280006793 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 748280006794 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280006795 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 748280006796 tetramer interfaces [polypeptide binding]; other site 748280006797 binuclear metal-binding site [ion binding]; other site 748280006798 thiamine monophosphate kinase; Provisional; Region: PRK05731 748280006799 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 748280006800 ATP binding site [chemical binding]; other site 748280006801 dimerization interface [polypeptide binding]; other site 748280006802 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 748280006803 putative RNA binding site [nucleotide binding]; other site 748280006804 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 748280006805 homopentamer interface [polypeptide binding]; other site 748280006806 active site 748280006807 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 748280006808 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 748280006809 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; cl00522 748280006810 dimerization interface [polypeptide binding]; other site 748280006811 active site 748280006812 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 748280006813 Lumazine binding domain; Region: Lum_binding; pfam00677 748280006814 Lumazine binding domain; Region: Lum_binding; pfam00677 748280006815 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 748280006816 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 748280006817 G1 box; other site 748280006818 putative GEF interaction site [polypeptide binding]; other site 748280006819 GTP/Mg2+ binding site [chemical binding]; other site 748280006820 Switch I region; other site 748280006821 G2 box; other site 748280006822 G3 box; other site 748280006823 Switch II region; other site 748280006824 G4 box; other site 748280006825 G5 box; other site 748280006826 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 748280006827 Mechanosensitive ion channel; Region: MS_channel; pfam00924 748280006828 Helix-turn-helix domains; Region: HTH; cl00088 748280006829 Bacterial transcriptional repressor; Region: TetR; pfam13972 748280006830 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 748280006831 Paraquat-inducible protein A; Region: PqiA; pfam04403 748280006832 Paraquat-inducible protein A; Region: PqiA; pfam04403 748280006833 paraquat-inducible protein B; Provisional; Region: PRK10807 748280006834 mce related protein; Region: MCE; pfam02470 748280006835 mce related protein; Region: MCE; pfam02470 748280006836 mce related protein; Region: MCE; pfam02470 748280006837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 748280006838 Protein of unknown function (DUF330); Region: DUF330; cl01135 748280006839 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 748280006840 NAD(P) binding site [chemical binding]; other site 748280006841 catalytic residues [active] 748280006842 Tetratricopeptide repeat; Region: TPR_12; pfam13424 748280006843 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 748280006844 binding surface 748280006845 TPR motif; other site 748280006846 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 748280006847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280006848 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 748280006849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006850 Helix-turn-helix domains; Region: HTH; cl00088 748280006851 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 748280006852 putative dimerization interface [polypeptide binding]; other site 748280006853 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 748280006854 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 748280006855 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 748280006856 Helix-turn-helix domains; Region: HTH; cl00088 748280006857 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 748280006858 dimerization interface [polypeptide binding]; other site 748280006859 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 748280006860 Isochorismatase family; Region: Isochorismatase; pfam00857 748280006861 catalytic triad [active] 748280006862 dimer interface [polypeptide binding]; other site 748280006863 conserved cis-peptide bond; other site 748280006864 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 748280006865 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 748280006866 active site 748280006867 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 748280006868 DoxX; Region: DoxX; cl00976 748280006869 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 748280006870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006871 Helix-turn-helix domains; Region: HTH; cl00088 748280006872 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 748280006873 dimerization interface [polypeptide binding]; other site 748280006874 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 748280006875 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 748280006876 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 748280006877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 748280006878 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 748280006879 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 748280006880 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 748280006881 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280006882 Helix-turn-helix domains; Region: HTH; cl00088 748280006883 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 748280006884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280006885 Uncharacterized conserved protein [Function unknown]; Region: COG3496 748280006886 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 748280006887 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 748280006888 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 748280006889 S-adenosylmethionine binding site [chemical binding]; other site 748280006890 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 748280006891 short chain dehydrogenase; Provisional; Region: PRK06101 748280006892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280006893 NAD(P) binding site [chemical binding]; other site 748280006894 active site 748280006895 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 748280006896 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 748280006897 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 748280006898 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 748280006899 HIT family signature motif; other site 748280006900 catalytic residue [active] 748280006901 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 748280006902 phosphatidylcholine-sterol O-acyltransferase; Region: PLN02733 748280006903 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; cl12031 748280006904 CHAT domain; Region: CHAT; pfam12770 748280006905 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 748280006906 nucleotide binding site/active site [active] 748280006907 HIT family signature motif; other site 748280006908 catalytic residue [active] 748280006909 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 748280006910 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 748280006911 substrate binding site [chemical binding]; other site 748280006912 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 748280006913 substrate binding site [chemical binding]; other site 748280006914 ligand binding site [chemical binding]; other site 748280006915 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280006916 Helix-turn-helix domains; Region: HTH; cl00088 748280006917 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 748280006918 dimerization interface [polypeptide binding]; other site 748280006919 substrate binding pocket [chemical binding]; other site 748280006920 aconitate hydratase; Validated; Region: PRK09277 748280006921 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 748280006922 substrate binding site [chemical binding]; other site 748280006923 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 748280006924 ligand binding site [chemical binding]; other site 748280006925 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 748280006926 substrate binding site [chemical binding]; other site 748280006927 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 748280006928 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 748280006929 DctM-like transporters; Region: DctM; pfam06808 748280006930 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 748280006931 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 748280006932 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; cl02459 748280006933 PAS domain; Region: PAS_9; pfam13426 748280006934 hypothetical protein; Provisional; Region: PRK13560 748280006935 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; cl02459 748280006936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006937 metal binding site [ion binding]; metal-binding site 748280006938 active site 748280006939 I-site; other site 748280006940 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 748280006941 Cupin domain; Region: Cupin_2; cl09118 748280006942 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 748280006943 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 748280006944 metal binding site [ion binding]; metal-binding site 748280006945 putative dimer interface [polypeptide binding]; other site 748280006946 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 748280006947 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280006948 Membrane transport protein; Region: Mem_trans; cl09117 748280006949 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 748280006950 catalytic core [active] 748280006951 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 748280006952 SelR domain; Region: SelR; pfam01641 748280006953 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 748280006954 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 748280006955 HflX GTPase family; Region: HflX; cd01878 748280006956 G1 box; other site 748280006957 GTP/Mg2+ binding site [chemical binding]; other site 748280006958 Switch I region; other site 748280006959 G2 box; other site 748280006960 G3 box; other site 748280006961 Switch II region; other site 748280006962 G4 box; other site 748280006963 G5 box; other site 748280006964 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 748280006965 DEAD-like helicases superfamily; Region: DEXDc; smart00487 748280006966 ATP binding site [chemical binding]; other site 748280006967 Mg++ binding site [ion binding]; other site 748280006968 motif III; other site 748280006969 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 748280006970 nucleotide binding region [chemical binding]; other site 748280006971 ATP-binding site [chemical binding]; other site 748280006972 Amino acid permease; Region: AA_permease_2; pfam13520 748280006973 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 748280006974 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 748280006975 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 748280006976 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280006977 active site 748280006978 thymidine phosphorylase; Provisional; Region: PRK04350 748280006979 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 748280006980 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 748280006981 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 748280006982 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 748280006983 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280006984 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 748280006985 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280006986 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 748280006987 AMP nucleosidase; Provisional; Region: PRK08292 748280006988 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 748280006989 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 748280006990 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 748280006991 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 748280006992 Walker A motif; other site 748280006993 ATP binding site [chemical binding]; other site 748280006994 Walker B motif; other site 748280006995 arginine finger; other site 748280006996 Helix-turn-helix domains; Region: HTH; cl00088 748280006997 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 748280006998 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 748280006999 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 748280007000 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 748280007001 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 748280007002 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 748280007003 putative NAD(P) binding site [chemical binding]; other site 748280007004 catalytic Zn binding site [ion binding]; other site 748280007005 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 748280007006 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280007007 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 748280007008 active site 748280007009 metal binding site [ion binding]; metal-binding site 748280007010 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 748280007011 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 748280007012 E3 interaction surface; other site 748280007013 lipoyl attachment site [posttranslational modification]; other site 748280007014 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 748280007015 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 748280007016 alpha subunit interface [polypeptide binding]; other site 748280007017 TPP binding site [chemical binding]; other site 748280007018 heterodimer interface [polypeptide binding]; other site 748280007019 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280007020 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 748280007021 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 748280007022 tetramer interface [polypeptide binding]; other site 748280007023 TPP-binding site [chemical binding]; other site 748280007024 heterodimer interface [polypeptide binding]; other site 748280007025 phosphorylation loop region [posttranslational modification] 748280007026 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 748280007027 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 748280007028 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 748280007029 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 748280007030 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 748280007031 alpha subunit interaction interface [polypeptide binding]; other site 748280007032 Walker A motif; other site 748280007033 ATP binding site [chemical binding]; other site 748280007034 Walker B motif; other site 748280007035 inhibitor binding site; inhibition site 748280007036 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 748280007037 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 748280007038 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 748280007039 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 748280007040 ATP synthase A chain; Region: ATP-synt_A; cl00413 748280007041 ATP synthase subunit C; Region: ATP-synt_C; cl00466 748280007042 Plant ATP synthase F0; Region: YMF19; cl07975 748280007043 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 748280007044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280007045 Walker A motif; other site 748280007046 ATP binding site [chemical binding]; other site 748280007047 Walker B motif; other site 748280007048 ATP synthase; Region: ATP-synt; cl00365 748280007049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007050 FAD dependent oxidoreductase; Region: DAO; pfam01266 748280007051 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 748280007052 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 748280007053 inhibitor site; inhibition site 748280007054 active site 748280007055 dimer interface [polypeptide binding]; other site 748280007056 catalytic residue [active] 748280007057 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280007058 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 748280007059 NAD(P) binding site [chemical binding]; other site 748280007060 catalytic residues [active] 748280007061 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 748280007062 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 748280007063 Walker A/P-loop; other site 748280007064 ATP binding site [chemical binding]; other site 748280007065 Q-loop/lid; other site 748280007066 ABC transporter signature motif; other site 748280007067 Walker B; other site 748280007068 D-loop; other site 748280007069 H-loop/switch region; other site 748280007070 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 748280007071 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 748280007072 dimer interface [polypeptide binding]; other site 748280007073 conserved gate region; other site 748280007074 ABC-ATPase subunit interface; other site 748280007075 NMT1-like family; Region: NMT1_2; cl15260 748280007076 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 748280007077 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280007078 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 748280007079 dimer interface [polypeptide binding]; other site 748280007080 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280007081 active site 748280007082 folate binding site [chemical binding]; other site 748280007083 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280007084 Helix-turn-helix domains; Region: HTH; cl00088 748280007085 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 748280007086 dimerization interface [polypeptide binding]; other site 748280007087 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280007088 Helix-turn-helix domains; Region: HTH; cl00088 748280007089 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 748280007090 dimerization interface [polypeptide binding]; other site 748280007091 substrate binding pocket [chemical binding]; other site 748280007092 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 748280007093 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 748280007094 dimerization interface [polypeptide binding]; other site 748280007095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280007096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280007097 dimer interface [polypeptide binding]; other site 748280007098 putative CheW interface [polypeptide binding]; other site 748280007099 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 748280007100 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 748280007101 [2Fe-2S] cluster binding site [ion binding]; other site 748280007102 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 748280007103 putative alpha subunit interface [polypeptide binding]; other site 748280007104 putative active site [active] 748280007105 putative substrate binding site [chemical binding]; other site 748280007106 Fe binding site [ion binding]; other site 748280007107 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 748280007108 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 748280007109 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 748280007110 FAD binding pocket [chemical binding]; other site 748280007111 FAD binding motif [chemical binding]; other site 748280007112 phosphate binding motif [ion binding]; other site 748280007113 beta-alpha-beta structure motif; other site 748280007114 NAD binding pocket [chemical binding]; other site 748280007115 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 748280007116 catalytic loop [active] 748280007117 iron binding site [ion binding]; other site 748280007118 GAF domain; Region: GAF_2; pfam13185 748280007119 GAF domain; Region: GAF; cl15785 748280007120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280007121 metal binding site [ion binding]; metal-binding site 748280007122 active site 748280007123 I-site; other site 748280007124 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 748280007125 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 748280007126 multimer interface [polypeptide binding]; other site 748280007127 heterodimer interface [polypeptide binding]; other site 748280007128 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 748280007129 active site 748280007130 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 748280007131 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 748280007132 heterodimer interface [polypeptide binding]; other site 748280007133 active site 748280007134 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 748280007135 phosphoenolpyruvate synthase; Validated; Region: PRK06241 748280007136 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 748280007137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007138 Helix-turn-helix domains; Region: HTH; cl00088 748280007139 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 748280007140 Helix-turn-helix domains; Region: HTH; cl00088 748280007141 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 748280007142 dimerization interface [polypeptide binding]; other site 748280007143 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 748280007144 Ligand Binding Site [chemical binding]; other site 748280007145 Integral membrane protein TerC family; Region: TerC; cl10468 748280007146 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280007147 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 748280007148 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 748280007149 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 748280007150 tetramer interface [polypeptide binding]; other site 748280007151 active site 748280007152 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 748280007153 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 748280007154 dimer interface [polypeptide binding]; other site 748280007155 active site 748280007156 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 748280007157 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 748280007158 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 748280007159 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 748280007160 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 748280007161 dimer interface [polypeptide binding]; other site 748280007162 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 748280007163 active site 748280007164 Fe binding site [ion binding]; other site 748280007165 shikimate-5-dehydrogenase, fungal AROM-type; Region: Shik-DH-AROM; TIGR01809 748280007166 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 748280007167 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 748280007168 shikimate binding site; other site 748280007169 NAD(P) binding site [chemical binding]; other site 748280007170 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 748280007171 active site 748280007172 trimer interface [polypeptide binding]; other site 748280007173 dimer interface [polypeptide binding]; other site 748280007174 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 748280007175 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 748280007176 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 748280007177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007178 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 748280007179 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 748280007180 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 748280007181 AMP-binding enzyme; Region: AMP-binding; cl15778 748280007182 AMP-binding enzyme; Region: AMP-binding; cl15778 748280007183 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280007184 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280007185 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 748280007186 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 748280007187 putative trimer interface [polypeptide binding]; other site 748280007188 putative CoA binding site [chemical binding]; other site 748280007189 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 748280007190 putative trimer interface [polypeptide binding]; other site 748280007191 putative CoA binding site [chemical binding]; other site 748280007192 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 748280007193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007194 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 748280007195 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 748280007196 dimer interface [polypeptide binding]; other site 748280007197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007198 catalytic residue [active] 748280007199 Cupin domain; Region: Cupin_2; cl09118 748280007200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007201 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280007202 NAD(P) binding site [chemical binding]; other site 748280007203 active site 748280007204 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280007205 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 748280007206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280007207 DNA-binding site [nucleotide binding]; DNA binding site 748280007208 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 748280007209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007210 homodimer interface [polypeptide binding]; other site 748280007211 catalytic residue [active] 748280007212 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280007213 Helix-turn-helix domains; Region: HTH; cl00088 748280007214 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 748280007215 dimerization interface [polypeptide binding]; other site 748280007216 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 748280007217 Proline racemase; Region: Pro_racemase; pfam05544 748280007218 ornithine cyclodeaminase; Validated; Region: PRK06141 748280007219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007220 EamA-like transporter family; Region: EamA; cl01037 748280007221 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280007222 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 748280007223 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280007224 non-specific DNA binding site [nucleotide binding]; other site 748280007225 salt bridge; other site 748280007226 sequence-specific DNA binding site [nucleotide binding]; other site 748280007227 Cupin domain; Region: Cupin_2; cl09118 748280007228 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 748280007229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280007230 Coenzyme A binding pocket [chemical binding]; other site 748280007231 Protein of unknown function, DUF606; Region: DUF606; cl01273 748280007232 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 748280007233 CoenzymeA binding site [chemical binding]; other site 748280007234 subunit interaction site [polypeptide binding]; other site 748280007235 PHB binding site; other site 748280007236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007237 Helix-turn-helix domains; Region: HTH; cl00088 748280007238 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 748280007239 putative dimer interface [polypeptide binding]; other site 748280007240 putative active site [active] 748280007241 Sodium:solute symporter family; Region: SSF; cl00456 748280007242 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280007243 classical (c) SDRs; Region: SDR_c; cd05233 748280007244 NAD(P) binding site [chemical binding]; other site 748280007245 active site 748280007246 transcriptional regulator EutR; Provisional; Region: PRK10130 748280007247 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280007248 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 748280007249 dimerization interface [polypeptide binding]; other site 748280007250 ligand binding site [chemical binding]; other site 748280007251 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 748280007252 putative substrate translocation pore; other site 748280007253 benzoate transport; Region: 2A0115; TIGR00895 748280007254 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 748280007255 putative substrate translocation pore; other site 748280007256 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 748280007257 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 748280007258 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 748280007259 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 748280007260 shikimate binding site; other site 748280007261 NAD(P) binding site [chemical binding]; other site 748280007262 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 748280007263 trimer interface [polypeptide binding]; other site 748280007264 eyelet of channel; other site 748280007265 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 748280007266 Helix-turn-helix domains; Region: HTH; cl00088 748280007267 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280007268 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 748280007269 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 748280007270 dimer interface [polypeptide binding]; other site 748280007271 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 748280007272 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280007273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280007274 DNA-binding site [nucleotide binding]; DNA binding site 748280007275 FCD domain; Region: FCD; cl11656 748280007276 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280007277 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 748280007278 tetramerization interface [polypeptide binding]; other site 748280007279 NAD(P) binding site [chemical binding]; other site 748280007280 catalytic residues [active] 748280007281 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280007282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280007283 Walker A/P-loop; other site 748280007284 ATP binding site [chemical binding]; other site 748280007285 Q-loop/lid; other site 748280007286 ABC transporter signature motif; other site 748280007287 Walker B; other site 748280007288 D-loop; other site 748280007289 H-loop/switch region; other site 748280007290 TOBE domain; Region: TOBE_2; cl01440 748280007291 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 748280007292 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 748280007293 dimer interface [polypeptide binding]; other site 748280007294 conserved gate region; other site 748280007295 putative PBP binding loops; other site 748280007296 ABC-ATPase subunit interface; other site 748280007297 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 748280007298 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 748280007299 NIPSNAP; Region: NIPSNAP; pfam07978 748280007300 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280007301 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 748280007302 NAD(P) binding site [chemical binding]; other site 748280007303 catalytic residues [active] 748280007304 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 748280007305 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 748280007306 Flavin Reductases; Region: FlaRed; cl00801 748280007307 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 748280007308 nudix motif; other site 748280007309 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 748280007310 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; cl12031 748280007311 Amino acid synthesis; Region: AA_synth; pfam06684 748280007312 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280007313 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 748280007314 catalytic loop [active] 748280007315 iron binding site [ion binding]; other site 748280007316 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 748280007317 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 748280007318 dimer interface [polypeptide binding]; other site 748280007319 putative functional site; other site 748280007320 putative MPT binding site; other site 748280007321 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 748280007322 Walker A motif; other site 748280007323 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 748280007324 putative active site [active] 748280007325 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 748280007326 RNA/DNA hybrid binding site [nucleotide binding]; other site 748280007327 active site 748280007328 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 748280007329 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 748280007330 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 748280007331 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 748280007332 active site 748280007333 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 748280007334 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 748280007335 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 748280007336 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 748280007337 trimer interface [polypeptide binding]; other site 748280007338 active site 748280007339 UDP-GlcNAc binding site [chemical binding]; other site 748280007340 lipid binding site [chemical binding]; lipid-binding site 748280007341 periplasmic chaperone; Provisional; Region: PRK10780 748280007342 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 748280007343 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 748280007344 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 748280007345 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 748280007346 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 748280007347 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 748280007348 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 748280007349 Surface antigen; Region: Bac_surface_Ag; cl03097 748280007350 zinc metallopeptidase RseP; Provisional; Region: PRK10779 748280007351 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 748280007352 active site 748280007353 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 748280007354 protein binding site [polypeptide binding]; other site 748280007355 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 748280007356 protein binding site [polypeptide binding]; other site 748280007357 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 748280007358 putative substrate binding region [chemical binding]; other site 748280007359 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 748280007360 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 748280007361 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 748280007362 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 748280007363 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; cl00230 748280007364 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 748280007365 catalytic residue [active] 748280007366 putative FPP diphosphate binding site; other site 748280007367 putative FPP binding hydrophobic cleft; other site 748280007368 dimer interface [polypeptide binding]; other site 748280007369 putative IPP diphosphate binding site; other site 748280007370 ribosome recycling factor; Reviewed; Region: frr; PRK00083 748280007371 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 round of...; Region: RRF; cd00520 748280007372 hinge region; other site 748280007373 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 748280007374 putative nucleotide binding site [chemical binding]; other site 748280007375 uridine monophosphate binding site [chemical binding]; other site 748280007376 homohexameric interface [polypeptide binding]; other site 748280007377 elongation factor Ts; Provisional; Region: tsf; PRK09377 748280007378 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 748280007379 Elongation factor TS; Region: EF_TS; pfam00889 748280007380 Elongation factor TS; Region: EF_TS; pfam00889 748280007381 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 748280007382 rRNA interaction site [nucleotide binding]; other site 748280007383 S8 interaction site; other site 748280007384 putative laminin-1 binding site; other site 748280007385 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 748280007386 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 748280007387 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 748280007388 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 748280007389 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 748280007390 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 748280007391 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 748280007392 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 748280007393 putative NADH binding site [chemical binding]; other site 748280007394 putative active site [active] 748280007395 nudix motif; other site 748280007396 putative metal binding site [ion binding]; other site 748280007397 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 748280007398 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 748280007399 metal binding site [ion binding]; metal-binding site 748280007400 dimer interface [polypeptide binding]; other site 748280007401 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 748280007402 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 748280007403 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 748280007404 Walker A/P-loop; other site 748280007405 ATP binding site [chemical binding]; other site 748280007406 Q-loop/lid; other site 748280007407 ABC transporter signature motif; other site 748280007408 Walker B; other site 748280007409 D-loop; other site 748280007410 H-loop/switch region; other site 748280007411 Protein of unknown function (DUF525); Region: DUF525; cl01119 748280007412 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 748280007413 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 748280007414 substrate binding site [chemical binding]; other site 748280007415 hexamer interface [polypeptide binding]; other site 748280007416 metal binding site [ion binding]; metal-binding site 748280007417 short chain dehydrogenase; Provisional; Region: PRK07023 748280007418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007419 NAD(P) binding site [chemical binding]; other site 748280007420 active site 748280007421 phosphoglycolate phosphatase; Provisional; Region: PRK13222 748280007422 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 748280007423 motif II; other site 748280007424 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 748280007425 anthranilate synthase component I; Provisional; Region: PRK13565 748280007426 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 748280007427 chorismate binding enzyme; Region: Chorismate_bind; cl10555 748280007428 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 748280007429 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 748280007430 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 748280007431 ANP binding site [chemical binding]; other site 748280007432 Substrate Binding Site II [chemical binding]; other site 748280007433 Substrate Binding Site I [chemical binding]; other site 748280007434 ornithine carbamoyltransferase; Provisional; Region: PRK00779 748280007435 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 748280007436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007437 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 748280007438 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 748280007439 homodimer interface [polypeptide binding]; other site 748280007440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007441 catalytic residue [active] 748280007442 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 748280007443 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 748280007444 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280007445 DEAD_2; Region: DEAD_2; pfam06733 748280007446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280007447 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 748280007448 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 748280007449 eyelet of channel; other site 748280007450 trimer interface [polypeptide binding]; other site 748280007451 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 748280007452 active site 748280007453 nodulation ABC transporter NodI; Provisional; Region: PRK13537 748280007454 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 748280007455 Walker A/P-loop; other site 748280007456 ATP binding site [chemical binding]; other site 748280007457 Q-loop/lid; other site 748280007458 ABC transporter signature motif; other site 748280007459 Walker B; other site 748280007460 D-loop; other site 748280007461 H-loop/switch region; other site 748280007462 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 748280007463 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; cl12031 748280007464 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 748280007465 dimer interface [polypeptide binding]; other site 748280007466 [2Fe-2S] cluster binding site [ion binding]; other site 748280007467 replicative DNA helicase; Region: DnaB; TIGR00665 748280007468 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 748280007469 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 748280007470 Walker A motif; other site 748280007471 ATP binding site [chemical binding]; other site 748280007472 Walker B motif; other site 748280007473 DNA binding loops [nucleotide binding] 748280007474 HI0933-like protein; Region: HI0933_like; pfam03486 748280007475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007477 superoxide dismutase; Provisional; Region: PRK10543 748280007478 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 748280007479 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 748280007480 SurA N-terminal domain; Region: SurA_N_3; cl07813 748280007481 periplasmic folding chaperone; Provisional; Region: PRK10788 748280007482 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280007483 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 748280007484 IHF - DNA interface [nucleotide binding]; other site 748280007485 IHF dimer interface [polypeptide binding]; other site 748280007486 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 748280007487 Found in ATP-dependent protease La (LON); Region: LON; smart00464 748280007488 Found in ATP-dependent protease La (LON); Region: LON; smart00464 748280007489 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 748280007490 Walker A motif; other site 748280007491 ATP binding site [chemical binding]; other site 748280007492 Walker B motif; other site 748280007493 arginine finger; other site 748280007494 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 748280007495 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 748280007496 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 748280007497 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 748280007498 Walker A motif; other site 748280007499 ATP binding site [chemical binding]; other site 748280007500 Walker B motif; other site 748280007501 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 748280007502 Clp protease; Region: CLP_protease; pfam00574 748280007503 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 748280007504 oligomer interface [polypeptide binding]; other site 748280007505 active site residues [active] 748280007506 trigger factor; Provisional; Region: tig; PRK01490 748280007507 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 748280007508 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 748280007509 YccA-like proteins; Region: YccA_like; cd10433 748280007510 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 748280007511 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 748280007512 Ligand Binding Site [chemical binding]; other site 748280007513 TilS substrate binding domain; Region: TilS; pfam09179 748280007514 B3/4 domain; Region: B3_4; cl11458 748280007515 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 748280007516 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 748280007517 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 748280007518 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280007519 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 748280007520 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 748280007521 endonuclease III; Region: ENDO3c; smart00478 748280007522 minor groove reading motif; other site 748280007523 helix-hairpin-helix signature motif; other site 748280007524 substrate binding pocket [chemical binding]; other site 748280007525 active site 748280007526 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 748280007527 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 748280007528 Protein of unknown function (DUF615); Region: DUF615; cl01147 748280007529 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 748280007530 MPT binding site; other site 748280007531 trimer interface [polypeptide binding]; other site 748280007532 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 748280007533 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 748280007534 active site 748280007535 ribulose/triose binding site [chemical binding]; other site 748280007536 phosphate binding site [ion binding]; other site 748280007537 substrate (anthranilate) binding pocket [chemical binding]; other site 748280007538 product (indole) binding pocket [chemical binding]; other site 748280007539 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 748280007540 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 748280007541 dimer interface [polypeptide binding]; other site 748280007542 active site 748280007543 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 748280007544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007545 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280007546 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 748280007547 substrate binding site [chemical binding]; other site 748280007548 oxyanion hole (OAH) forming residues; other site 748280007549 trimer interface [polypeptide binding]; other site 748280007550 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 748280007551 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 748280007552 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 748280007553 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280007554 active site 748280007555 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 748280007556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007557 Helix-turn-helix domains; Region: HTH; cl00088 748280007558 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 748280007559 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 748280007560 homodimer interface [polypeptide binding]; other site 748280007561 substrate-cofactor binding pocket; other site 748280007562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007563 catalytic residue [active] 748280007564 amidophosphoribosyltransferase; Provisional; Region: PRK09246 748280007565 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 748280007566 active site 748280007567 tetramer interface [polypeptide binding]; other site 748280007568 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280007569 active site 748280007570 Colicin V production protein; Region: Colicin_V; cl00567 748280007571 Sporulation related domain; Region: SPOR; cl10051 748280007572 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 748280007573 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280007574 ABC transporter ATPase component; Reviewed; Region: PRK11147 748280007575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280007576 Walker A/P-loop; other site 748280007577 ATP binding site [chemical binding]; other site 748280007578 Q-loop/lid; other site 748280007579 ABC transporter signature motif; other site 748280007580 Walker B; other site 748280007581 D-loop; other site 748280007582 H-loop/switch region; other site 748280007583 ABC transporter; Region: ABC_tran_2; pfam12848 748280007584 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280007585 NlpC/P60 family; Region: NLPC_P60; cl11438 748280007586 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 748280007587 AMP binding site [chemical binding]; other site 748280007588 metal binding site [ion binding]; metal-binding site 748280007589 active site 748280007590 Response regulator receiver domain; Region: Response_reg; pfam00072 748280007591 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 748280007592 active site 748280007593 phosphorylation site [posttranslational modification] 748280007594 intermolecular recognition site; other site 748280007595 dimerization interface [polypeptide binding]; other site 748280007596 Response regulator receiver domain; Region: Response_reg; pfam00072 748280007597 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 748280007598 active site 748280007599 phosphorylation site [posttranslational modification] 748280007600 intermolecular recognition site; other site 748280007601 dimerization interface [polypeptide binding]; other site 748280007602 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 748280007603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007604 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 748280007605 helicase 45; Provisional; Region: PTZ00424 748280007606 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 748280007607 ATP binding site [chemical binding]; other site 748280007608 Mg++ binding site [ion binding]; other site 748280007609 motif III; other site 748280007610 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 748280007611 nucleotide binding region [chemical binding]; other site 748280007612 ATP-binding site [chemical binding]; other site 748280007613 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 748280007614 Flagellin N-methylase; Region: FliB; cl00497 748280007615 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 748280007616 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 748280007617 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280007618 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 748280007619 active site 748280007620 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 748280007621 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 748280007622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007623 homodimer interface [polypeptide binding]; other site 748280007624 catalytic residue [active] 748280007625 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 748280007626 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 748280007627 Phage Tail Collar Domain; Region: Collar; pfam07484 748280007628 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 748280007629 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280007630 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 748280007631 active site 748280007632 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 748280007633 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 748280007634 HlyD family secretion protein; Region: HlyD; pfam00529 748280007635 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 748280007636 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 748280007637 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 748280007638 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 748280007639 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 748280007640 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 748280007641 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 748280007642 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 748280007643 PQ loop repeat; Region: PQ-loop; cl12056 748280007644 Predicted permeases [General function prediction only]; Region: RarD; COG2962 748280007645 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 748280007646 catalytic nucleophile [active] 748280007647 RF-1 domain; Region: RF-1; cl02875 748280007648 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 748280007649 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 748280007650 Helix-turn-helix domains; Region: HTH; cl00088 748280007651 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 748280007652 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 748280007653 PhnA protein; Region: PhnA; pfam03831 748280007654 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280007655 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 748280007656 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 748280007657 HIGH motif; other site 748280007658 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 748280007659 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 748280007660 active site 748280007661 KMSKS motif; other site 748280007662 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 748280007663 tRNA binding surface [nucleotide binding]; other site 748280007664 anticodon binding site; other site 748280007665 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 748280007666 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 748280007667 active site 748280007668 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 748280007669 phosphorylation site [posttranslational modification] 748280007670 intermolecular recognition site; other site 748280007671 dimerization interface [polypeptide binding]; other site 748280007672 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 748280007673 active site 748280007674 phosphorylation site [posttranslational modification] 748280007675 intermolecular recognition site; other site 748280007676 dimerization interface [polypeptide binding]; other site 748280007677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280007678 metal binding site [ion binding]; metal-binding site 748280007679 active site 748280007680 I-site; other site 748280007681 short chain dehydrogenase; Validated; Region: PRK06182 748280007682 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 748280007683 NADP binding site [chemical binding]; other site 748280007684 active site 748280007685 steroid binding site; other site 748280007686 Adenosine specific kinase; Region: Adenosine_kin; cl00796 748280007687 Yip1 domain; Region: Yip1; cl12048 748280007688 PPIC-type PPIASE domain; Region: Rotamase; cl08278 748280007689 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 748280007690 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 748280007691 nitrate reductase, beta subunit; Region: narH; TIGR01660 748280007692 4Fe-4S binding domain; Region: Fer4; cl02805 748280007693 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 748280007694 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 748280007695 [4Fe-4S] binding site [ion binding]; other site 748280007696 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 748280007697 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 748280007698 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 748280007699 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 748280007700 molybdopterin cofactor binding site; other site 748280007701 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 748280007702 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 748280007703 gating phenylalanine in ion channel; other site 748280007704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007705 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280007706 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 748280007707 homotrimer interaction site [polypeptide binding]; other site 748280007708 putative active site [active] 748280007709 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280007710 Helix-turn-helix domains; Region: HTH; cl00088 748280007711 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 748280007712 dimerization interface [polypeptide binding]; other site 748280007713 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 748280007714 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280007715 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280007716 putative active site [active] 748280007717 putative substrate binding site [chemical binding]; other site 748280007718 putative cosubstrate binding site; other site 748280007719 catalytic site [active] 748280007720 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 748280007721 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 748280007722 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 748280007723 homodimer interface [polypeptide binding]; other site 748280007724 NADP binding site [chemical binding]; other site 748280007725 substrate binding site [chemical binding]; other site 748280007726 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 748280007727 putative FMN binding site [chemical binding]; other site 748280007728 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 748280007729 Ligand binding site; other site 748280007730 metal-binding site 748280007731 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 748280007732 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 748280007733 XdhC Rossmann domain; Region: XdhC_C; pfam13478 748280007734 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 748280007735 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280007736 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 748280007737 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280007738 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280007739 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 748280007740 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; cl00159 748280007741 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 748280007742 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 748280007743 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 748280007744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280007745 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280007746 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280007747 LysR family transcriptional regulator; Provisional; Region: PRK14997 748280007748 Helix-turn-helix domains; Region: HTH; cl00088 748280007749 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 748280007750 putative effector binding pocket; other site 748280007751 dimerization interface [polypeptide binding]; other site 748280007752 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 748280007753 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 748280007754 PYR/PP interface [polypeptide binding]; other site 748280007755 dimer interface [polypeptide binding]; other site 748280007756 TPP binding site [chemical binding]; other site 748280007757 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280007758 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 748280007759 TPP-binding site [chemical binding]; other site 748280007760 dimer interface [polypeptide binding]; other site 748280007761 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 748280007762 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 748280007763 putative substrate translocation pore; other site 748280007764 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280007765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007766 NAD(P) binding site [chemical binding]; other site 748280007767 active site 748280007768 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280007769 Helix-turn-helix domains; Region: HTH; cl00088 748280007770 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 748280007771 dimerization interface [polypeptide binding]; other site 748280007772 substrate binding pocket [chemical binding]; other site 748280007773 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 748280007774 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 748280007775 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 748280007776 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 748280007777 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280007778 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280007779 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 748280007780 putative substrate translocation pore; other site 748280007781 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 748280007782 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 748280007783 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 748280007784 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 748280007785 Nonribosomal peptide synthase; Region: NRPS; pfam08415 748280007786 AMP-binding enzyme; Region: AMP-binding; cl15778 748280007787 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280007788 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 748280007789 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 748280007790 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 748280007791 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 748280007792 putative active site [active] 748280007793 Fe(II) binding site [ion binding]; other site 748280007794 putative dimer interface [polypeptide binding]; other site 748280007795 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 748280007796 dimer interface [polypeptide binding]; other site 748280007797 tetramer interface [polypeptide binding]; other site 748280007798 benzoate transport; Region: 2A0115; TIGR00895 748280007799 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 748280007800 putative substrate translocation pore; other site 748280007801 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 748280007802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 748280007803 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 748280007804 Helix-turn-helix domains; Region: HTH; cl00088 748280007805 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 748280007806 Helix-turn-helix domains; Region: HTH; cl00088 748280007807 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 748280007808 dimerization interface [polypeptide binding]; other site 748280007809 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 748280007810 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 748280007811 peptide binding site [polypeptide binding]; other site 748280007812 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280007813 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280007814 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 748280007815 N-terminal domain interface [polypeptide binding]; other site 748280007816 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280007817 Helix-turn-helix domains; Region: HTH; cl00088 748280007818 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 748280007819 dimerization interface [polypeptide binding]; other site 748280007820 substrate binding pocket [chemical binding]; other site 748280007821 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 748280007822 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280007823 Membrane transport protein; Region: Mem_trans; cl09117 748280007824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280007825 Helix-turn-helix domains; Region: HTH; cl00088 748280007826 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 748280007827 putative dimerization interface [polypeptide binding]; other site 748280007828 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 748280007829 PLD-like domain; Region: PLDc_2; pfam13091 748280007830 putative active site [active] 748280007831 catalytic site [active] 748280007832 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 748280007833 PLD-like domain; Region: PLDc_2; pfam13091 748280007834 putative active site [active] 748280007835 catalytic site [active] 748280007836 hypothetical protein; Provisional; Region: PRK10318 748280007837 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 748280007838 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 748280007839 substrate binding pocket [chemical binding]; other site 748280007840 membrane-bound complex binding site; other site 748280007841 hinge residues; other site 748280007842 tricarballylate utilization protein B; Provisional; Region: PRK15033 748280007843 tricarballylate dehydrogenase; Validated; Region: PRK08274 748280007844 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 748280007845 Helix-turn-helix domains; Region: HTH; cl00088 748280007846 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 748280007847 putative dimerization interface [polypeptide binding]; other site 748280007848 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280007849 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280007850 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 748280007851 PrpF protein; Region: PrpF; pfam04303 748280007852 aminotransferase; Validated; Region: PRK07046 748280007853 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 748280007854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280007855 catalytic residue [active] 748280007856 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280007857 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 748280007858 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280007859 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280007860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280007861 DNA-binding site [nucleotide binding]; DNA binding site 748280007862 FCD domain; Region: FCD; cl11656 748280007863 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280007864 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 748280007865 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 748280007866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280007867 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 748280007868 Walker A/P-loop; other site 748280007869 ATP binding site [chemical binding]; other site 748280007870 Q-loop/lid; other site 748280007871 ABC transporter signature motif; other site 748280007872 Walker B; other site 748280007873 D-loop; other site 748280007874 H-loop/switch region; other site 748280007875 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 748280007876 Walker A/P-loop; other site 748280007877 ATP binding site [chemical binding]; other site 748280007878 Q-loop/lid; other site 748280007879 ABC transporter signature motif; other site 748280007880 Walker B; other site 748280007881 D-loop; other site 748280007882 H-loop/switch region; other site 748280007883 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280007884 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280007885 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280007886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280007887 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 748280007888 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 748280007889 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 748280007890 putative active site [active] 748280007891 putative metal binding site [ion binding]; other site 748280007892 Uncharacterized conserved protein [Function unknown]; Region: COG3025 748280007893 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 748280007894 putative active site [active] 748280007895 putative metal binding residues [ion binding]; other site 748280007896 signature motif; other site 748280007897 putative triphosphate binding site [ion binding]; other site 748280007898 CHAD domain; Region: CHAD; cl10506 748280007899 hypothetical membrane protein, TIGR01666; Region: YCCS 748280007900 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 748280007901 Pirin-related protein [General function prediction only]; Region: COG1741 748280007902 Cupin domain; Region: Cupin_2; cl09118 748280007903 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 748280007904 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 748280007905 Walker A motif; other site 748280007906 ATP binding site [chemical binding]; other site 748280007907 Walker B motif; other site 748280007908 arginine finger; other site 748280007909 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 748280007910 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 748280007911 putative dimer interface [polypeptide binding]; other site 748280007912 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 748280007913 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 748280007914 ATP binding site [chemical binding]; other site 748280007915 putative Mg++ binding site [ion binding]; other site 748280007916 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 748280007917 nucleotide binding region [chemical binding]; other site 748280007918 ATP-binding site [chemical binding]; other site 748280007919 DEAD/H associated; Region: DEAD_assoc; pfam08494 748280007920 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280007921 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280007922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280007923 EamA-like transporter family; Region: EamA; cl01037 748280007924 EamA-like transporter family; Region: EamA; cl01037 748280007925 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 748280007926 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 748280007927 substrate binding pocket [chemical binding]; other site 748280007928 chain length determination region; other site 748280007929 substrate-Mg2+ binding site; other site 748280007930 catalytic residues [active] 748280007931 aspartate-rich region 1; other site 748280007932 active site lid residues [active] 748280007933 aspartate-rich region 2; other site 748280007934 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 748280007935 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 748280007936 TPP-binding site; other site 748280007937 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 748280007938 PYR/PP interface [polypeptide binding]; other site 748280007939 dimer interface [polypeptide binding]; other site 748280007940 TPP binding site [chemical binding]; other site 748280007941 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280007942 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 748280007943 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 748280007944 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280007945 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 748280007946 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 748280007947 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 748280007948 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 748280007949 DsbD alpha interface [polypeptide binding]; other site 748280007950 catalytic residues [active] 748280007951 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 748280007952 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 748280007953 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 748280007954 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 748280007955 dimer interface [polypeptide binding]; other site 748280007956 active site 748280007957 Flagellin N-methylase; Region: FliB; cl00497 748280007958 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 748280007959 DGC domain; Region: DGC; cl01742 748280007960 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280007961 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 748280007962 RNA binding surface [nucleotide binding]; other site 748280007963 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 748280007964 active site 748280007965 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 748280007966 catalytic triad [active] 748280007967 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 748280007968 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 748280007969 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 748280007970 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 748280007971 probable active site [active] 748280007972 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 748280007973 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 748280007974 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 748280007975 putative active site [active] 748280007976 putative metal binding site [ion binding]; other site 748280007977 ApbE family; Region: ApbE; cl00643 748280007978 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 748280007979 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280007980 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_like2; cd06201 748280007981 FAD binding pocket [chemical binding]; other site 748280007982 FAD binding motif [chemical binding]; other site 748280007983 catalytic residues [active] 748280007984 NAD binding pocket [chemical binding]; other site 748280007985 phosphate binding motif [ion binding]; other site 748280007986 beta-alpha-beta structure motif; other site 748280007987 FlgD Ig-like domain; Region: FlgD_ig; cl15790 748280007988 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 748280007989 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 748280007990 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 748280007991 active site 748280007992 phosphorylation site [posttranslational modification] 748280007993 intermolecular recognition site; other site 748280007994 dimerization interface [polypeptide binding]; other site 748280007995 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 748280007996 DNA binding site [nucleotide binding] 748280007997 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 748280007998 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 748280007999 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; cl00075 748280008000 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 748280008001 DNA binding site [nucleotide binding] 748280008002 Int/Topo IB signature motif; other site 748280008003 active site 748280008004 Domain of unknown function (DUF932); Region: DUF932; cl12129 748280008005 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 748280008006 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 748280008007 non-specific DNA binding site [nucleotide binding]; other site 748280008008 salt bridge; other site 748280008009 sequence-specific DNA binding site [nucleotide binding]; other site 748280008010 YfjP GTPase; Region: YfjP; cd11383 748280008011 G1 box; other site 748280008012 GTP/Mg2+ binding site [chemical binding]; other site 748280008013 Switch I region; other site 748280008014 G2 box; other site 748280008015 Switch II region; other site 748280008016 G3 box; other site 748280008017 G4 box; other site 748280008018 Helix-turn-helix domains; Region: HTH; cl00088 748280008019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 748280008020 Integrase core domain; Region: rve; cl01316 748280008021 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 748280008022 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 748280008023 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 748280008024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008025 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 748280008026 G1 box; other site 748280008027 GTP/Mg2+ binding site [chemical binding]; other site 748280008028 G2 box; other site 748280008029 G3 box; other site 748280008030 Switch II region; other site 748280008031 G4 box; other site 748280008032 G5 box; other site 748280008033 Dynamin family; Region: Dynamin_N; pfam00350 748280008034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280008035 G3 box; other site 748280008036 Switch II region; other site 748280008037 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280008038 G1 box; other site 748280008039 GTP/Mg2+ binding site [chemical binding]; other site 748280008040 G2 box; other site 748280008041 G3 box; other site 748280008042 Switch II region; other site 748280008043 G4 box; other site 748280008044 G5 box; other site 748280008045 WYL domain; Region: WYL; cl14852 748280008046 Restriction endonuclease; Region: Mrr_cat; cl00516 748280008047 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 748280008048 ATP binding site [chemical binding]; other site 748280008049 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 748280008050 putative Mg++ binding site [ion binding]; other site 748280008051 Family description; Region: UvrD_C_2; cl15862 748280008052 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 748280008053 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 748280008054 active site 748280008055 Int/Topo IB signature motif; other site 748280008056 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 748280008057 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 748280008058 CysD dimerization site [polypeptide binding]; other site 748280008059 G1 box; other site 748280008060 putative GEF interaction site [polypeptide binding]; other site 748280008061 GTP/Mg2+ binding site [chemical binding]; other site 748280008062 Switch I region; other site 748280008063 G2 box; other site 748280008064 G3 box; other site 748280008065 Switch II region; other site 748280008066 G4 box; other site 748280008067 G5 box; other site 748280008068 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 748280008069 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 748280008070 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 748280008071 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 748280008072 Active Sites [active] 748280008073 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008074 ATP binding site [chemical binding]; other site 748280008075 HDOD domain; Region: HDOD; pfam08668 748280008076 GAF domain; Region: GAF_2; pfam13185 748280008077 GAF domain; Region: GAF; cl15785 748280008078 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 748280008079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008080 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280008081 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 748280008082 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280008083 tetrameric interface [polypeptide binding]; other site 748280008084 NAD binding site [chemical binding]; other site 748280008085 catalytic residues [active] 748280008086 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 748280008087 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 748280008088 substrate binding pocket [chemical binding]; other site 748280008089 FAD binding site [chemical binding]; other site 748280008090 catalytic base [active] 748280008091 enoyl-CoA hydratase; Provisional; Region: PRK09076 748280008092 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 748280008093 substrate binding site [chemical binding]; other site 748280008094 oxyanion hole (OAH) forming residues; other site 748280008095 trimer interface [polypeptide binding]; other site 748280008096 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 748280008097 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 748280008098 substrate binding site [chemical binding]; other site 748280008099 oxyanion hole (OAH) forming residues; other site 748280008100 trimer interface [polypeptide binding]; other site 748280008101 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; cl15762 748280008102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008103 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 748280008104 DNA-specific endonuclease I; Provisional; Region: PRK15137 748280008105 Endonuclease I; Region: Endonuclease_1; cl01003 748280008106 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 748280008107 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 748280008108 putative MPT binding site; other site 748280008109 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 748280008110 putative active site [active] 748280008111 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 748280008112 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 748280008113 Walker A/P-loop; other site 748280008114 ATP binding site [chemical binding]; other site 748280008115 Q-loop/lid; other site 748280008116 ABC transporter signature motif; other site 748280008117 Walker B; other site 748280008118 D-loop; other site 748280008119 H-loop/switch region; other site 748280008120 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 748280008121 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 748280008122 Walker A/P-loop; other site 748280008123 ATP binding site [chemical binding]; other site 748280008124 Q-loop/lid; other site 748280008125 ABC transporter signature motif; other site 748280008126 Walker B; other site 748280008127 D-loop; other site 748280008128 H-loop/switch region; other site 748280008129 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 748280008130 TM-ABC transporter signature motif; other site 748280008131 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 748280008132 TM-ABC transporter signature motif; other site 748280008133 Succinylarginine dihydrolase; Region: AstB; cl01511 748280008134 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280008135 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 748280008136 NAD(P) binding site [chemical binding]; other site 748280008137 catalytic residues [active] 748280008138 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 748280008139 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 748280008140 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 748280008141 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 748280008142 inhibitor-cofactor binding pocket; inhibition site 748280008143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280008144 catalytic residue [active] 748280008145 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280008146 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 748280008147 ligand binding site [chemical binding]; other site 748280008148 flexible hinge region; other site 748280008149 Helix-turn-helix domains; Region: HTH; cl00088 748280008150 NnrS protein; Region: NnrS; cl01258 748280008151 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 748280008152 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 748280008153 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 748280008154 RNase E interface [polypeptide binding]; other site 748280008155 trimer interface [polypeptide binding]; other site 748280008156 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 748280008157 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 748280008158 RNase E interface [polypeptide binding]; other site 748280008159 trimer interface [polypeptide binding]; other site 748280008160 active site 748280008161 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 748280008162 putative nucleic acid binding region [nucleotide binding]; other site 748280008163 G-X-X-G motif; other site 748280008164 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 748280008165 RNA binding site [nucleotide binding]; other site 748280008166 domain interface; other site 748280008167 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 748280008168 16S/18S rRNA binding site [nucleotide binding]; other site 748280008169 S13e-L30e interaction site [polypeptide binding]; other site 748280008170 25S rRNA binding site [nucleotide binding]; other site 748280008171 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 748280008172 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 748280008173 RNA binding site [nucleotide binding]; other site 748280008174 active site 748280008175 Ribosome-binding factor A; Region: RBFA; cl00542 748280008176 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 748280008177 translation initiation factor IF-2; Region: IF-2; TIGR00487 748280008178 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 748280008179 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 748280008180 G1 box; other site 748280008181 putative GEF interaction site [polypeptide binding]; other site 748280008182 GTP/Mg2+ binding site [chemical binding]; other site 748280008183 Switch I region; other site 748280008184 G2 box; other site 748280008185 G3 box; other site 748280008186 Switch II region; other site 748280008187 G4 box; other site 748280008188 G5 box; other site 748280008189 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 748280008190 Translation-initiation factor 2; Region: IF-2; pfam11987 748280008191 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 748280008192 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 748280008193 NusA N-terminal domain; Region: NusA_N; pfam08529 748280008194 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 748280008195 RNA binding site [nucleotide binding]; other site 748280008196 homodimer interface [polypeptide binding]; other site 748280008197 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 748280008198 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 748280008199 G-X-X-G motif; other site 748280008200 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 748280008201 ribosome maturation protein RimP; Reviewed; Region: PRK00092 748280008202 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 748280008203 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 748280008204 Sm1 motif; other site 748280008205 predicted subunit interaction site [polypeptide binding]; other site 748280008206 RNA binding pocket [nucleotide binding]; other site 748280008207 Sm2 motif; other site 748280008208 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 748280008209 AMP-binding enzyme; Region: AMP-binding; cl15778 748280008210 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008211 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 748280008212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280008213 Walker A motif; other site 748280008214 ATP binding site [chemical binding]; other site 748280008215 Walker B motif; other site 748280008216 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 748280008217 ArsC family; Region: ArsC; pfam03960 748280008218 putative catalytic residues [active] 748280008219 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 748280008220 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 748280008221 metal binding site [ion binding]; metal-binding site 748280008222 dimer interface [polypeptide binding]; other site 748280008223 MarC family integral membrane protein; Region: MarC; cl00919 748280008224 recombination protein RecR; Reviewed; Region: recR; PRK00076 748280008225 RecR protein; Region: RecR; pfam02132 748280008226 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 748280008227 putative active site [active] 748280008228 putative metal-binding site [ion binding]; other site 748280008229 tetramer interface [polypeptide binding]; other site 748280008230 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 748280008231 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 748280008232 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 748280008233 Walker A motif; other site 748280008234 ATP binding site [chemical binding]; other site 748280008235 Walker B motif; other site 748280008236 arginine finger; other site 748280008237 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 748280008238 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 748280008239 Transglycosylase SLT domain; Region: SLT_2; pfam13406 748280008240 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 catalyze...; Region: LT_GEWL; cd00254 748280008241 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280008242 catalytic residue [active] 748280008243 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 748280008244 Helix-turn-helix domains; Region: HTH; cl00088 748280008245 HrcA protein C terminal domain; Region: HrcA; pfam01628 748280008246 recombinase A; Provisional; Region: recA; PRK09354 748280008247 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 748280008248 hexamer interface [polypeptide binding]; other site 748280008249 Walker A motif; other site 748280008250 ATP binding site [chemical binding]; other site 748280008251 Walker B motif; other site 748280008252 RecX family; Region: RecX; cl00936 748280008253 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 748280008254 putative hydrophobic ligand binding site [chemical binding]; other site 748280008255 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 748280008256 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 formation of...; Region: AlaRS_core; cd00673 748280008257 motif 1; other site 748280008258 active site 748280008259 motif 2; other site 748280008260 motif 3; other site 748280008261 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 748280008262 DHHA1 domain; Region: DHHA1; pfam02272 748280008263 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280008264 EamA-like transporter family; Region: EamA; cl01037 748280008265 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008266 Helix-turn-helix domains; Region: HTH; cl00088 748280008267 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 748280008268 dimerization interface [polypeptide binding]; other site 748280008269 CrcB-like protein; Region: CRCB; cl09114 748280008270 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 748280008271 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280008272 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 748280008273 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 748280008274 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008275 Rod binding protein; Region: Rod-binding; cl01626 748280008276 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 748280008277 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 748280008278 Flagellar L-ring protein; Region: FlgH; cl00905 748280008279 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 748280008280 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280008281 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008282 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 748280008283 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280008284 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008285 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 748280008286 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 748280008287 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008288 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008289 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 748280008290 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 748280008291 FlgD Ig-like domain; Region: FlgD_ig; cl15790 748280008292 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 748280008293 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008294 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 748280008295 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 748280008296 SAF-like; Region: SAF_2; pfam13144 748280008297 SAF domain; Region: SAF; cl00555 748280008298 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 748280008299 FlgN protein; Region: FlgN; cl09176 748280008300 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 748280008301 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280008302 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 748280008303 ligand binding site [chemical binding]; other site 748280008304 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 748280008305 putative switch regulator; other site 748280008306 non-specific DNA interactions [nucleotide binding]; other site 748280008307 DNA binding site [nucleotide binding] 748280008308 sequence specific DNA binding site [nucleotide binding]; other site 748280008309 putative cAMP binding site [chemical binding]; other site 748280008310 hypothetical protein; Validated; Region: PRK06778 748280008311 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 748280008312 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280008313 ligand binding site [chemical binding]; other site 748280008314 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280008315 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 748280008316 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 748280008317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280008318 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 748280008319 DNA binding residues [nucleotide binding] 748280008320 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 748280008321 Flagellar protein FliS; Region: FliS; cl00654 748280008322 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 748280008323 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 748280008324 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 748280008325 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07196 748280008326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280008327 Walker A motif; other site 748280008328 ATP binding site [chemical binding]; other site 748280008329 Walker B motif; other site 748280008330 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 748280008331 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 748280008332 Flagellar assembly protein FliH; Region: FliH; pfam02108 748280008333 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 748280008334 FliG C-terminal domain; Region: FliG_C; pfam01706 748280008335 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 748280008336 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 748280008337 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 748280008338 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 748280008339 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 748280008340 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 748280008341 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 748280008342 FliP family; Region: FliP; cl00593 748280008343 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 748280008344 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 748280008345 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 748280008346 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 748280008347 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 748280008348 FHIPEP family; Region: FHIPEP; pfam00771 748280008349 flagellin; Provisional; Region: PRK12802 748280008350 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280008351 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 748280008352 ribonuclease E; Reviewed; Region: rne; PRK10811 748280008353 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 748280008354 homodimer interface [polypeptide binding]; other site 748280008355 oligonucleotide binding site [chemical binding]; other site 748280008356 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 748280008357 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 748280008358 RNA binding surface [nucleotide binding]; other site 748280008359 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 748280008360 active site 748280008361 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 748280008362 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 748280008363 motif II; other site 748280008364 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 748280008365 iron-sulfur cluster [ion binding]; other site 748280008366 [2Fe-2S] cluster binding site [ion binding]; other site 748280008367 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 748280008368 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 748280008369 tandem repeat interface [polypeptide binding]; other site 748280008370 oligomer interface [polypeptide binding]; other site 748280008371 active site residues [active] 748280008372 flagellar motor protein MotD; Reviewed; Region: PRK09038 748280008373 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 748280008374 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280008375 ligand binding site [chemical binding]; other site 748280008376 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 748280008377 putative FMN binding site [chemical binding]; other site 748280008378 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 748280008379 quinone interaction residues [chemical binding]; other site 748280008380 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 748280008381 active site 748280008382 catalytic residues [active] 748280008383 FMN binding site [chemical binding]; other site 748280008384 substrate binding site [chemical binding]; other site 748280008385 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 748280008386 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 748280008387 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 748280008388 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280008389 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280008390 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 748280008391 metal binding site 2 [ion binding]; metal-binding site 748280008392 putative DNA binding helix; other site 748280008393 metal binding site 1 [ion binding]; metal-binding site 748280008394 dimer interface [polypeptide binding]; other site 748280008395 structural Zn2+ binding site [ion binding]; other site 748280008396 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 748280008397 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 748280008398 dihydrodipicolinate reductase; Provisional; Region: PRK00048 748280008399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008400 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 748280008401 SpoVR family protein; Provisional; Region: PRK11767 748280008402 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 748280008403 Uncharacterized conserved protein [Function unknown]; Region: COG2718 748280008404 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 748280008405 PrkA family serine protein kinase; Provisional; Region: PRK15455 748280008406 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280008407 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 748280008408 PilZ domain; Region: PilZ; cl01260 748280008409 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 748280008410 dimer interface [polypeptide binding]; other site 748280008411 ADP-ribose binding site [chemical binding]; other site 748280008412 active site 748280008413 nudix motif; other site 748280008414 metal binding site [ion binding]; metal-binding site 748280008415 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 748280008416 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280008417 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280008418 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280008419 active site 748280008420 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280008421 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 748280008422 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 748280008423 SEC-C motif; Region: SEC-C; pfam02810 748280008424 AMP-binding domain protein; Validated; Region: PRK08315 748280008425 AMP-binding enzyme; Region: AMP-binding; cl15778 748280008426 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008427 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 748280008428 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 748280008429 DNA binding residues [nucleotide binding] 748280008430 putative dimer interface [polypeptide binding]; other site 748280008431 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 748280008432 isovaleryl-CoA dehydrogenase; Region: PLN02519 748280008433 substrate binding site [chemical binding]; other site 748280008434 FAD binding site [chemical binding]; other site 748280008435 catalytic base [active] 748280008436 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 748280008437 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 748280008438 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 748280008439 enoyl-CoA hydratase; Provisional; Region: PRK05995 748280008440 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 748280008441 substrate binding site [chemical binding]; other site 748280008442 oxyanion hole (OAH) forming residues; other site 748280008443 trimer interface [polypeptide binding]; other site 748280008444 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 748280008445 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280008446 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280008447 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 748280008448 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 748280008449 lipoyl-biotinyl attachment site [posttranslational modification]; other site 748280008450 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 748280008451 carboxyltransferase (CT) interaction site; other site 748280008452 biotinylation site [posttranslational modification]; other site 748280008453 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 748280008454 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 748280008455 active site 748280008456 catalytic residues [active] 748280008457 metal binding site [ion binding]; metal-binding site 748280008458 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 748280008459 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 748280008460 AMP-binding enzyme; Region: AMP-binding; cl15778 748280008461 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008462 Iron permease FTR1 family; Region: FTR1; cl00475 748280008463 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280008464 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 748280008465 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 748280008466 active site 748280008467 HIGH motif; other site 748280008468 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 748280008469 KMSKS motif; other site 748280008470 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 748280008471 tRNA binding surface [nucleotide binding]; other site 748280008472 anticodon binding site; other site 748280008473 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 748280008474 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 748280008475 Cytochrome c; Region: Cytochrom_C; cl11414 748280008476 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 748280008477 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280008478 active site 748280008479 HIGH motif; other site 748280008480 nucleotide binding site [chemical binding]; other site 748280008481 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 748280008482 KMSKS motif; other site 748280008483 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 748280008484 hypothetical protein; Provisional; Region: PRK01254 748280008485 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 748280008486 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 748280008487 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 748280008488 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280008489 LysE type translocator; Region: LysE; cl00565 748280008490 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280008491 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 748280008492 putative C-terminal domain interface [polypeptide binding]; other site 748280008493 putative GSH binding site (G-site) [chemical binding]; other site 748280008494 putative dimer interface [polypeptide binding]; other site 748280008495 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 748280008496 putative N-terminal domain interface [polypeptide binding]; other site 748280008497 putative dimer interface [polypeptide binding]; other site 748280008498 putative substrate binding pocket (H-site) [chemical binding]; other site 748280008499 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 748280008500 active site 748280008501 homodimer interface [polypeptide binding]; other site 748280008502 homotetramer interface [polypeptide binding]; other site 748280008503 HI0933-like protein; Region: HI0933_like; pfam03486 748280008504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280008505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008506 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 748280008507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008508 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 748280008509 putative substrate translocation pore; other site 748280008510 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 748280008511 Helix-turn-helix domains; Region: HTH; cl00088 748280008512 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 748280008513 dimerization interface [polypeptide binding]; other site 748280008514 substrate binding pocket [chemical binding]; other site 748280008515 Helix-turn-helix domains; Region: HTH; cl00088 748280008516 Rrf2 family protein; Region: rrf2_super; TIGR00738 748280008517 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 748280008518 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280008519 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280008520 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 748280008521 iron binding site [ion binding]; other site 748280008522 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 748280008523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280008524 Uncharacterized conserved protein [Function unknown]; Region: COG1284 748280008525 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 748280008526 Sulfate transporter family; Region: Sulfate_transp; cl15842 748280008527 Sulfate transporter family; Region: Sulfate_transp; cl15842 748280008528 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 748280008529 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 748280008530 dimerization interface [polypeptide binding]; other site 748280008531 putative DNA binding site [nucleotide binding]; other site 748280008532 putative Zn2+ binding site [ion binding]; other site 748280008533 Cation efflux family; Region: Cation_efflux; cl00316 748280008534 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 748280008535 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 748280008536 transmembrane helices; other site 748280008537 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 748280008538 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 748280008539 substrate binding site [chemical binding]; other site 748280008540 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 748280008541 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 748280008542 substrate binding site [chemical binding]; other site 748280008543 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 748280008544 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 748280008545 putative active site [active] 748280008546 putative metal binding site [ion binding]; other site 748280008547 L-lactate permease; Region: Lactate_perm; cl00701 748280008548 glycolate transporter; Provisional; Region: PRK09695 748280008549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008550 Helix-turn-helix domains; Region: HTH; cl00088 748280008551 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 748280008552 putative dimerization interface [polypeptide binding]; other site 748280008553 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 748280008554 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 748280008555 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 748280008556 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 748280008557 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 748280008558 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 748280008559 Malonate transporter MadL subunit; Region: MadL; cl04273 748280008560 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 748280008561 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 748280008562 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 748280008563 Acyl transferase domain; Region: Acyl_transf_1; cl08282 748280008564 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280008565 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 748280008566 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280008567 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 748280008568 Walker A/P-loop; other site 748280008569 ATP binding site [chemical binding]; other site 748280008570 Q-loop/lid; other site 748280008571 ABC transporter signature motif; other site 748280008572 Walker B; other site 748280008573 D-loop; other site 748280008574 H-loop/switch region; other site 748280008575 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 748280008576 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 748280008577 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280008578 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 748280008579 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 748280008580 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 748280008581 putative active site [active] 748280008582 putative metal binding site [ion binding]; other site 748280008583 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 748280008584 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 748280008585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008586 Helix-turn-helix domains; Region: HTH; cl00088 748280008587 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 748280008588 dimerization interface [polypeptide binding]; other site 748280008589 Protein of unknown function, DUF485; Region: DUF485; cl01231 748280008590 Sodium:solute symporter family; Region: SSF; cl00456 748280008591 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 748280008592 acetyl-CoA synthetase; Provisional; Region: PRK00174 748280008593 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 748280008594 AMP-binding enzyme; Region: AMP-binding; cl15778 748280008595 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008596 Helix-turn-helix domains; Region: HTH; cl00088 748280008597 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 748280008598 Amidinotransferase; Region: Amidinotransf; cl12043 748280008599 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 748280008600 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 748280008601 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 748280008602 N-terminal plug; other site 748280008603 ligand-binding site [chemical binding]; other site 748280008604 ferredoxin; Provisional; Region: PRK06991 748280008605 Putative Fe-S cluster; Region: FeS; pfam04060 748280008606 4Fe-4S binding domain; Region: Fer4; cl02805 748280008607 endonuclease III; Provisional; Region: PRK10702 748280008608 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 748280008609 minor groove reading motif; other site 748280008610 helix-hairpin-helix signature motif; other site 748280008611 substrate binding pocket [chemical binding]; other site 748280008612 active site 748280008613 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 748280008614 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 748280008615 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 748280008616 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 748280008617 protein binding site [polypeptide binding]; other site 748280008618 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 748280008619 protein binding site [polypeptide binding]; other site 748280008620 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 748280008621 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 748280008622 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 748280008623 tetramerization interface [polypeptide binding]; other site 748280008624 active site 748280008625 pantoate--beta-alanine ligase; Region: panC; TIGR00018 748280008626 Pantoate-beta-alanine ligase; Region: PanC; cd00560 748280008627 active site 748280008628 ATP-binding site [chemical binding]; other site 748280008629 pantoate-binding site; other site 748280008630 HXXH motif; other site 748280008631 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 748280008632 oligomerization interface [polypeptide binding]; other site 748280008633 active site 748280008634 metal binding site [ion binding]; metal-binding site 748280008635 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 748280008636 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 748280008637 Substrate-binding site [chemical binding]; other site 748280008638 Substrate specificity [chemical binding]; other site 748280008639 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 748280008640 catalytic center binding site [active] 748280008641 ATP binding site [chemical binding]; other site 748280008642 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 748280008643 active site 748280008644 NTP binding site [chemical binding]; other site 748280008645 metal binding triad [ion binding]; metal-binding site 748280008646 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 748280008647 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 748280008648 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 748280008649 active site 748280008650 catalytic site [active] 748280008651 substrate binding site [chemical binding]; other site 748280008652 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 748280008653 multidrug efflux protein; Reviewed; Region: PRK01766 748280008654 MatE; Region: MatE; cl10513 748280008655 MatE; Region: MatE; cl10513 748280008656 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 748280008657 FAD binding domain; Region: FAD_binding_4; pfam01565 748280008658 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 748280008659 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280008660 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 748280008661 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 748280008662 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 748280008663 dimerization interface [polypeptide binding]; other site 748280008664 active site 748280008665 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 748280008666 putative active site [active] 748280008667 putative CoA binding site [chemical binding]; other site 748280008668 nudix motif; other site 748280008669 metal binding site [ion binding]; metal-binding site 748280008670 Predicted membrane protein [Function unknown]; Region: COG2860 748280008671 UPF0126 domain; Region: UPF0126; pfam03458 748280008672 transcription termination factor Rho; Provisional; Region: rho; PRK09376 748280008673 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 748280008674 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 748280008675 RNA binding site [nucleotide binding]; other site 748280008676 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 748280008677 multimer interface [polypeptide binding]; other site 748280008678 Walker A motif; other site 748280008679 ATP binding site [chemical binding]; other site 748280008680 Walker B motif; other site 748280008681 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 748280008682 catalytic residues [active] 748280008683 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 748280008684 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 748280008685 Walker A/P-loop; other site 748280008686 ATP binding site [chemical binding]; other site 748280008687 Q-loop/lid; other site 748280008688 ABC transporter signature motif; other site 748280008689 Walker B; other site 748280008690 D-loop; other site 748280008691 H-loop/switch region; other site 748280008692 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 748280008693 Walker A/P-loop; other site 748280008694 ATP binding site [chemical binding]; other site 748280008695 Q-loop/lid; other site 748280008696 ABC transporter signature motif; other site 748280008697 Walker B; other site 748280008698 D-loop; other site 748280008699 H-loop/switch region; other site 748280008700 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 748280008701 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 748280008702 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 748280008703 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 748280008704 dimer interface [polypeptide binding]; other site 748280008705 conserved gate region; other site 748280008706 putative PBP binding loops; other site 748280008707 ABC-ATPase subunit interface; other site 748280008708 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 748280008709 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 748280008710 dimer interface [polypeptide binding]; other site 748280008711 conserved gate region; other site 748280008712 putative PBP binding loops; other site 748280008713 ABC-ATPase subunit interface; other site 748280008714 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 748280008715 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 748280008716 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 748280008717 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 748280008718 NAD binding site [chemical binding]; other site 748280008719 homotetramer interface [polypeptide binding]; other site 748280008720 homodimer interface [polypeptide binding]; other site 748280008721 substrate binding site [chemical binding]; other site 748280008722 active site 748280008723 Nitrate and nitrite sensing; Region: NIT; pfam08376 748280008724 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280008725 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 748280008726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280008727 dimer interface [polypeptide binding]; other site 748280008728 putative CheW interface [polypeptide binding]; other site 748280008729 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 748280008730 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280008731 sarco/endoplasmic reticulum calcium-translocating P-type ATPase; Region: ATPase-IIA1_Ca; TIGR01116 748280008732 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 748280008733 motif II; other site 748280008734 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 748280008735 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 748280008736 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 748280008737 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 748280008738 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 748280008739 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 748280008740 catalytic triad [active] 748280008741 conserved cis-peptide bond; other site 748280008742 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 748280008743 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 748280008744 active site 748280008745 purine riboside binding site [chemical binding]; other site 748280008746 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280008747 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 748280008748 dimerization interface [polypeptide binding]; other site 748280008749 ligand binding site [chemical binding]; other site 748280008750 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 748280008751 Proline dehydrogenase; Region: Pro_dh; cl03282 748280008752 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 748280008753 Glutamate binding site [chemical binding]; other site 748280008754 NAD binding site [chemical binding]; other site 748280008755 catalytic residues [active] 748280008756 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280008757 NAD(P) binding site [chemical binding]; other site 748280008758 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280008759 L-aspartate oxidase; Provisional; Region: PRK09077 748280008760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008761 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 748280008762 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 748280008763 PAS domain; Region: PAS_9; pfam13426 748280008764 putative active site [active] 748280008765 heme pocket [chemical binding]; other site 748280008766 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; cl02459 748280008767 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 748280008768 dimer interface [polypeptide binding]; other site 748280008769 phosphorylation site [posttranslational modification] 748280008770 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 748280008771 ATP binding site [chemical binding]; other site 748280008772 Mg2+ binding site [ion binding]; other site 748280008773 G-X-G motif; other site 748280008774 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 748280008775 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 748280008776 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 748280008777 DctM-like transporters; Region: DctM; pfam06808 748280008778 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 748280008779 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 748280008780 Malic enzyme, N-terminal domain; Region: malic; pfam00390 748280008781 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 748280008782 putative NAD(P) binding site [chemical binding]; other site 748280008783 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 748280008784 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 748280008785 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 748280008786 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 748280008787 generic binding surface II; other site 748280008788 generic binding surface I; other site 748280008789 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 748280008790 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 748280008791 substrate binding site [chemical binding]; other site 748280008792 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008793 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008794 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008795 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008796 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008797 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008798 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280008799 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 748280008800 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 748280008801 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280008802 NMT1-like family; Region: NMT1_2; cl15260 748280008803 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 748280008804 dimer interface [polypeptide binding]; other site 748280008805 conserved gate region; other site 748280008806 ABC-ATPase subunit interface; other site 748280008807 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 748280008808 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 748280008809 Walker A/P-loop; other site 748280008810 ATP binding site [chemical binding]; other site 748280008811 Q-loop/lid; other site 748280008812 ABC transporter signature motif; other site 748280008813 Walker B; other site 748280008814 D-loop; other site 748280008815 H-loop/switch region; other site 748280008816 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 748280008817 putative catalytic site [active] 748280008818 putative metal binding site [ion binding]; other site 748280008819 putative phosphate binding site [ion binding]; other site 748280008820 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 748280008821 nudix motif; other site 748280008822 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 748280008823 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 748280008824 active site 748280008825 phosphorylation site [posttranslational modification] 748280008826 intermolecular recognition site; other site 748280008827 dimerization interface [polypeptide binding]; other site 748280008828 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 748280008829 DNA binding residues [nucleotide binding] 748280008830 dimerization interface [polypeptide binding]; other site 748280008831 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 748280008832 Mechanosensitive ion channel; Region: MS_channel; pfam00924 748280008833 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 748280008834 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 748280008835 Walker A/P-loop; other site 748280008836 ATP binding site [chemical binding]; other site 748280008837 Q-loop/lid; other site 748280008838 ABC transporter signature motif; other site 748280008839 Walker B; other site 748280008840 D-loop; other site 748280008841 H-loop/switch region; other site 748280008842 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 748280008843 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280008844 FtsX-like permease family; Region: FtsX; cl15850 748280008845 NlpC/P60 family; Region: NLPC_P60; cl11438 748280008846 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 748280008847 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008848 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 748280008849 Putative zinc-finger; Region: zf-HC2; cl15806 748280008850 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 748280008851 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280008852 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280008853 DNA repair protein RadA; Provisional; Region: PRK11823 748280008854 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 748280008855 Walker A motif/ATP binding site; other site 748280008856 ATP binding site [chemical binding]; other site 748280008857 Walker B motif; other site 748280008858 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 748280008859 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 748280008860 short chain dehydrogenase; Provisional; Region: PRK08703 748280008861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008862 NAD(P) binding site [chemical binding]; other site 748280008863 active site 748280008864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 748280008865 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 748280008866 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 748280008867 active site lid residues [active] 748280008868 substrate binding pocket [chemical binding]; other site 748280008869 catalytic residues [active] 748280008870 substrate-Mg2+ binding site; other site 748280008871 aspartate-rich region 1; other site 748280008872 aspartate-rich region 2; other site 748280008873 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 748280008874 active site lid residues [active] 748280008875 substrate binding pocket [chemical binding]; other site 748280008876 catalytic residues [active] 748280008877 substrate-Mg2+ binding site; other site 748280008878 aspartate-rich region 1; other site 748280008879 aspartate-rich region 2; other site 748280008880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280008881 active site 748280008882 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 748280008883 dimerization interface [polypeptide binding]; other site 748280008884 active site 748280008885 GAF domain; Region: GAF; cl15785 748280008886 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 748280008887 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 748280008888 dimerization interface [polypeptide binding]; other site 748280008889 domain crossover interface; other site 748280008890 redox-dependent activation switch; other site 748280008891 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 748280008892 active site 748280008893 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 748280008894 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 748280008895 putative active site [active] 748280008896 putative dimer interface [polypeptide binding]; other site 748280008897 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 748280008898 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 748280008899 ligand binding site [chemical binding]; other site 748280008900 flexible hinge region; other site 748280008901 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 748280008902 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280008903 metal binding triad; other site 748280008904 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280008905 active site 748280008906 substrate binding site [chemical binding]; other site 748280008907 catalytic site [active] 748280008908 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 748280008909 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 748280008910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008911 EF-hand domain pair; Region: EF_hand_5; pfam13499 748280008912 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 748280008913 EF-hand domain pair; Region: EF_hand_5; pfam13499 748280008914 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 748280008915 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 748280008916 EF-hand domain pair; Region: EF_hand_5; pfam13499 748280008917 Ca2+ binding site [ion binding]; other site 748280008918 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 748280008919 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 748280008920 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 748280008921 active site 748280008922 phosphorylation site [posttranslational modification] 748280008923 intermolecular recognition site; other site 748280008924 dimerization interface [polypeptide binding]; other site 748280008925 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 748280008926 DNA binding site [nucleotide binding] 748280008927 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 748280008928 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 748280008929 dimerization interface [polypeptide binding]; other site 748280008930 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 748280008931 dimer interface [polypeptide binding]; other site 748280008932 phosphorylation site [posttranslational modification] 748280008933 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 748280008934 ATP binding site [chemical binding]; other site 748280008935 Mg2+ binding site [ion binding]; other site 748280008936 G-X-G motif; other site 748280008937 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280008938 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 748280008939 substrate binding site [chemical binding]; other site 748280008940 dimer interface [polypeptide binding]; other site 748280008941 ATP binding site [chemical binding]; other site 748280008942 hypothetical protein; Reviewed; Region: PRK00024 748280008943 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 748280008944 MPN+ (JAMM) motif; other site 748280008945 Zinc-binding site [ion binding]; other site 748280008946 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 748280008947 Flavoprotein; Region: Flavoprotein; cl08021 748280008948 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 748280008949 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 748280008950 trimer interface [polypeptide binding]; other site 748280008951 active site 748280008952 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 748280008953 dimer interface [polypeptide binding]; other site 748280008954 conserved gate region; other site 748280008955 putative PBP binding loops; other site 748280008956 ABC-ATPase subunit interface; other site 748280008957 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 748280008958 dimer interface [polypeptide binding]; other site 748280008959 conserved gate region; other site 748280008960 putative PBP binding loops; other site 748280008961 ABC-ATPase subunit interface; other site 748280008962 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 748280008963 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 748280008964 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280008965 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 748280008966 Walker A/P-loop; other site 748280008967 ATP binding site [chemical binding]; other site 748280008968 Q-loop/lid; other site 748280008969 ABC transporter signature motif; other site 748280008970 Walker B; other site 748280008971 D-loop; other site 748280008972 H-loop/switch region; other site 748280008973 TOBE domain; Region: TOBE_2; cl01440 748280008974 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 748280008975 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280008976 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 748280008977 substrate binding pocket [chemical binding]; other site 748280008978 membrane-bound complex binding site; other site 748280008979 hinge residues; other site 748280008980 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280008981 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 748280008982 substrate binding pocket [chemical binding]; other site 748280008983 membrane-bound complex binding site; other site 748280008984 hinge residues; other site 748280008985 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 748280008986 dimer interface [polypeptide binding]; other site 748280008987 conserved gate region; other site 748280008988 putative PBP binding loops; other site 748280008989 ABC-ATPase subunit interface; other site 748280008990 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 748280008991 dimer interface [polypeptide binding]; other site 748280008992 conserved gate region; other site 748280008993 putative PBP binding loops; other site 748280008994 ABC-ATPase subunit interface; other site 748280008995 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 748280008996 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 748280008997 Walker A/P-loop; other site 748280008998 ATP binding site [chemical binding]; other site 748280008999 Q-loop/lid; other site 748280009000 ABC transporter signature motif; other site 748280009001 Walker B; other site 748280009002 D-loop; other site 748280009003 H-loop/switch region; other site 748280009004 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280009005 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280009006 conserved cys residue [active] 748280009007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280009008 CHASE domain; Region: CHASE; cl01369 748280009009 sensory histidine kinase AtoS; Provisional; Region: PRK11360 748280009010 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 748280009011 dimer interface [polypeptide binding]; other site 748280009012 phosphorylation site [posttranslational modification] 748280009013 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 748280009014 ATP binding site [chemical binding]; other site 748280009015 Mg2+ binding site [ion binding]; other site 748280009016 G-X-G motif; other site 748280009017 ribonuclease R; Region: RNase_R; TIGR02063 748280009018 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 748280009019 RNB domain; Region: RNB; pfam00773 748280009020 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 play an important...; Region: S1_RNase_R; cd04471 748280009021 RNA binding site [nucleotide binding]; other site 748280009022 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 748280009023 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 748280009024 Walker A motif; other site 748280009025 ATP binding site [chemical binding]; other site 748280009026 Walker B motif; other site 748280009027 arginine finger; other site 748280009028 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 748280009029 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 catalyze...; Region: LT_GEWL; cd00254 748280009030 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280009031 catalytic residue [active] 748280009032 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 748280009033 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 748280009034 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 748280009035 dimerization domain [polypeptide binding]; other site 748280009036 dimer interface [polypeptide binding]; other site 748280009037 catalytic residues [active] 748280009038 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 748280009039 active site 748280009040 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 748280009041 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 748280009042 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280009043 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 748280009044 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280009045 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 748280009046 Tetratricopeptide repeat; Region: TPR_16; pfam13432 748280009047 TPR motif; other site 748280009048 binding surface 748280009049 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 748280009050 Secretin and TonB N terminus short domain; Region: STN; cl06624 748280009051 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 748280009052 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 748280009053 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 748280009054 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 748280009055 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 748280009056 Walker A motif; other site 748280009057 ATP binding site [chemical binding]; other site 748280009058 Walker B motif; other site 748280009059 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 748280009060 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 748280009061 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 748280009062 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 748280009063 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 748280009064 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280009065 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 748280009066 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 748280009067 GDP-binding site [chemical binding]; other site 748280009068 ACT binding site; other site 748280009069 IMP binding site; other site 748280009070 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 748280009071 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 ATP-dependent...; Region: HisRS-like_core; cd00773 748280009072 dimer interface [polypeptide binding]; other site 748280009073 motif 1; other site 748280009074 active site 748280009075 motif 2; other site 748280009076 motif 3; other site 748280009077 HflC protein; Region: hflC; TIGR01932 748280009078 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 748280009079 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 748280009080 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 748280009081 HflK protein; Region: hflK; TIGR01933 748280009082 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 748280009083 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 748280009084 HflX GTPase family; Region: HflX; cd01878 748280009085 G1 box; other site 748280009086 GTP/Mg2+ binding site [chemical binding]; other site 748280009087 Switch I region; other site 748280009088 G2 box; other site 748280009089 G3 box; other site 748280009090 Switch II region; other site 748280009091 G4 box; other site 748280009092 G5 box; other site 748280009093 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 748280009094 Sm1 motif; other site 748280009095 intra - hexamer interaction site; other site 748280009096 inter - hexamer interaction site [polypeptide binding]; other site 748280009097 nucleotide binding pocket [chemical binding]; other site 748280009098 Sm2 motif; other site 748280009099 GTP-binding protein Der; Reviewed; Region: PRK00093 748280009100 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 748280009101 G1 box; other site 748280009102 GTP/Mg2+ binding site [chemical binding]; other site 748280009103 Switch I region; other site 748280009104 G2 box; other site 748280009105 Switch II region; other site 748280009106 G3 box; other site 748280009107 G4 box; other site 748280009108 G5 box; other site 748280009109 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 748280009110 G1 box; other site 748280009111 GTP/Mg2+ binding site [chemical binding]; other site 748280009112 Switch I region; other site 748280009113 G2 box; other site 748280009114 G3 box; other site 748280009115 Switch II region; other site 748280009116 G4 box; other site 748280009117 G5 box; other site 748280009118 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 748280009119 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 748280009120 Trp docking motif [polypeptide binding]; other site 748280009121 active site 748280009122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 748280009123 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 748280009124 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 748280009125 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 ATP-dependent...; Region: HisRS-like_core; cd00773 748280009126 dimer interface [polypeptide binding]; other site 748280009127 motif 1; other site 748280009128 active site 748280009129 motif 2; other site 748280009130 motif 3; other site 748280009131 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 748280009132 anticodon binding site; other site 748280009133 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 748280009134 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 748280009135 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 748280009136 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 748280009137 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 748280009138 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 748280009139 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 748280009140 TPR motif; other site 748280009141 binding surface 748280009142 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 748280009143 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 748280009144 FeS/SAM binding site; other site 748280009145 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 748280009146 active site 748280009147 multimer interface [polypeptide binding]; other site 748280009148 Sporulation related domain; Region: SPOR; cl10051 748280009149 Putative exonuclease, RdgC; Region: RdgC; cl01122 748280009150 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 748280009151 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 748280009152 heme binding site [chemical binding]; other site 748280009153 ferroxidase pore; other site 748280009154 ferroxidase diiron center [ion binding]; other site 748280009155 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 748280009156 trimer interface [polypeptide binding]; other site 748280009157 active site 748280009158 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 748280009159 catalytic residues [active] 748280009160 dimer interface [polypeptide binding]; other site 748280009161 hypothetical protein; Provisional; Region: PRK01842 748280009162 SEC-C motif; Region: SEC-C; pfam02810 748280009163 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 748280009164 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 748280009165 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 748280009166 dimer interface [polypeptide binding]; other site 748280009167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009168 catalytic residue [active] 748280009169 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 748280009170 putative ADP-ribose binding site [chemical binding]; other site 748280009171 putative active site [active] 748280009172 Glycerate kinase family; Region: Gly_kinase; cl00841 748280009173 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 748280009174 potential protein location (hypothetical protein NH8B_3179 [Pseudogulbenkiania sp. NH8B]) that overlaps RNA (tRNA-L) 748280009175 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 748280009176 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 748280009177 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 748280009178 GIY-YIG motif/motif A; other site 748280009179 active site 748280009180 catalytic site [active] 748280009181 putative DNA binding site [nucleotide binding]; other site 748280009182 metal binding site [ion binding]; metal-binding site 748280009183 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 748280009184 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 748280009185 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 748280009186 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; cl09108 748280009187 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 key...; Region: CBS_pair_IMPDH; cd04601 748280009188 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 the guanine...; Region: IMPDH; cd00381 748280009189 active site 748280009190 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280009191 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 748280009192 nucleophilic elbow; other site 748280009193 catalytic triad; other site 748280009194 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280009195 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 748280009196 dimerization interface [polypeptide binding]; other site 748280009197 ligand binding site [chemical binding]; other site 748280009198 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280009199 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 748280009200 Walker A/P-loop; other site 748280009201 ATP binding site [chemical binding]; other site 748280009202 Q-loop/lid; other site 748280009203 ABC transporter signature motif; other site 748280009204 Walker B; other site 748280009205 D-loop; other site 748280009206 H-loop/switch region; other site 748280009207 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 748280009208 dimer interface [polypeptide binding]; other site 748280009209 conserved gate region; other site 748280009210 ABC-ATPase subunit interface; other site 748280009211 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 748280009212 dimer interface [polypeptide binding]; other site 748280009213 ABC-ATPase subunit interface; other site 748280009214 putative PBP binding loops; other site 748280009215 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 748280009216 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 748280009217 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 748280009218 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280009219 catalytic residue [active] 748280009220 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 748280009221 Helix-turn-helix domains; Region: HTH; cl00088 748280009222 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 748280009223 dimerization interface [polypeptide binding]; other site 748280009224 substrate binding pocket [chemical binding]; other site 748280009225 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 748280009226 FMN binding site [chemical binding]; other site 748280009227 substrate binding site [chemical binding]; other site 748280009228 putative catalytic residue [active] 748280009229 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 748280009230 putative substrate translocation pore; other site 748280009231 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 748280009232 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 748280009233 Copper resistance protein D; Region: CopD; cl00563 748280009234 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 748280009235 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 748280009236 putative ligand binding site [chemical binding]; other site 748280009237 LysE type translocator; Region: LysE; cl00565 748280009238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280009239 Helix-turn-helix domains; Region: HTH; cl00088 748280009240 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 748280009241 dimerization interface [polypeptide binding]; other site 748280009242 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 748280009243 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 748280009244 active site 748280009245 dimer interface [polypeptide binding]; other site 748280009246 effector binding site; other site 748280009247 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 748280009248 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 748280009249 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 748280009250 Response regulator receiver domain; Region: Response_reg; pfam00072 748280009251 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 748280009252 active site 748280009253 phosphorylation site [posttranslational modification] 748280009254 intermolecular recognition site; other site 748280009255 dimerization interface [polypeptide binding]; other site 748280009256 GAF domain; Region: GAF_2; pfam13185 748280009257 GAF domain; Region: GAF; cl15785 748280009258 PAS fold; Region: PAS; pfam00989 748280009259 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 748280009260 PAS domain; Region: PAS_9; pfam13426 748280009261 putative active site [active] 748280009262 heme pocket [chemical binding]; other site 748280009263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280009264 metal binding site [ion binding]; metal-binding site 748280009265 active site 748280009266 I-site; other site 748280009267 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 748280009268 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 748280009269 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 748280009270 active site 748280009271 phosphorylation site [posttranslational modification] 748280009272 intermolecular recognition site; other site 748280009273 dimerization interface [polypeptide binding]; other site 748280009274 CheB methylesterase; Region: CheB_methylest; pfam01339 748280009275 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 748280009276 putative binding surface; other site 748280009277 active site 748280009278 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 748280009279 ATP binding site [chemical binding]; other site 748280009280 Mg2+ binding site [ion binding]; other site 748280009281 G-X-G motif; other site 748280009282 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 748280009283 Response regulator receiver domain; Region: Response_reg; pfam00072 748280009284 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 748280009285 active site 748280009286 phosphorylation site [posttranslational modification] 748280009287 intermolecular recognition site; other site 748280009288 dimerization interface [polypeptide binding]; other site 748280009289 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 748280009290 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280009291 dimer interface [polypeptide binding]; other site 748280009292 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280009293 putative CheW interface [polypeptide binding]; other site 748280009294 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 748280009295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009296 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 748280009297 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 748280009298 elongation factor P; Validated; Region: PRK00529 748280009299 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 748280009300 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 748280009301 RNA binding site [nucleotide binding]; other site 748280009302 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 748280009303 RNA binding site [nucleotide binding]; other site 748280009304 Predicted ATPase [General function prediction only]; Region: COG1485 748280009305 cysteine synthase B; Region: cysM; TIGR01138 748280009306 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 748280009307 dimer interface [polypeptide binding]; other site 748280009308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009309 catalytic residue [active] 748280009310 BON domain; Region: BON; cl02771 748280009311 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 748280009312 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 748280009313 NADP binding site [chemical binding]; other site 748280009314 homopentamer interface [polypeptide binding]; other site 748280009315 substrate binding site [chemical binding]; other site 748280009316 active site 748280009317 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 748280009318 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 748280009319 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280009320 putative ribose interaction site [chemical binding]; other site 748280009321 putative ADP binding site [chemical binding]; other site 748280009322 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 748280009323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009324 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 748280009325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009326 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 contains two...; Region: OMP_decarboxylase_like; cd04725 748280009327 active site 748280009328 dimer interface [polypeptide binding]; other site 748280009329 tetratricopeptide repeat protein; Provisional; Region: PRK11788 748280009330 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 748280009331 binding surface 748280009332 TPR motif; other site 748280009333 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 748280009334 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 748280009335 IHF dimer interface [polypeptide binding]; other site 748280009336 IHF - DNA interface [nucleotide binding]; other site 748280009337 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 748280009338 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 748280009339 RNA binding site [nucleotide binding]; other site 748280009340 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 748280009341 RNA binding site [nucleotide binding]; other site 748280009342 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 748280009343 RNA binding site [nucleotide binding]; other site 748280009344 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 748280009345 RNA binding site [nucleotide binding]; other site 748280009346 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 748280009347 RNA binding site [nucleotide binding]; other site 748280009348 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 748280009349 RNA binding site [nucleotide binding]; other site 748280009350 cytidylate kinase; Provisional; Region: cmk; PRK00023 748280009351 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 748280009352 CMP-binding site; other site 748280009353 The sites determining sugar specificity; other site 748280009354 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 748280009355 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 748280009356 hinge; other site 748280009357 active site 748280009358 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 748280009359 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 748280009360 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 748280009361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009362 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 748280009363 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 748280009364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009365 catalytic residue [active] 748280009366 hypothetical protein; Validated; Region: PRK09070 748280009367 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 748280009368 chorismate binding enzyme; Region: Chorismate_bind; cl10555 748280009369 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 748280009370 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 748280009371 dimer interface [polypeptide binding]; other site 748280009372 active site 748280009373 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280009374 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 748280009375 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 748280009376 NAD(P) binding site [chemical binding]; other site 748280009377 homotetramer interface [polypeptide binding]; other site 748280009378 homodimer interface [polypeptide binding]; other site 748280009379 active site 748280009380 Acyl transferase domain; Region: Acyl_transf_1; cl08282 748280009381 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 748280009382 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 748280009383 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 748280009384 dimer interface [polypeptide binding]; other site 748280009385 active site 748280009386 CoA binding pocket [chemical binding]; other site 748280009387 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 748280009388 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 748280009389 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 748280009390 Maf-like protein; Region: Maf; pfam02545 748280009391 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 748280009392 active site 748280009393 dimer interface [polypeptide binding]; other site 748280009394 Predicted methyltransferases [General function prediction only]; Region: COG0313 748280009395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009396 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 748280009397 LemA family; Region: LemA; cl00742 748280009398 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280009399 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 748280009400 FtsX-like permease family; Region: FtsX; cl15850 748280009401 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 748280009402 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 748280009403 Walker A/P-loop; other site 748280009404 ATP binding site [chemical binding]; other site 748280009405 Q-loop/lid; other site 748280009406 ABC transporter signature motif; other site 748280009407 Walker B; other site 748280009408 D-loop; other site 748280009409 H-loop/switch region; other site 748280009410 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280009411 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 748280009412 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 748280009413 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280009414 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 748280009415 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280009416 active site 748280009417 glycine dehydrogenase; Provisional; Region: PRK05367 748280009418 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 748280009419 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280009420 catalytic residue [active] 748280009421 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 748280009422 tetramer interface [polypeptide binding]; other site 748280009423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009424 catalytic residue [active] 748280009425 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 748280009426 lipoyl attachment site [posttranslational modification]; other site 748280009427 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 748280009428 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280009429 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280009430 active site 748280009431 HIGH motif; other site 748280009432 nucleotide binding site [chemical binding]; other site 748280009433 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280009434 KMSKS motif; other site 748280009435 Ferredoxin [Energy production and conversion]; Region: COG1146 748280009436 4Fe-4S binding domain; Region: Fer4; cl02805 748280009437 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 748280009438 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; cl02459 748280009439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280009440 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 748280009441 phosphorylation site [posttranslational modification] 748280009442 dimer interface [polypeptide binding]; other site 748280009443 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 748280009444 ATP binding site [chemical binding]; other site 748280009445 Mg2+ binding site [ion binding]; other site 748280009446 G-X-G motif; other site 748280009447 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 748280009448 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280009449 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 748280009450 active site 748280009451 phosphorylation site [posttranslational modification] 748280009452 intermolecular recognition site; other site 748280009453 dimerization interface [polypeptide binding]; other site 748280009454 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 748280009455 Response regulator receiver domain; Region: Response_reg; pfam00072 748280009456 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 748280009457 active site 748280009458 phosphorylation site [posttranslational modification] 748280009459 intermolecular recognition site; other site 748280009460 dimerization interface [polypeptide binding]; other site 748280009461 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 748280009462 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 748280009463 active site 748280009464 phosphorylation site [posttranslational modification] 748280009465 intermolecular recognition site; other site 748280009466 dimerization interface [polypeptide binding]; other site 748280009467 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 748280009468 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 748280009469 putative binding surface; other site 748280009470 active site 748280009471 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 748280009472 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 748280009473 ATP binding site [chemical binding]; other site 748280009474 Mg2+ binding site [ion binding]; other site 748280009475 G-X-G motif; other site 748280009476 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 748280009477 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280009478 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 748280009479 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 748280009480 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 748280009481 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280009482 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 748280009483 Fe-S cluster binding site [ion binding]; other site 748280009484 active site 748280009485 Transcriptional regulators [Transcription]; Region: FadR; COG2186 748280009486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280009487 DNA-binding site [nucleotide binding]; DNA binding site 748280009488 FCD domain; Region: FCD; cl11656 748280009489 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 748280009490 folate binding site [chemical binding]; other site 748280009491 NADP+ binding site [chemical binding]; other site 748280009492 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 748280009493 dimerization interface [polypeptide binding]; other site 748280009494 active site 748280009495 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 748280009496 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 748280009497 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 748280009498 FHIPEP family; Region: FHIPEP; pfam00771 748280009499 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 748280009500 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 748280009501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280009502 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 748280009503 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 748280009504 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 748280009505 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280009506 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 748280009507 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 748280009508 DNA binding residues [nucleotide binding] 748280009509 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280009510 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280009511 active site 748280009512 substrate binding site [chemical binding]; other site 748280009513 catalytic site [active] 748280009514 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 748280009515 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 748280009516 active site 748280009517 catalytic site [active] 748280009518 metal binding site [ion binding]; metal-binding site 748280009519 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 748280009520 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 748280009521 active site 748280009522 DNA binding site [nucleotide binding] 748280009523 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 748280009524 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; cl15357 748280009525 transmembrane helices; other site 748280009526 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 748280009527 diiron binding motif [ion binding]; other site 748280009528 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 748280009529 dimer interface [polypeptide binding]; other site 748280009530 substrate binding site [chemical binding]; other site 748280009531 metal binding sites [ion binding]; metal-binding site 748280009532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009533 Phasin protein; Region: Phasin_2; cl11491 748280009534 septum formation inhibitor; Reviewed; Region: minC; PRK04516 748280009535 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 748280009536 cell division inhibitor MinD; Provisional; Region: PRK10818 748280009537 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 748280009538 Switch I; other site 748280009539 Switch II; other site 748280009540 Septum formation topological specificity factor MinE; Region: MinE; cl00538 748280009541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280009542 Helix-turn-helix domains; Region: HTH; cl00088 748280009543 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 748280009544 dimerization interface [polypeptide binding]; other site 748280009545 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 748280009546 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 748280009547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009548 homodimer interface [polypeptide binding]; other site 748280009549 catalytic residue [active] 748280009550 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280009551 Helix-turn-helix domains; Region: HTH; cl00088 748280009552 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 748280009553 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 748280009554 Dihaem cytochrome c; Region: DHC; pfam09626 748280009555 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 748280009556 Cation efflux family; Region: Cation_efflux; cl00316 748280009557 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 748280009558 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 748280009559 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 748280009560 transcription termination factor Rho; Provisional; Region: PRK12678 748280009561 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280009562 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 748280009563 RNA binding surface [nucleotide binding]; other site 748280009564 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 748280009565 probable active site [active] 748280009566 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 748280009567 ScpA/B protein; Region: ScpA_ScpB; cl00598 748280009568 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 748280009569 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 748280009570 active site 748280009571 HIGH motif; other site 748280009572 dimer interface [polypeptide binding]; other site 748280009573 KMSKS motif; other site 748280009574 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280009575 active site 748280009576 KMSKS motif; other site 748280009577 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 748280009578 active site 748280009579 putative substrate binding region [chemical binding]; other site 748280009580 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 748280009581 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 748280009582 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 748280009583 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; cl09940 748280009584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280009585 AAA domain; Region: AAA_28; pfam13521 748280009586 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 748280009587 active site 748280009588 homodimer interface [polypeptide binding]; other site 748280009589 elongation factor G; Reviewed; Region: PRK00007 748280009590 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 748280009591 G1 box; other site 748280009592 putative GEF interaction site [polypeptide binding]; other site 748280009593 GTP/Mg2+ binding site [chemical binding]; other site 748280009594 Switch I region; other site 748280009595 G2 box; other site 748280009596 G3 box; other site 748280009597 Switch II region; other site 748280009598 G4 box; other site 748280009599 G5 box; other site 748280009600 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 748280009601 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 748280009602 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 748280009603 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 748280009604 NMT1-like family; Region: NMT1_2; cl15260 748280009605 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 748280009606 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 748280009607 ABC-ATPase subunit interface; other site 748280009608 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 748280009609 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 748280009610 Walker A/P-loop; other site 748280009611 ATP binding site [chemical binding]; other site 748280009612 Q-loop/lid; other site 748280009613 ABC transporter signature motif; other site 748280009614 Walker B; other site 748280009615 D-loop; other site 748280009616 H-loop/switch region; other site 748280009617 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 748280009618 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 748280009619 putative PBP binding loops; other site 748280009620 dimer interface [polypeptide binding]; other site 748280009621 ABC-ATPase subunit interface; other site 748280009622 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 748280009623 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 748280009624 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 748280009625 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 748280009626 Helix-turn-helix domains; Region: HTH; cl00088 748280009627 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 748280009628 putative dimerization interface [polypeptide binding]; other site 748280009629 putative substrate binding pocket [chemical binding]; other site 748280009630 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280009631 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 748280009632 ligand binding site [chemical binding]; other site 748280009633 flexible hinge region; other site 748280009634 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 748280009635 putative switch regulator; other site 748280009636 non-specific DNA interactions [nucleotide binding]; other site 748280009637 DNA binding site [nucleotide binding] 748280009638 sequence specific DNA binding site [nucleotide binding]; other site 748280009639 putative cAMP binding site [chemical binding]; other site 748280009640 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 748280009641 AsmA-like C-terminal region; Region: AsmA_2; cl15864 748280009642 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 748280009643 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 748280009644 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 748280009645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009646 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; cl15357 748280009647 KpsF/GutQ family protein; Region: kpsF; TIGR00393 748280009648 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 748280009649 putative active site [active] 748280009650 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 748280009651 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 748280009652 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 748280009653 active site 748280009654 motif I; other site 748280009655 motif II; other site 748280009656 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 748280009657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 748280009658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 748280009659 OstA-like protein; Region: OstA; cl00844 748280009660 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 748280009661 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 748280009662 Walker A/P-loop; other site 748280009663 ATP binding site [chemical binding]; other site 748280009664 Q-loop/lid; other site 748280009665 ABC transporter signature motif; other site 748280009666 Walker B; other site 748280009667 D-loop; other site 748280009668 H-loop/switch region; other site 748280009669 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 748280009670 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 748280009671 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 748280009672 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 A site; Region: RaiA; cd00552 748280009673 30S subunit binding site; other site 748280009674 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 748280009675 active site 748280009676 phosphorylation site [posttranslational modification] 748280009677 HPr kinase/phosphorylase; Provisional; Region: PRK05428 748280009678 DRTGG domain; Region: DRTGG; cl12147 748280009679 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 748280009680 Hpr binding site; other site 748280009681 active site 748280009682 homohexamer subunit interaction site [polypeptide binding]; other site 748280009683 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 748280009684 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 748280009685 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 748280009686 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 748280009687 aromatic acid decarboxylase; Validated; Region: PRK05920 748280009688 Flavoprotein; Region: Flavoprotein; cl08021 748280009689 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 748280009690 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 748280009691 putative substrate binding site [chemical binding]; other site 748280009692 putative ATP binding site [chemical binding]; other site 748280009693 EamA-like transporter family; Region: EamA; cl01037 748280009694 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280009695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280009696 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 748280009697 ATP binding site [chemical binding]; other site 748280009698 Mg2+ binding site [ion binding]; other site 748280009699 G-X-G motif; other site 748280009700 adenylate kinase; Reviewed; Region: adk; PRK00279 748280009701 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 748280009702 AMP-binding site [chemical binding]; other site 748280009703 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 748280009704 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 748280009705 Ligand binding site; other site 748280009706 oligomer interface; other site 748280009707 Trm112p-like protein; Region: Trm112p; cl01066 748280009708 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 748280009709 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 748280009710 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 748280009711 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280009712 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 748280009713 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 748280009714 generic binding surface II; other site 748280009715 generic binding surface I; other site 748280009716 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 748280009717 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 748280009718 dimerization interface [polypeptide binding]; other site 748280009719 putative DNA binding site [nucleotide binding]; other site 748280009720 putative Zn2+ binding site [ion binding]; other site 748280009721 Sulfatase; Region: Sulfatase; cl10460 748280009722 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 748280009723 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 748280009724 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280009725 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 748280009726 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 748280009727 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 748280009728 protein binding site [polypeptide binding]; other site 748280009729 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 748280009730 Catalytic dyad [active] 748280009731 N-acetylglutamate synthase; Validated; Region: PRK05279 748280009732 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 748280009733 putative feedback inhibition sensing region; other site 748280009734 putative nucleotide binding site [chemical binding]; other site 748280009735 putative substrate binding site [chemical binding]; other site 748280009736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280009737 Coenzyme A binding pocket [chemical binding]; other site 748280009738 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 748280009739 polyphosphate kinase; Provisional; Region: PRK05443 748280009740 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 748280009741 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 748280009742 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 748280009743 putative domain interface [polypeptide binding]; other site 748280009744 putative active site [active] 748280009745 catalytic site [active] 748280009746 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 748280009747 putative domain interface [polypeptide binding]; other site 748280009748 putative active site [active] 748280009749 catalytic site [active] 748280009750 Protein of unknown function (DUF456); Region: DUF456; cl01069 748280009751 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 748280009752 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280009753 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280009754 ABC transporter; Region: ABC_tran_2; pfam12848 748280009755 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 748280009756 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_27; cd04640 748280009757 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280009758 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 748280009759 substrate binding pocket [chemical binding]; other site 748280009760 membrane-bound complex binding site; other site 748280009761 hinge residues; other site 748280009762 alanine racemase; Reviewed; Region: alr; PRK00053 748280009763 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 748280009764 active site 748280009765 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280009766 substrate binding site [chemical binding]; other site 748280009767 catalytic residues [active] 748280009768 dimer interface [polypeptide binding]; other site 748280009769 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280009770 Helix-turn-helix domains; Region: HTH; cl00088 748280009771 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 748280009772 dimerization interface [polypeptide binding]; other site 748280009773 substrate binding pocket [chemical binding]; other site 748280009774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009775 OpgC protein; Region: OpgC_C; cl00792 748280009776 Flagellar L-ring protein; Region: FlgH; cl00905 748280009777 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 748280009778 aspartate kinase; Reviewed; Region: PRK06635 748280009779 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 748280009780 putative nucleotide binding site [chemical binding]; other site 748280009781 putative catalytic residues [active] 748280009782 putative Mg ion binding site [ion binding]; other site 748280009783 putative aspartate binding site [chemical binding]; other site 748280009784 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 748280009785 putative allosteric regulatory site; other site 748280009786 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 748280009787 Cysteine-rich domain; Region: CCG; pfam02754 748280009788 Cysteine-rich domain; Region: CCG; pfam02754 748280009789 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 748280009790 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 748280009791 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 748280009792 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 748280009793 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 748280009794 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 748280009795 ATP binding site [chemical binding]; other site 748280009796 Mg++ binding site [ion binding]; other site 748280009797 motif III; other site 748280009798 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 748280009799 nucleotide binding region [chemical binding]; other site 748280009800 ATP-binding site [chemical binding]; other site 748280009801 CobD/Cbib protein; Region: CobD_Cbib; cl00561 748280009802 FlgN protein; Region: FlgN; cl09176 748280009803 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 748280009804 SAF domain; Region: SAF; cl00555 748280009805 SAF-like; Region: SAF_2; pfam13144 748280009806 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 748280009807 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 748280009808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009809 catalytic residue [active] 748280009810 homoserine dehydrogenase; Provisional; Region: PRK06349 748280009811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009812 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 748280009813 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 748280009814 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 748280009815 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 748280009816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009817 homodimer interface [polypeptide binding]; other site 748280009818 catalytic residue [active] 748280009819 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 748280009820 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280009821 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280009822 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 748280009823 SCP-2 sterol transfer family; Region: SCP2; cl01225 748280009824 LysE type translocator; Region: LysE; cl00565 748280009825 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 748280009826 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 748280009827 S-adenosylmethionine binding site [chemical binding]; other site 748280009828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009829 Protein of unknown function (DUF971); Region: DUF971; cl01414 748280009830 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 748280009831 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 748280009832 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 748280009833 trimer interface [polypeptide binding]; other site 748280009834 active site 748280009835 dimer interface [polypeptide binding]; other site 748280009836 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 748280009837 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 748280009838 carboxyltransferase (CT) interaction site; other site 748280009839 biotinylation site [posttranslational modification]; other site 748280009840 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 748280009841 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280009842 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280009843 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 748280009844 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 748280009845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009846 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 748280009847 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 748280009848 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280009849 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 748280009850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009851 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 748280009852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 748280009853 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; cl00251 748280009854 SecA binding site; other site 748280009855 Preprotein binding site; other site 748280009856 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 748280009857 GSH binding site [chemical binding]; other site 748280009858 catalytic residues [active] 748280009859 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 748280009860 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280009861 primosome assembly protein PriA; Validated; Region: PRK05580 748280009862 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 748280009863 ATP binding site [chemical binding]; other site 748280009864 putative Mg++ binding site [ion binding]; other site 748280009865 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 748280009866 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 748280009867 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 748280009868 substrate binding site [chemical binding]; other site 748280009869 active site 748280009870 Chromate transporter; Region: Chromate_transp; pfam02417 748280009871 Chromate transporter; Region: Chromate_transp; pfam02417 748280009872 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280009873 Helix-turn-helix domains; Region: HTH; cl00088 748280009874 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 748280009875 dimerization interface [polypeptide binding]; other site 748280009876 substrate binding pocket [chemical binding]; other site 748280009877 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 748280009878 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 748280009879 ATP binding site [chemical binding]; other site 748280009880 Mg2+ binding site [ion binding]; other site 748280009881 G-X-G motif; other site 748280009882 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 748280009883 anchoring element; other site 748280009884 dimer interface [polypeptide binding]; other site 748280009885 ATP binding site [chemical binding]; other site 748280009886 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 748280009887 active site 748280009888 metal binding site [ion binding]; metal-binding site 748280009889 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 748280009890 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 748280009891 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 748280009892 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 748280009893 putative active site [active] 748280009894 Ap4A binding site [chemical binding]; other site 748280009895 nudix motif; other site 748280009896 putative metal binding site [ion binding]; other site 748280009897 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 748280009898 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 748280009899 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; cl15754 748280009900 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 748280009901 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 748280009902 active site 748280009903 (T/H)XGH motif; other site 748280009904 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 748280009905 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 748280009906 Walker A/P-loop; other site 748280009907 ATP binding site [chemical binding]; other site 748280009908 Q-loop/lid; other site 748280009909 ABC transporter signature motif; other site 748280009910 Walker B; other site 748280009911 D-loop; other site 748280009912 H-loop/switch region; other site 748280009913 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 748280009914 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 748280009915 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 748280009916 Walker A/P-loop; other site 748280009917 ATP binding site [chemical binding]; other site 748280009918 Q-loop/lid; other site 748280009919 ABC transporter signature motif; other site 748280009920 Walker B; other site 748280009921 D-loop; other site 748280009922 H-loop/switch region; other site 748280009923 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 748280009924 dipeptide transporter; Provisional; Region: PRK10913 748280009925 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 748280009926 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 748280009927 dimer interface [polypeptide binding]; other site 748280009928 conserved gate region; other site 748280009929 putative PBP binding loops; other site 748280009930 ABC-ATPase subunit interface; other site 748280009931 dipeptide transporter permease DppB; Provisional; Region: PRK10914 748280009932 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 748280009933 dimer interface [polypeptide binding]; other site 748280009934 conserved gate region; other site 748280009935 putative PBP binding loops; other site 748280009936 ABC-ATPase subunit interface; other site 748280009937 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 748280009938 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 748280009939 peptide binding site [polypeptide binding]; other site 748280009940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280009941 Helix-turn-helix domains; Region: HTH; cl00088 748280009942 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 748280009943 dimerization interface [polypeptide binding]; other site 748280009944 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 748280009945 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 748280009946 dimer interface [polypeptide binding]; other site 748280009947 active site 748280009948 CoA binding pocket [chemical binding]; other site 748280009949 Helix-turn-helix domains; Region: HTH; cl00088 748280009950 Rrf2 family protein; Region: rrf2_super; TIGR00738 748280009951 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 748280009952 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 748280009953 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280009954 catalytic residue [active] 748280009955 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 748280009956 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 748280009957 trimerization site [polypeptide binding]; other site 748280009958 active site 748280009959 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 748280009960 co-chaperone HscB; Provisional; Region: hscB; PRK03578 748280009961 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 748280009962 HSP70 interaction site [polypeptide binding]; other site 748280009963 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 748280009964 chaperone protein HscA; Provisional; Region: hscA; PRK05183 748280009965 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 748280009966 catalytic loop [active] 748280009967 iron binding site [ion binding]; other site 748280009968 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 748280009969 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 748280009970 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280009971 putative C-terminal domain interface [polypeptide binding]; other site 748280009972 putative GSH binding site (G-site) [chemical binding]; other site 748280009973 putative dimer interface [polypeptide binding]; other site 748280009974 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 748280009975 putative N-terminal domain interface [polypeptide binding]; other site 748280009976 putative dimer interface [polypeptide binding]; other site 748280009977 putative substrate binding pocket (H-site) [chemical binding]; other site 748280009978 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 748280009979 Sugar specificity; other site 748280009980 Pyrimidine base specificity; other site 748280009981 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 748280009982 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280009983 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 748280009984 putative DNA binding site [nucleotide binding]; other site 748280009985 putative Zn2+ binding site [ion binding]; other site 748280009986 Helix-turn-helix domains; Region: HTH; cl00088 748280009987 LysE type translocator; Region: LysE; cl00565 748280009988 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 748280009989 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 748280009990 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; cl12031 748280009991 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 748280009992 TPR repeat; Region: TPR_11; pfam13414 748280009993 binding surface 748280009994 TPR motif; other site 748280009995 TPR repeat; Region: TPR_11; pfam13414 748280009996 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 748280009997 binding surface 748280009998 TPR motif; other site 748280009999 TPR repeat; Region: TPR_11; pfam13414 748280010000 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 748280010001 binding surface 748280010002 TPR motif; other site 748280010003 TPR repeat; Region: TPR_11; pfam13414 748280010004 TPR repeat; Region: TPR_11; pfam13414 748280010005 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 748280010006 binding surface 748280010007 TPR motif; other site 748280010008 Tetratricopeptide repeat; Region: TPR_16; pfam13432 748280010009 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 748280010010 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280010011 Protein export membrane protein; Region: SecD_SecF; cl14618 748280010012 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280010013 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 748280010014 MltA specific insert domain; Region: MltA; cl08398 748280010015 3D domain; Region: 3D; cl01439 748280010016 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 748280010017 PAS domain; Region: PAS_9; pfam13426 748280010018 putative active site [active] 748280010019 heme pocket [chemical binding]; other site 748280010020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280010021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280010022 dimer interface [polypeptide binding]; other site 748280010023 putative CheW interface [polypeptide binding]; other site 748280010024 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280010025 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 748280010026 active site 748280010027 phosphorylation site [posttranslational modification] 748280010028 intermolecular recognition site; other site 748280010029 dimerization interface [polypeptide binding]; other site 748280010030 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 748280010031 DNA binding residues [nucleotide binding] 748280010032 dimerization interface [polypeptide binding]; other site 748280010033 Cytochrome c; Region: Cytochrom_C; cl11414 748280010034 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 748280010035 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 748280010036 dimer interface [polypeptide binding]; other site 748280010037 Trp docking motif [polypeptide binding]; other site 748280010038 active site 748280010039 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 748280010040 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 748280010041 ligand binding site [chemical binding]; other site 748280010042 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 748280010043 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280010044 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280010045 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280010046 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 748280010047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010048 Walker A/P-loop; other site 748280010049 ATP binding site [chemical binding]; other site 748280010050 Q-loop/lid; other site 748280010051 ABC transporter signature motif; other site 748280010052 Walker B; other site 748280010053 D-loop; other site 748280010054 H-loop/switch region; other site 748280010055 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280010056 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 748280010057 active site residue [active] 748280010058 Uncharacterized conserved protein [Function unknown]; Region: COG3287 748280010059 FIST N domain; Region: FIST; cl10701 748280010060 FIST C domain; Region: FIST_C; pfam10442 748280010061 PAS fold; Region: PAS_7; pfam12860 748280010062 PAS fold; Region: PAS_7; pfam12860 748280010063 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 748280010064 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; cl02459 748280010065 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 748280010066 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 748280010067 ATP binding site [chemical binding]; other site 748280010068 Mg2+ binding site [ion binding]; other site 748280010069 G-X-G motif; other site 748280010070 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280010071 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 748280010072 active site 748280010073 phosphorylation site [posttranslational modification] 748280010074 intermolecular recognition site; other site 748280010075 dimerization interface [polypeptide binding]; other site 748280010076 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 748280010077 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280010078 NAD(P) binding site [chemical binding]; other site 748280010079 catalytic residues [active] 748280010080 Protein of unknown function (DUF779); Region: DUF779; cl01432 748280010081 Cytochrome c; Region: Cytochrom_C; cl11414 748280010082 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 748280010083 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280010084 substrate binding pocket [chemical binding]; other site 748280010085 membrane-bound complex binding site; other site 748280010086 hinge residues; other site 748280010087 Predicted secreted protein [Function unknown]; Region: COG5501 748280010088 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 748280010089 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 748280010090 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280010091 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280010092 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; cl15243 748280010093 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 748280010094 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 748280010095 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 748280010096 FeS/SAM binding site; other site 748280010097 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 748280010098 Flavin Reductases; Region: FlaRed; cl00801 748280010099 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 748280010100 active site 748280010101 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 748280010102 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280010103 ligand binding site [chemical binding]; other site 748280010104 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 748280010105 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 748280010106 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 748280010107 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 748280010108 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 748280010109 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280010110 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 748280010111 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 748280010112 DNA binding residues [nucleotide binding] 748280010113 DNA primase; Validated; Region: dnaG; PRK05667 748280010114 CHC2 zinc finger; Region: zf-CHC2; cl15369 748280010115 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 748280010116 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 748280010117 active site 748280010118 metal binding site [ion binding]; metal-binding site 748280010119 interdomain interaction site; other site 748280010120 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 748280010121 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 748280010122 GatB domain; Region: GatB_Yqey; cl11497 748280010123 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 748280010124 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 748280010125 ThiS interaction site; other site 748280010126 putative active site [active] 748280010127 tetramer interface [polypeptide binding]; other site 748280010128 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 748280010129 thiS-thiF/thiG interaction site; other site 748280010130 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 748280010131 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 748280010132 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 748280010133 synthetase active site [active] 748280010134 NTP binding site [chemical binding]; other site 748280010135 metal binding site [ion binding]; metal-binding site 748280010136 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 748280010137 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 748280010138 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 748280010139 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 748280010140 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 748280010141 catalytic site [active] 748280010142 G-X2-G-X-G-K; other site 748280010143 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 748280010144 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 748280010145 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280010146 active site 748280010147 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 748280010148 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 748280010149 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 748280010150 catalytic loop [active] 748280010151 iron binding site [ion binding]; other site 748280010152 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 748280010153 FAD binding pocket [chemical binding]; other site 748280010154 FAD binding motif [chemical binding]; other site 748280010155 phosphate binding motif [ion binding]; other site 748280010156 beta-alpha-beta structure motif; other site 748280010157 NAD binding pocket [chemical binding]; other site 748280010158 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 748280010159 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280010160 putative NAD(P) binding site [chemical binding]; other site 748280010161 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; cl15754 748280010162 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 748280010163 catalytic residues [active] 748280010164 dimer interface [polypeptide binding]; other site 748280010165 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 748280010166 glycerate dehydrogenase; Provisional; Region: PRK06487 748280010167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010168 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 748280010169 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 748280010170 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 748280010171 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 748280010172 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 748280010173 active site 748280010174 substrate binding site [chemical binding]; other site 748280010175 metal binding site [ion binding]; metal-binding site 748280010176 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 748280010177 dihydropteroate synthase; Region: DHPS; TIGR01496 748280010178 substrate binding pocket [chemical binding]; other site 748280010179 dimer interface [polypeptide binding]; other site 748280010180 inhibitor binding site; inhibition site 748280010181 FtsH Extracellular; Region: FtsH_ext; pfam06480 748280010182 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 748280010183 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 748280010184 Walker A motif; other site 748280010185 ATP binding site [chemical binding]; other site 748280010186 Walker B motif; other site 748280010187 arginine finger; other site 748280010188 Peptidase family M41; Region: Peptidase_M41; pfam01434 748280010189 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 748280010190 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 748280010191 S-adenosylmethionine binding site [chemical binding]; other site 748280010192 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 748280010193 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 748280010194 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 748280010195 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 748280010196 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 748280010197 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 748280010198 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280010199 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280010200 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 748280010201 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280010202 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280010203 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 748280010204 IMP binding site; other site 748280010205 dimer interface [polypeptide binding]; other site 748280010206 interdomain contacts; other site 748280010207 partial ornithine binding site; other site 748280010208 LysE type translocator; Region: LysE; cl00565 748280010209 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 748280010210 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 748280010211 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 748280010212 catalytic site [active] 748280010213 subunit interface [polypeptide binding]; other site 748280010214 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280010215 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280010216 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280010217 active site 748280010218 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280010219 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 748280010220 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 748280010221 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 748280010222 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 748280010223 Ligand binding site [chemical binding]; other site 748280010224 Electron transfer flavoprotein domain; Region: ETF; pfam01012 748280010225 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 748280010226 dimer interaction site [polypeptide binding]; other site 748280010227 substrate-binding tunnel; other site 748280010228 active site 748280010229 catalytic site [active] 748280010230 substrate binding site [chemical binding]; other site 748280010231 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 748280010232 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 748280010233 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 748280010234 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 748280010235 AMIN domain; Region: AMIN; pfam11741 748280010236 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 748280010237 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 748280010238 active site 748280010239 metal binding site [ion binding]; metal-binding site 748280010240 Domain of unknown function (DUF329); Region: DUF329; cl01144 748280010241 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 748280010242 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 748280010243 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 748280010244 CoA-binding site [chemical binding]; other site 748280010245 ATP-binding [chemical binding]; other site 748280010246 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 748280010247 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 748280010248 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 748280010249 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 748280010250 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 748280010251 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 748280010252 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 748280010253 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 748280010254 Walker A motif; other site 748280010255 ATP binding site [chemical binding]; other site 748280010256 Walker B motif; other site 748280010257 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 748280010258 trimer interface [polypeptide binding]; other site 748280010259 eyelet of channel; other site 748280010260 DNA photolyase; Region: DNA_photolyase; pfam00875 748280010261 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 748280010262 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 748280010263 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 748280010264 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 748280010265 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 748280010266 signal recognition particle protein; Provisional; Region: PRK10867 748280010267 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 748280010268 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 748280010269 P loop; other site 748280010270 GTP binding site [chemical binding]; other site 748280010271 Signal peptide binding domain; Region: SRP_SPB; pfam02978 748280010272 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 748280010273 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280010274 adenylosuccinate lyase; Provisional; Region: PRK09285 748280010275 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 748280010276 tetramer interface [polypeptide binding]; other site 748280010277 active site 748280010278 Bacitracin resistance protein BacA; Region: BacA; cl00858 748280010279 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 748280010280 catalytic residues [active] 748280010281 hinge region; other site 748280010282 alpha helical domain; other site 748280010283 Sporulation related domain; Region: SPOR; cl10051 748280010284 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 748280010285 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 748280010286 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 748280010287 Walker A motif; other site 748280010288 ATP binding site [chemical binding]; other site 748280010289 Walker B motif; other site 748280010290 arginine finger; other site 748280010291 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 748280010292 Membrane fusogenic activity; Region: BMFP; cl01115 748280010293 Nitrogen regulatory protein P-II; Region: P-II; cl00412 748280010294 Nitrogen regulatory protein P-II; Region: P-II; smart00938 748280010295 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 748280010296 Stringent starvation protein B; Region: SspB; cl01120 748280010297 stringent starvation protein A; Provisional; Region: sspA; PRK09481 748280010298 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 748280010299 C-terminal domain interface [polypeptide binding]; other site 748280010300 putative GSH binding site (G-site) [chemical binding]; other site 748280010301 dimer interface [polypeptide binding]; other site 748280010302 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 748280010303 N-terminal domain interface [polypeptide binding]; other site 748280010304 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 748280010305 cytochrome b; Provisional; Region: CYTB; MTH00145 748280010306 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; cd00284 748280010307 Qi binding site; other site 748280010308 intrachain domain interface; other site 748280010309 interchain domain interface [polypeptide binding]; other site 748280010310 heme bH binding site [chemical binding]; other site 748280010311 heme bL binding site [chemical binding]; other site 748280010312 Qo binding site; other site 748280010313 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 748280010314 interchain domain interface [polypeptide binding]; other site 748280010315 intrachain domain interface; other site 748280010316 Qi binding site; other site 748280010317 Qo binding site; other site 748280010318 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 748280010319 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 748280010320 [2Fe-2S] cluster binding site [ion binding]; other site 748280010321 Uncharacterized conserved protein [Function unknown]; Region: COG0327 748280010322 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 748280010323 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 748280010324 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 748280010325 ring oligomerisation interface [polypeptide binding]; other site 748280010326 ATP/Mg binding site [chemical binding]; other site 748280010327 stacking interactions; other site 748280010328 hinge regions; other site 748280010329 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 748280010330 oligomerisation interface [polypeptide binding]; other site 748280010331 mobile loop; other site 748280010332 roof hairpin; other site 748280010333 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 748280010334 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 748280010335 Mg++ binding site [ion binding]; other site 748280010336 putative catalytic motif [active] 748280010337 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 748280010338 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 748280010339 NAD binding site [chemical binding]; other site 748280010340 substrate binding site [chemical binding]; other site 748280010341 homodimer interface [polypeptide binding]; other site 748280010342 active site 748280010343 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 748280010344 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 748280010345 NADP binding site [chemical binding]; other site 748280010346 active site 748280010347 putative substrate binding site [chemical binding]; other site 748280010348 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 748280010349 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 748280010350 substrate binding site; other site 748280010351 tetramer interface; other site 748280010352 Cupin domain; Region: Cupin_2; cl09118 748280010353 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 748280010354 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 748280010355 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 748280010356 NAD(P) binding site [chemical binding]; other site 748280010357 homodimer interface [polypeptide binding]; other site 748280010358 substrate binding site [chemical binding]; other site 748280010359 active site 748280010360 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 748280010361 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 748280010362 inhibitor-cofactor binding pocket; inhibition site 748280010363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010364 catalytic residue [active] 748280010365 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 748280010366 ligand binding site; other site 748280010367 tetramer interface; other site 748280010368 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 748280010369 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 748280010370 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280010371 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 748280010372 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 748280010373 pseudaminic acid synthase; Region: PseI; TIGR03586 748280010374 NeuB family; Region: NeuB; cl00496 748280010375 SAF domain; Region: SAF; cl00555 748280010376 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 748280010377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010378 Walker A/P-loop; other site 748280010379 ATP binding site [chemical binding]; other site 748280010380 Q-loop/lid; other site 748280010381 ABC transporter signature motif; other site 748280010382 Walker B; other site 748280010383 D-loop; other site 748280010384 H-loop/switch region; other site 748280010385 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 748280010386 active site 748280010387 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 748280010388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010389 NAD(P) binding site [chemical binding]; other site 748280010390 active site 748280010391 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 748280010392 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 748280010393 inhibitor-cofactor binding pocket; inhibition site 748280010394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010395 catalytic residue [active] 748280010396 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 748280010397 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 748280010398 NADP-binding site; other site 748280010399 homotetramer interface [polypeptide binding]; other site 748280010400 substrate binding site [chemical binding]; other site 748280010401 homodimer interface [polypeptide binding]; other site 748280010402 active site 748280010403 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 748280010404 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 748280010405 NADP binding site [chemical binding]; other site 748280010406 active site 748280010407 putative substrate binding site [chemical binding]; other site 748280010408 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 748280010409 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 748280010410 metal-binding site 748280010411 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 748280010412 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 748280010413 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 748280010414 Cupin domain; Region: Cupin_2; cl09118 748280010415 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 748280010416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280010417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280010418 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 748280010419 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 748280010420 active site 748280010421 dimer interface [polypeptide binding]; other site 748280010422 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 748280010423 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 748280010424 active site 748280010425 FMN binding site [chemical binding]; other site 748280010426 substrate binding site [chemical binding]; other site 748280010427 3Fe-4S cluster binding site [ion binding]; other site 748280010428 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 748280010429 domain interface; other site 748280010430 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 748280010431 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 748280010432 putative active site [active] 748280010433 catalytic site [active] 748280010434 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 748280010435 putative active site [active] 748280010436 catalytic site [active] 748280010437 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; cl09944 748280010438 lysine decarboxylase LdcC; Provisional; Region: PRK15399 748280010439 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 748280010440 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280010441 catalytic residue [active] 748280010442 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 748280010443 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 748280010444 ferredoxin-NADP reductase; Provisional; Region: PRK10926 748280010445 FAD binding pocket [chemical binding]; other site 748280010446 FAD binding motif [chemical binding]; other site 748280010447 phosphate binding motif [ion binding]; other site 748280010448 beta-alpha-beta structure motif; other site 748280010449 NAD binding pocket [chemical binding]; other site 748280010450 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 748280010451 active site 748280010452 motif I; other site 748280010453 motif II; other site 748280010454 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 748280010455 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 748280010456 homodimer interface [polypeptide binding]; other site 748280010457 substrate-cofactor binding pocket; other site 748280010458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010459 catalytic residue [active] 748280010460 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280010461 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 748280010462 dimer interface [polypeptide binding]; other site 748280010463 conserved gate region; other site 748280010464 putative PBP binding loops; other site 748280010465 ABC-ATPase subunit interface; other site 748280010466 cystine transporter subunit; Provisional; Region: PRK11260 748280010467 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 748280010468 substrate binding pocket [chemical binding]; other site 748280010469 membrane-bound complex binding site; other site 748280010470 hinge residues; other site 748280010471 GTP-binding protein YchF; Reviewed; Region: PRK09601 748280010472 YchF GTPase; Region: YchF; cd01900 748280010473 G1 box; other site 748280010474 GTP/Mg2+ binding site [chemical binding]; other site 748280010475 Switch I region; other site 748280010476 G2 box; other site 748280010477 Switch II region; other site 748280010478 G3 box; other site 748280010479 G4 box; other site 748280010480 G5 box; other site 748280010481 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 748280010482 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 748280010483 putative active site [active] 748280010484 catalytic residue [active] 748280010485 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 748280010486 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 748280010487 5S rRNA interface [nucleotide binding]; other site 748280010488 CTC domain interface [polypeptide binding]; other site 748280010489 L16 interface [polypeptide binding]; other site 748280010490 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 748280010491 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 748280010492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280010493 active site 748280010494 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 748280010495 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 748280010496 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 748280010497 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 748280010498 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 748280010499 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 748280010500 binding surface 748280010501 TPR motif; other site 748280010502 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 748280010503 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 748280010504 DNA binding site [nucleotide binding] 748280010505 catalytic residue [active] 748280010506 H2TH interface [polypeptide binding]; other site 748280010507 putative catalytic residues [active] 748280010508 turnover-facilitating residue; other site 748280010509 intercalation triad [nucleotide binding]; other site 748280010510 8OG recognition residue [nucleotide binding]; other site 748280010511 putative reading head residues; other site 748280010512 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 748280010513 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 748280010514 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280010515 putative acyl-acceptor binding pocket; other site 748280010516 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 748280010517 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 748280010518 active site 748280010519 metal binding site [ion binding]; metal-binding site 748280010520 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 748280010521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010522 Family description; Region: UvrD_C_2; cl15862 748280010523 Protein required for attachment to host cells; Region: Host_attach; cl02398 748280010524 Ubiquitin-like proteins; Region: UBQ; cl00155 748280010525 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 748280010526 Protein of unknown function DUF82; Region: DUF82; pfam01927 748280010527 Cytochrome c; Region: Cytochrom_C; cl11414 748280010528 Cytochrome c; Region: Cytochrom_C; cl11414 748280010529 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 748280010530 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 748280010531 dimer interface [polypeptide binding]; other site 748280010532 phosphorylation site [posttranslational modification] 748280010533 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 748280010534 ATP binding site [chemical binding]; other site 748280010535 Mg2+ binding site [ion binding]; other site 748280010536 G-X-G motif; other site 748280010537 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280010538 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 748280010539 active site 748280010540 phosphorylation site [posttranslational modification] 748280010541 intermolecular recognition site; other site 748280010542 dimerization interface [polypeptide binding]; other site 748280010543 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 748280010544 DNA binding site [nucleotide binding] 748280010545 macrolide transporter subunit MacA; Provisional; Region: PRK11578 748280010546 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 748280010547 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 748280010548 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 748280010549 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 748280010550 Walker A/P-loop; other site 748280010551 ATP binding site [chemical binding]; other site 748280010552 Q-loop/lid; other site 748280010553 ABC transporter signature motif; other site 748280010554 Walker B; other site 748280010555 D-loop; other site 748280010556 H-loop/switch region; other site 748280010557 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280010558 FtsX-like permease family; Region: FtsX; cl15850 748280010559 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280010560 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 748280010561 Flagellar L-ring protein; Region: FlgH; cl00905 748280010562 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280010563 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 748280010564 active site 748280010565 phosphorylation site [posttranslational modification] 748280010566 intermolecular recognition site; other site 748280010567 dimerization interface [polypeptide binding]; other site 748280010568 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 748280010569 DNA binding site [nucleotide binding] 748280010570 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 748280010571 PAS fold; Region: PAS_3; pfam08447 748280010572 putative active site [active] 748280010573 heme pocket [chemical binding]; other site 748280010574 PAS fold; Region: PAS_4; pfam08448 748280010575 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 748280010576 putative active site [active] 748280010577 heme pocket [chemical binding]; other site 748280010578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280010579 metal binding site [ion binding]; metal-binding site 748280010580 active site 748280010581 I-site; other site 748280010582 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 748280010583 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 748280010584 nudix motif; other site 748280010585 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 748280010586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010587 Family description; Region: UvrD_C_2; cl15862 748280010588 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 748280010589 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 748280010590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010591 active site 748280010592 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 748280010593 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 748280010594 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 748280010595 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 748280010596 Peptidase family U32; Region: Peptidase_U32; cl03113 748280010597 Peptidase family U32; Region: Peptidase_U32; cl03113 748280010598 SCP-2 sterol transfer family; Region: SCP2; cl01225 748280010599 CHASE domain; Region: CHASE; cl01369 748280010600 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 748280010601 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 748280010602 putative active site [active] 748280010603 heme pocket [chemical binding]; other site 748280010604 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 748280010605 dimer interface [polypeptide binding]; other site 748280010606 phosphorylation site [posttranslational modification] 748280010607 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 748280010608 ATP binding site [chemical binding]; other site 748280010609 Mg2+ binding site [ion binding]; other site 748280010610 G-X-G motif; other site 748280010611 Response regulator receiver domain; Region: Response_reg; pfam00072 748280010612 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 748280010613 active site 748280010614 phosphorylation site [posttranslational modification] 748280010615 intermolecular recognition site; other site 748280010616 dimerization interface [polypeptide binding]; other site 748280010617 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280010618 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 748280010619 active site 748280010620 phosphorylation site [posttranslational modification] 748280010621 intermolecular recognition site; other site 748280010622 Response regulator receiver domain; Region: Response_reg; pfam00072 748280010623 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 748280010624 active site 748280010625 phosphorylation site [posttranslational modification] 748280010626 intermolecular recognition site; other site 748280010627 dimerization interface [polypeptide binding]; other site 748280010628 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 748280010629 active site 748280010630 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 748280010631 phosphorylation site [posttranslational modification] 748280010632 intermolecular recognition site; other site 748280010633 dimerization interface [polypeptide binding]; other site 748280010634 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 748280010635 putative active site [active] 748280010636 heme pocket [chemical binding]; other site 748280010637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280010638 metal binding site [ion binding]; metal-binding site 748280010639 active site 748280010640 I-site; other site 748280010641 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 748280010642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010643 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280010644 transcriptional regulator; Provisional; Region: PRK10632 748280010645 Helix-turn-helix domains; Region: HTH; cl00088 748280010646 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 748280010647 putative effector binding pocket; other site 748280010648 dimerization interface [polypeptide binding]; other site 748280010649 Protein of unknown function, DUF; Region: DUF411; cl01142 748280010650 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 748280010651 Class III ribonucleotide reductase; Region: RNR_III; cd01675 748280010652 effector binding site; other site 748280010653 active site 748280010654 Zn binding site [ion binding]; other site 748280010655 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 748280010656 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 748280010657 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 748280010658 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 748280010659 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 748280010660 FMN binding site [chemical binding]; other site 748280010661 substrate binding site [chemical binding]; other site 748280010662 putative catalytic residue [active] 748280010663 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280010664 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 748280010665 NAD(P) binding site [chemical binding]; other site 748280010666 catalytic residues [active] 748280010667 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280010668 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280010669 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 748280010670 N-terminal domain interface [polypeptide binding]; other site 748280010671 dimer interface [polypeptide binding]; other site 748280010672 substrate binding pocket (H-site) [chemical binding]; other site 748280010673 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280010674 FAD binding domain; Region: FAD_binding_4; pfam01565 748280010675 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 748280010676 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280010677 substrate binding pocket [chemical binding]; other site 748280010678 membrane-bound complex binding site; other site 748280010679 hinge residues; other site 748280010680 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280010681 active site 748280010682 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 748280010683 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 748280010684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280010685 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 748280010686 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 748280010687 DNA binding site [nucleotide binding] 748280010688 active site 748280010689 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 748280010690 LysE type translocator; Region: LysE; cl00565 748280010691 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 748280010692 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 748280010693 active site 748280010694 phosphorylation site [posttranslational modification] 748280010695 intermolecular recognition site; other site 748280010696 dimerization interface [polypeptide binding]; other site 748280010697 Helix-turn-helix domains; Region: HTH; cl00088 748280010698 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 748280010699 ATP binding site [chemical binding]; other site 748280010700 Mg2+ binding site [ion binding]; other site 748280010701 G-X-G motif; other site 748280010702 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280010703 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280010704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010705 Walker A/P-loop; other site 748280010706 ATP binding site [chemical binding]; other site 748280010707 Q-loop/lid; other site 748280010708 ABC transporter signature motif; other site 748280010709 Walker B; other site 748280010710 D-loop; other site 748280010711 H-loop/switch region; other site 748280010712 ApbE family; Region: ApbE; cl00643 748280010713 FMN-binding domain; Region: FMN_bind; cl01081 748280010714 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 748280010715 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 748280010716 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280010717 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280010718 Cytochrome c; Region: Cytochrom_C; cl11414 748280010719 NosL; Region: NosL; cl01769 748280010720 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280010721 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280010722 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 748280010723 Walker A/P-loop; other site 748280010724 ATP binding site [chemical binding]; other site 748280010725 Q-loop/lid; other site 748280010726 ABC transporter signature motif; other site 748280010727 Walker B; other site 748280010728 D-loop; other site 748280010729 H-loop/switch region; other site 748280010730 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 748280010731 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 748280010732 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 748280010733 nitrous-oxide reductase; Validated; Region: PRK02888 748280010734 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280010735 nitrous-oxide reductase; Validated; Region: PRK02888 748280010736 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280010737 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 748280010738 active site residue [active] 748280010739 sensor protein QseC; Provisional; Region: PRK10337 748280010740 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 748280010741 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 748280010742 dimer interface [polypeptide binding]; other site 748280010743 phosphorylation site [posttranslational modification] 748280010744 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 748280010745 ATP binding site [chemical binding]; other site 748280010746 Mg2+ binding site [ion binding]; other site 748280010747 G-X-G motif; other site 748280010748 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 748280010749 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 748280010750 active site 748280010751 phosphorylation site [posttranslational modification] 748280010752 intermolecular recognition site; other site 748280010753 dimerization interface [polypeptide binding]; other site 748280010754 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 748280010755 DNA binding site [nucleotide binding] 748280010756 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 748280010757 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 748280010758 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 748280010759 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 748280010760 putative active site [active] 748280010761 putative metal binding site [ion binding]; other site 748280010762 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280010763 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 748280010764 Pirin-related protein [General function prediction only]; Region: COG1741 748280010765 Cupin domain; Region: Cupin_2; cl09118 748280010766 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 748280010767 Pirin-related protein [General function prediction only]; Region: COG1741 748280010768 Cupin domain; Region: Cupin_2; cl09118 748280010769 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 748280010770 DoxX; Region: DoxX; cl00976 748280010771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280010772 Helix-turn-helix domains; Region: HTH; cl00088 748280010773 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 748280010774 dimerization interface [polypeptide binding]; other site 748280010775 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 748280010776 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 748280010777 FAD binding pocket [chemical binding]; other site 748280010778 FAD binding motif [chemical binding]; other site 748280010779 phosphate binding motif [ion binding]; other site 748280010780 beta-alpha-beta structure motif; other site 748280010781 NAD binding pocket [chemical binding]; other site 748280010782 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 748280010783 elongation factor G; Reviewed; Region: PRK12740 748280010784 G1 box; other site 748280010785 putative GEF interaction site [polypeptide binding]; other site 748280010786 GTP/Mg2+ binding site [chemical binding]; other site 748280010787 Switch I region; other site 748280010788 G2 box; other site 748280010789 G3 box; other site 748280010790 Switch II region; other site 748280010791 G4 box; other site 748280010792 G5 box; other site 748280010793 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 748280010794 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 748280010795 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 748280010796 Helix-turn-helix domains; Region: HTH; cl00088 748280010797 WYL domain; Region: WYL; cl14852 748280010798 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_11; cd07261 748280010799 putative dimer interface [polypeptide binding]; other site 748280010800 EVE domain; Region: EVE; cl00728 748280010801 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 748280010802 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 748280010803 tetramer interface [polypeptide binding]; other site 748280010804 active site 748280010805 Mg2+/Mn2+ binding site [ion binding]; other site 748280010806 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 748280010807 putative phosphate binding site [ion binding]; other site 748280010808 putative catalytic site [active] 748280010809 active site 748280010810 metal binding site A [ion binding]; metal-binding site 748280010811 DNA binding site [nucleotide binding] 748280010812 putative AP binding site [nucleotide binding]; other site 748280010813 putative metal binding site B [ion binding]; other site 748280010814 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 748280010815 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 748280010816 Sulfatase; Region: Sulfatase; cl10460 748280010817 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 748280010818 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 748280010819 active site 748280010820 Zn binding site [ion binding]; other site 748280010821 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 748280010822 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 748280010823 trimer interface [polypeptide binding]; other site 748280010824 putative metal binding site [ion binding]; other site 748280010825 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 748280010826 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 748280010827 structural tetrad; other site 748280010828 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 748280010829 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 748280010830 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280010831 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280010832 dimer interface [polypeptide binding]; other site 748280010833 putative CheW interface [polypeptide binding]; other site 748280010834 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 748280010835 dimer interface [polypeptide binding]; other site 748280010836 catalytic triad [active] 748280010837 peroxidatic and resolving cysteines [active] 748280010838 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 748280010839 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280010840 EamA-like transporter family; Region: EamA; cl01037 748280010841 EamA-like transporter family; Region: EamA; cl01037 748280010842 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 748280010843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010845 Walker A/P-loop; other site 748280010846 ATP binding site [chemical binding]; other site 748280010847 Q-loop/lid; other site 748280010848 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280010849 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 748280010850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280010851 ABC transporter signature motif; other site 748280010852 Walker B; other site 748280010853 D-loop; other site 748280010854 H-loop/switch region; other site 748280010855 GTPase CgtA; Reviewed; Region: obgE; PRK12299 748280010856 GTP1/OBG; Region: GTP1_OBG; pfam01018 748280010857 Obg GTPase; Region: Obg; cd01898 748280010858 G1 box; other site 748280010859 GTP/Mg2+ binding site [chemical binding]; other site 748280010860 Switch I region; other site 748280010861 G2 box; other site 748280010862 G3 box; other site 748280010863 Switch II region; other site 748280010864 G4 box; other site 748280010865 G5 box; other site 748280010866 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 748280010867 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 748280010868 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 748280010869 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 748280010870 substrate binding pocket [chemical binding]; other site 748280010871 chain length determination region; other site 748280010872 substrate-Mg2+ binding site; other site 748280010873 catalytic residues [active] 748280010874 aspartate-rich region 1; other site 748280010875 active site lid residues [active] 748280010876 aspartate-rich region 2; other site 748280010877 Flagellin N-methylase; Region: FliB; cl00497 748280010878 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 748280010879 Transglycosylase; Region: Transgly; cl07896 748280010880 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 748280010881 Competence protein A; Region: Competence_A; pfam11104 748280010882 Cell division protein FtsA; Region: FtsA; cl11496 748280010883 Cell division protein FtsA; Region: FtsA; cl11496 748280010884 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 748280010885 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 748280010886 Pilus assembly protein, PilO; Region: PilO; cl01234 748280010887 Pilus assembly protein, PilP; Region: PilP; cl01235 748280010888 AMIN domain; Region: AMIN; pfam11741 748280010889 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 748280010890 Secretin and TonB N terminus short domain; Region: STN; cl06624 748280010891 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 748280010892 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 748280010893 shikimate kinase; Reviewed; Region: aroK; PRK00131 748280010894 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 748280010895 ADP binding site [chemical binding]; other site 748280010896 magnesium binding site [ion binding]; other site 748280010897 putative shikimate binding site; other site 748280010898 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 748280010899 active site 748280010900 dimer interface [polypeptide binding]; other site 748280010901 metal binding site [ion binding]; metal-binding site 748280010902 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280010903 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 748280010904 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 748280010905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010906 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280010907 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 748280010908 putative active site [active] 748280010909 O-Antigen ligase; Region: Wzy_C; cl04850 748280010910 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280010911 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 748280010912 putative active site [active] 748280010913 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280010914 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 748280010915 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 748280010916 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280010917 putative active site [active] 748280010918 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 748280010919 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 748280010920 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 748280010921 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 748280010922 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 748280010923 Walker A/P-loop; other site 748280010924 ATP binding site [chemical binding]; other site 748280010925 Q-loop/lid; other site 748280010926 ABC transporter signature motif; other site 748280010927 Walker B; other site 748280010928 D-loop; other site 748280010929 H-loop/switch region; other site 748280010930 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280010931 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 748280010932 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280010933 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 748280010934 putative active site [active] 748280010935 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 748280010936 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 748280010937 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 748280010938 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; cl09155 748280010939 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 748280010940 dimerization domain swap beta strand [polypeptide binding]; other site 748280010941 regulatory protein interface [polypeptide binding]; other site 748280010942 active site 748280010943 regulatory phosphorylation site [posttranslational modification]; other site 748280010944 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 748280010945 active pocket/dimerization site; other site 748280010946 active site 748280010947 phosphorylation site [posttranslational modification] 748280010948 siroheme synthase; Provisional; Region: cysG; PRK10637 748280010949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010950 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 748280010951 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 748280010952 PAS fold; Region: PAS_3; pfam08447 748280010953 bacterio-opsin activator; Provisional; Region: PRK13558 748280010954 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; cl02459 748280010955 PAS fold; Region: PAS_4; pfam08448 748280010956 GAF domain; Region: GAF_2; pfam13185 748280010957 GAF domain; Region: GAF; cl15785 748280010958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280010959 metal binding site [ion binding]; metal-binding site 748280010960 active site 748280010961 I-site; other site 748280010962 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 748280010963 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 748280010964 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 748280010965 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280010966 muropeptide transporter; Validated; Region: ampG; PRK11010 748280010967 AmpG-related permease; Region: 2A0125; TIGR00901 748280010968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010969 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; cl12031 748280010970 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 748280010971 radical SAM protein, TIGR01212 family; Region: TIGR01212 748280010972 TMAO/DMSO reductase; Reviewed; Region: PRK05363 748280010973 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 748280010974 Moco binding site; other site 748280010975 metal coordination site [ion binding]; other site 748280010976 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 748280010977 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 748280010978 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 748280010979 putative dimer interface [polypeptide binding]; other site 748280010980 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 748280010981 putative deacylase active site [active] 748280010982 Cytochrome c; Region: Cytochrom_C; cl11414 748280010983 Cytochrome c; Region: Cytochrom_C; cl11414 748280010984 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 748280010985 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280010986 Iron permease FTR1 family; Region: FTR1; cl00475 748280010987 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280010988 Fe2+ transport protein; Region: Iron_transport; cl01377 748280010989 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 748280010990 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 748280010991 putative substrate translocation pore; other site 748280010992 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 748280010993 ArsC family; Region: ArsC; pfam03960 748280010994 catalytic residues [active] 748280010995 Helix-turn-helix domains; Region: HTH; cl00088 748280010996 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280010997 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280010998 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 748280010999 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 748280011000 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 748280011001 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280011002 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 748280011003 putative substrate translocation pore; other site 748280011004 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 748280011005 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 748280011006 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 748280011007 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 748280011008 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 748280011009 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 748280011010 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 748280011011 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 748280011012 Type II transport protein GspH; Region: GspH; pfam12019 748280011013 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 748280011014 DNA polymerase I; Provisional; Region: PRK05755 748280011015 active site 748280011016 putative 5' ssDNA interaction site; other site 748280011017 metal binding site 3; metal-binding site 748280011018 metal binding site 1 [ion binding]; metal-binding site 748280011019 metal binding site 2 [ion binding]; metal-binding site 748280011020 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 748280011021 putative DNA binding site [nucleotide binding]; other site 748280011022 putative metal binding site [ion binding]; other site 748280011023 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 748280011024 active site 748280011025 catalytic site [active] 748280011026 substrate binding site [chemical binding]; other site 748280011027 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 748280011028 active site 748280011029 DNA binding site [nucleotide binding] 748280011030 catalytic site [active] 748280011031 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 748280011032 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 748280011033 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 748280011034 Phosphotransferase enzyme family; Region: APH; pfam01636 748280011035 putative active site [active] 748280011036 putative substrate binding site [chemical binding]; other site 748280011037 ATP binding site [chemical binding]; other site 748280011038 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011039 Helix-turn-helix domains; Region: HTH; cl00088 748280011040 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011041 Helix-turn-helix domains; Region: HTH; cl00088 748280011042 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 748280011043 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 748280011044 homodimer interface [polypeptide binding]; other site 748280011045 substrate-cofactor binding pocket; other site 748280011046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011047 catalytic residue [active] 748280011048 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 748280011049 dimer interface [polypeptide binding]; other site 748280011050 conserved gate region; other site 748280011051 putative PBP binding loops; other site 748280011052 ABC-ATPase subunit interface; other site 748280011053 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280011054 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 748280011055 dimer interface [polypeptide binding]; other site 748280011056 conserved gate region; other site 748280011057 putative PBP binding loops; other site 748280011058 ABC-ATPase subunit interface; other site 748280011059 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280011060 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 748280011061 substrate binding pocket [chemical binding]; other site 748280011062 membrane-bound complex binding site; other site 748280011063 hinge residues; other site 748280011064 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 748280011065 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 748280011066 Walker A/P-loop; other site 748280011067 ATP binding site [chemical binding]; other site 748280011068 Q-loop/lid; other site 748280011069 ABC transporter signature motif; other site 748280011070 Walker B; other site 748280011071 D-loop; other site 748280011072 H-loop/switch region; other site 748280011073 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280011074 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 748280011075 NAD(P) binding site [chemical binding]; other site 748280011076 catalytic residues [active] 748280011077 homoserine dehydrogenase; Provisional; Region: PRK06270 748280011078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011079 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 748280011080 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 748280011081 Helix-turn-helix domains; Region: HTH; cl00088 748280011082 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 748280011083 putative dimerization interface [polypeptide binding]; other site 748280011084 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 748280011085 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 748280011086 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 748280011087 C-terminal domain interface [polypeptide binding]; other site 748280011088 GSH binding site (G-site) [chemical binding]; other site 748280011089 dimer interface [polypeptide binding]; other site 748280011090 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 748280011091 N-terminal domain interface [polypeptide binding]; other site 748280011092 putative dimer interface [polypeptide binding]; other site 748280011093 active site 748280011094 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 748280011095 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011096 Helix-turn-helix domains; Region: HTH; cl00088 748280011097 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 748280011098 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 748280011099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011100 homodimer interface [polypeptide binding]; other site 748280011101 catalytic residue [active] 748280011102 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 748280011103 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 748280011104 LysR family transcriptional regulator; Provisional; Region: PRK14997 748280011105 Helix-turn-helix domains; Region: HTH; cl00088 748280011106 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_4; cd08473 748280011107 putative effector binding pocket; other site 748280011108 putative dimerization interface [polypeptide binding]; other site 748280011109 EamA-like transporter family; Region: EamA; cl01037 748280011110 Cupin domain; Region: Cupin_2; cl09118 748280011111 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280011112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280011113 N-formylglutamate amidohydrolase; Region: FGase; cl01522 748280011114 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 748280011115 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 748280011116 active site 748280011117 HutD; Region: HutD; cl01532 748280011118 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 748280011119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280011120 DNA-binding site [nucleotide binding]; DNA binding site 748280011121 UTRA domain; Region: UTRA; cl01230 748280011122 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 748280011123 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 748280011124 putative substrate translocation pore; other site 748280011125 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 748280011126 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 748280011127 putative substrate translocation pore; other site 748280011128 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280011129 Helix-turn-helix domains; Region: HTH; cl00088 748280011130 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 748280011131 dimerization interface [polypeptide binding]; other site 748280011132 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 748280011133 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 748280011134 putative substrate translocation pore; other site 748280011135 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 748280011136 active site 748280011137 catalytic tetrad [active] 748280011138 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280011139 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 748280011140 non-specific DNA binding site [nucleotide binding]; other site 748280011141 salt bridge; other site 748280011142 sequence-specific DNA binding site [nucleotide binding]; other site 748280011143 Cupin domain; Region: Cupin_2; cl09118 748280011144 B3/4 domain; Region: B3_4; cl11458 748280011145 LysE type translocator; Region: LysE; cl00565 748280011146 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 748280011147 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 748280011148 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 748280011149 glutaminase active site [active] 748280011150 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 748280011151 dimer interface [polypeptide binding]; other site 748280011152 active site 748280011153 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 748280011154 dimer interface [polypeptide binding]; other site 748280011155 active site 748280011156 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 748280011157 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 748280011158 Substrate binding site; other site 748280011159 Mg++ binding site; other site 748280011160 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 748280011161 active site 748280011162 substrate binding site [chemical binding]; other site 748280011163 CoA binding site [chemical binding]; other site 748280011164 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 748280011165 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 748280011166 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 748280011167 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 748280011168 alpha subunit interaction interface [polypeptide binding]; other site 748280011169 Walker A motif; other site 748280011170 ATP binding site [chemical binding]; other site 748280011171 Walker B motif; other site 748280011172 inhibitor binding site; inhibition site 748280011173 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 748280011174 ATP synthase; Region: ATP-synt; cl00365 748280011175 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 748280011176 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 748280011177 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 748280011178 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 748280011179 beta subunit interaction interface [polypeptide binding]; other site 748280011180 Walker A motif; other site 748280011181 ATP binding site [chemical binding]; other site 748280011182 Walker B motif; other site 748280011183 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 748280011184 Plant ATP synthase F0; Region: YMF19; cl07975 748280011185 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 748280011186 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 748280011187 Plant ATP synthase F0; Region: YMF19; cl07975 748280011188 ATP synthase subunit C; Region: ATP-synt_C; cl00466 748280011189 ATP synthase A chain; Region: ATP-synt_A; cl00413 748280011190 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 748280011191 ParB-like nuclease domain; Region: ParBc; cl02129 748280011192 KorB domain; Region: KorB; pfam08535 748280011193 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 748280011194 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 748280011195 P-loop; other site 748280011196 Magnesium ion binding site [ion binding]; other site 748280011197 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 748280011198 Magnesium ion binding site [ion binding]; other site 748280011199 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; cl15754 748280011200 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 748280011201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011202 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 748280011203 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280011204 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 748280011205 homodimer interaction site [polypeptide binding]; other site 748280011206 cofactor binding site; other site 748280011207 Tim44-like domain; Region: Tim44; cl09208 748280011208 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 748280011209 BON domain; Region: BON; cl02771 748280011210 BON domain; Region: BON; cl02771 748280011211 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 748280011212 dimer interface [polypeptide binding]; other site 748280011213 active site 748280011214 Restriction endonuclease; Region: Mrr_cat; cl00516 748280011215 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 748280011216 putative ligand binding site [chemical binding]; other site 748280011217 Predicted methyltransferases [General function prediction only]; Region: COG0313 748280011218 YCII-related domain; Region: YCII; cl00999 748280011219 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280011220 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 748280011221 dimer interface [polypeptide binding]; other site 748280011222 MgtC family; Region: MgtC; pfam02308 748280011223 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 748280011224 active site 748280011225 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 748280011226 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 748280011227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011228 metal binding site [ion binding]; metal-binding site 748280011229 active site 748280011230 I-site; other site 748280011231 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 748280011232 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011233 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011234 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011235 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011236 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011237 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011238 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011239 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011240 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011241 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280011242 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 748280011243 DNA binding residues [nucleotide binding] 748280011244 dimerization interface [polypeptide binding]; other site 748280011245 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 748280011246 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 748280011247 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 748280011248 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 748280011249 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 748280011250 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 748280011251 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 748280011252 Walker A/P-loop; other site 748280011253 ATP binding site [chemical binding]; other site 748280011254 Q-loop/lid; other site 748280011255 ABC transporter signature motif; other site 748280011256 Walker B; other site 748280011257 D-loop; other site 748280011258 H-loop/switch region; other site 748280011259 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 748280011260 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 748280011261 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 748280011262 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 748280011263 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 748280011264 nucleotide binding site/active site [active] 748280011265 HIT family signature motif; other site 748280011266 catalytic residue [active] 748280011267 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 748280011268 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 748280011269 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 748280011270 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 748280011271 substrate binding site [chemical binding]; other site 748280011272 glutamase interaction surface [polypeptide binding]; other site 748280011273 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 748280011274 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 748280011275 catalytic residues [active] 748280011276 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 748280011277 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 748280011278 putative active site [active] 748280011279 oxyanion strand; other site 748280011280 catalytic triad [active] 748280011281 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 748280011282 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 748280011283 putative active site pocket [active] 748280011284 4-fold oligomerization interface [polypeptide binding]; other site 748280011285 metal binding residues [ion binding]; metal-binding site 748280011286 3-fold/trimer interface [polypeptide binding]; other site 748280011287 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 748280011288 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 748280011289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011290 homodimer interface [polypeptide binding]; other site 748280011291 catalytic residue [active] 748280011292 histidinol dehydrogenase; Region: hisD; TIGR00069 748280011293 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 748280011294 NAD binding site [chemical binding]; other site 748280011295 dimerization interface [polypeptide binding]; other site 748280011296 product binding site; other site 748280011297 substrate binding site [chemical binding]; other site 748280011298 zinc binding site [ion binding]; other site 748280011299 catalytic residues [active] 748280011300 ATP phosphoribosyltransferase; Region: HisG; cl15266 748280011301 Flagellar regulator YcgR; Region: YcgR; pfam07317 748280011302 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 748280011303 PilZ domain; Region: PilZ; cl01260 748280011304 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 748280011305 Cu(I) binding site [ion binding]; other site 748280011306 UbiA prenyltransferase family; Region: UbiA; cl00337 748280011307 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 748280011308 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 748280011309 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 748280011310 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 748280011311 Subunit III/VIIa interface [polypeptide binding]; other site 748280011312 Phospholipid binding site [chemical binding]; other site 748280011313 Subunit I/III interface [polypeptide binding]; other site 748280011314 Subunit III/VIb interface [polypeptide binding]; other site 748280011315 Subunit III/VIa interface; other site 748280011316 Subunit III/Vb interface [polypeptide binding]; other site 748280011317 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 748280011318 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 748280011319 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 748280011320 Subunit I/III interface [polypeptide binding]; other site 748280011321 D-pathway; other site 748280011322 Subunit I/VIIc interface [polypeptide binding]; other site 748280011323 Subunit I/IV interface [polypeptide binding]; other site 748280011324 Subunit I/II interface [polypeptide binding]; other site 748280011325 Low-spin heme (heme a) binding site [chemical binding]; other site 748280011326 Subunit I/VIIa interface [polypeptide binding]; other site 748280011327 Subunit I/VIa interface [polypeptide binding]; other site 748280011328 Dimer interface; other site 748280011329 Putative water exit pathway; other site 748280011330 Binuclear center (heme a3/CuB) [ion binding]; other site 748280011331 K-pathway; other site 748280011332 Subunit I/Vb interface [polypeptide binding]; other site 748280011333 Putative proton exit pathway; other site 748280011334 Subunit I/VIb interface; other site 748280011335 Subunit I/VIc interface [polypeptide binding]; other site 748280011336 Electron transfer pathway; other site 748280011337 Subunit I/VIIIb interface [polypeptide binding]; other site 748280011338 Subunit I/VIIb interface [polypeptide binding]; other site 748280011339 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 748280011340 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 748280011341 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 748280011342 Cytochrome c; Region: Cytochrom_C; cl11414 748280011343 AAA domain; Region: AAA_26; pfam13500 748280011344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280011345 2-isopropylmalate synthase; Validated; Region: PRK00915 748280011346 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 748280011347 active site 748280011348 catalytic residues [active] 748280011349 metal binding site [ion binding]; metal-binding site 748280011350 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 748280011351 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 748280011352 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 748280011353 ketol-acid reductoisomerase; Provisional; Region: PRK05479 748280011354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011355 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 748280011356 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 748280011357 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 748280011358 putative valine binding site [chemical binding]; other site 748280011359 dimer interface [polypeptide binding]; other site 748280011360 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 748280011361 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 748280011362 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280011363 PYR/PP interface [polypeptide binding]; other site 748280011364 dimer interface [polypeptide binding]; other site 748280011365 TPP binding site [chemical binding]; other site 748280011366 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 748280011367 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 748280011368 TPP-binding site [chemical binding]; other site 748280011369 dimer interface [polypeptide binding]; other site 748280011370 RDD family; Region: RDD; cl00746 748280011371 guanine deaminase; Provisional; Region: PRK09228 748280011372 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 748280011373 active site 748280011374 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 catalyze...; Region: LT_GEWL; cd00254 748280011375 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280011376 catalytic residue [active] 748280011377 prolyl-tRNA synthetase; Provisional; Region: PRK09194 748280011378 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 formation of...; Region: ProRS_core_prok; cd00779 748280011379 dimer interface [polypeptide binding]; other site 748280011380 motif 1; other site 748280011381 active site 748280011382 motif 2; other site 748280011383 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 748280011384 putative deacylase active site [active] 748280011385 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 attaches...; Region: class_II_aaRS-like_core; cl00268 748280011386 active site 748280011387 motif 3; other site 748280011388 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 748280011389 anticodon binding site; other site 748280011390 K+ potassium transporter; Region: K_trans; cl15781 748280011391 potassium uptake protein; Region: kup; TIGR00794 748280011392 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280011393 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 748280011394 substrate binding site [chemical binding]; other site 748280011395 amidase catalytic site [active] 748280011396 Zn binding residues [ion binding]; other site 748280011397 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 748280011398 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 748280011399 putative active site [active] 748280011400 transaldolase; Provisional; Region: PRK03903 748280011401 catalytic residue [active] 748280011402 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 748280011403 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; cl02459 748280011404 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 748280011405 dimer interface [polypeptide binding]; other site 748280011406 phosphorylation site [posttranslational modification] 748280011407 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 748280011408 ATP binding site [chemical binding]; other site 748280011409 Mg2+ binding site [ion binding]; other site 748280011410 G-X-G motif; other site 748280011411 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 748280011412 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 748280011413 active site 748280011414 phosphorylation site [posttranslational modification] 748280011415 intermolecular recognition site; other site 748280011416 dimerization interface [polypeptide binding]; other site 748280011417 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 748280011418 DNA binding site [nucleotide binding] 748280011419 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011420 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 748280011421 putative DNA binding site [nucleotide binding]; other site 748280011422 putative Zn2+ binding site [ion binding]; other site 748280011423 Helix-turn-helix domains; Region: HTH; cl00088 748280011424 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 748280011425 EamA-like transporter family; Region: EamA; cl01037 748280011426 EamA-like transporter family; Region: EamA; cl01037 748280011427 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280011428 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 748280011429 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 748280011430 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280011431 substrate binding pocket [chemical binding]; other site 748280011432 membrane-bound complex binding site; other site 748280011433 hinge residues; other site 748280011434 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 748280011435 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 748280011436 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280011437 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 748280011438 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 748280011439 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 748280011440 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 748280011441 purine monophosphate binding site [chemical binding]; other site 748280011442 dimer interface [polypeptide binding]; other site 748280011443 putative catalytic residues [active] 748280011444 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 748280011445 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 748280011446 Helix-turn-helix domains; Region: HTH; cl00088 748280011447 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 748280011448 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 748280011449 FMN binding site [chemical binding]; other site 748280011450 active site 748280011451 catalytic residues [active] 748280011452 substrate binding site [chemical binding]; other site 748280011453 Cache domain; Region: Cache_2; cl07034 748280011454 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 748280011455 PAS domain; Region: PAS_9; pfam13426 748280011456 putative active site [active] 748280011457 heme pocket [chemical binding]; other site 748280011458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011459 metal binding site [ion binding]; metal-binding site 748280011460 active site 748280011461 I-site; other site 748280011462 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 748280011463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 748280011464 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 748280011465 Family of unknown function (DUF490); Region: DUF490; pfam04357 748280011466 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 748280011467 Surface antigen; Region: Bac_surface_Ag; cl03097 748280011468 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 748280011469 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 748280011470 E3 interaction surface; other site 748280011471 lipoyl attachment site [posttranslational modification]; other site 748280011472 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 748280011473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011474 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280011475 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 748280011476 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 748280011477 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 748280011478 E3 interaction surface; other site 748280011479 lipoyl attachment site [posttranslational modification]; other site 748280011480 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 748280011481 E3 interaction surface; other site 748280011482 lipoyl attachment site [posttranslational modification]; other site 748280011483 e3 binding domain; Region: E3_binding; pfam02817 748280011484 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 748280011485 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 748280011486 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 748280011487 dimer interface [polypeptide binding]; other site 748280011488 TPP-binding site [chemical binding]; other site 748280011489 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 748280011490 Peptidase family M48; Region: Peptidase_M48; cl12018 748280011491 Sulfate transporter family; Region: Sulfate_transp; cl15842 748280011492 Sulfate transporter family; Region: Sulfate_transp; cl15842 748280011493 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 748280011494 Predicted transporter component [General function prediction only]; Region: COG2391 748280011495 Sulphur transport; Region: Sulf_transp; cl01018 748280011496 Predicted transporter component [General function prediction only]; Region: COG2391 748280011497 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 748280011498 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 748280011499 dimerization interface [polypeptide binding]; other site 748280011500 putative DNA binding site [nucleotide binding]; other site 748280011501 putative Zn2+ binding site [ion binding]; other site 748280011502 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 748280011503 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280011504 Helix-turn-helix domains; Region: HTH; cl00088 748280011505 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 748280011506 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 748280011507 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 748280011508 LamB/YcsF family; Region: LamB_YcsF; cl00664 748280011509 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 748280011510 benzoate transport; Region: 2A0115; TIGR00895 748280011511 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 748280011512 putative substrate translocation pore; other site 748280011513 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 748280011514 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 748280011515 carboxyltransferase (CT) interaction site; other site 748280011516 biotinylation site [posttranslational modification]; other site 748280011517 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 748280011518 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280011519 ATP-grasp domain; Region: ATP-grasp_4; cl03087 748280011520 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 748280011521 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 748280011522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280011523 Coenzyme A binding pocket [chemical binding]; other site 748280011524 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_cladeD; cd03379 748280011525 active site clefts [active] 748280011526 zinc binding site [ion binding]; other site 748280011527 dimer interface [polypeptide binding]; other site 748280011528 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 748280011529 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 748280011530 active site 748280011531 (T/H)XGH motif; other site 748280011532 Oligomerisation domain; Region: Oligomerisation; cl00519 748280011533 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 748280011534 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 748280011535 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 748280011536 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 748280011537 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 catalyze...; Region: LT_GEWL; cd00254 748280011538 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280011539 catalytic residue [active] 748280011540 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 748280011541 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 748280011542 Lipopolysaccharide-assembly; Region: LptE; cl01125 748280011543 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 748280011544 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 748280011545 HIGH motif; other site 748280011546 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 748280011547 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280011548 active site 748280011549 KMSKS motif; other site 748280011550 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 748280011551 tRNA binding surface [nucleotide binding]; other site 748280011552 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 748280011553 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; cl12031 748280011554 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; cl12031 748280011555 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 748280011556 EVE domain; Region: EVE; cl00728 748280011557 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 748280011558 Cell division protein ZapA; Region: ZapA; cl01146 748280011559 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 748280011560 homotrimer interface [polypeptide binding]; other site 748280011561 Walker A motif; other site 748280011562 GTP binding site [chemical binding]; other site 748280011563 Walker B motif; other site 748280011564 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 748280011565 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 748280011566 putative dimer interface [polypeptide binding]; other site 748280011567 active site pocket [active] 748280011568 putative cataytic base [active] 748280011569 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 748280011570 catalytic core [active] 748280011571 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 748280011572 Arginase family; Region: Arginase; cl00306 748280011573 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 748280011574 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 748280011575 Sporulation related domain; Region: SPOR; cl10051 748280011576 Type III pantothenate kinase; Region: Pan_kinase; cl09130 748280011577 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 748280011578 Helix-turn-helix domains; Region: HTH; cl00088 748280011579 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 748280011580 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 748280011581 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280011582 active site 748280011583 HIGH motif; other site 748280011584 nucleotide binding site [chemical binding]; other site 748280011585 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 748280011586 heterotetramer interface [polypeptide binding]; other site 748280011587 active site pocket [active] 748280011588 cleavage site 748280011589 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 748280011590 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 748280011591 ATP binding site [chemical binding]; other site 748280011592 putative Mg++ binding site [ion binding]; other site 748280011593 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 748280011594 nucleotide binding region [chemical binding]; other site 748280011595 ATP-binding site [chemical binding]; other site 748280011596 RQC domain; Region: RQC; cl09632 748280011597 HRDC domain; Region: HRDC; cl02578 748280011598 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 748280011599 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 748280011600 P-loop; other site 748280011601 Magnesium ion binding site [ion binding]; other site 748280011602 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 748280011603 Magnesium ion binding site [ion binding]; other site 748280011604 PAS domain S-box; Region: sensory_box; TIGR00229 748280011605 PAS domain; Region: PAS_9; pfam13426 748280011606 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 748280011607 putative active site [active] 748280011608 heme pocket [chemical binding]; other site 748280011609 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 748280011610 dimer interface [polypeptide binding]; other site 748280011611 phosphorylation site [posttranslational modification] 748280011612 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 748280011613 ATP binding site [chemical binding]; other site 748280011614 Mg2+ binding site [ion binding]; other site 748280011615 G-X-G motif; other site 748280011616 Response regulator receiver domain; Region: Response_reg; pfam00072 748280011617 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 748280011618 active site 748280011619 phosphorylation site [posttranslational modification] 748280011620 intermolecular recognition site; other site 748280011621 dimerization interface [polypeptide binding]; other site 748280011622 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 748280011623 ComEC family competence protein; Provisional; Region: PRK11539 748280011624 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 748280011625 Competence protein; Region: Competence; cl00471 748280011626 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 748280011627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011628 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 748280011629 active site 748280011630 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; cl11420 748280011631 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 748280011632 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 748280011633 Helix-turn-helix domains; Region: HTH; cl00088 748280011634 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 748280011635 substrate binding pocket [chemical binding]; other site 748280011636 dimerization interface [polypeptide binding]; other site 748280011637 SlyX; Region: SlyX; cl01090 748280011638 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 748280011639 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 748280011640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011641 homodimer interface [polypeptide binding]; other site 748280011642 catalytic residue [active] 748280011643 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 748280011644 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 748280011645 trimer interface [polypeptide binding]; other site 748280011646 active site 748280011647 substrate binding site [chemical binding]; other site 748280011648 CoA binding site [chemical binding]; other site 748280011649 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 748280011650 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 748280011651 Walker A/P-loop; other site 748280011652 ATP binding site [chemical binding]; other site 748280011653 Q-loop/lid; other site 748280011654 ABC transporter signature motif; other site 748280011655 Walker B; other site 748280011656 D-loop; other site 748280011657 H-loop/switch region; other site 748280011658 Permease; Region: Permease; cl00510 748280011659 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 748280011660 mce related protein; Region: MCE; pfam02470 748280011661 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 748280011662 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 748280011663 VacJ like lipoprotein; Region: VacJ; cl01073 748280011664 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 748280011665 Helix-turn-helix domains; Region: HTH; cl00088 748280011666 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 748280011667 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280011668 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 748280011669 Walker A/P-loop; other site 748280011670 ATP binding site [chemical binding]; other site 748280011671 Q-loop/lid; other site 748280011672 ABC transporter signature motif; other site 748280011673 Walker B; other site 748280011674 D-loop; other site 748280011675 H-loop/switch region; other site 748280011676 ABC-2 type transporter; Region: ABC2_membrane; cl11417 748280011677 BolA-like protein; Region: BolA; cl00386 748280011678 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 748280011679 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 748280011680 hinge; other site 748280011681 active site 748280011682 potential protein location (hypothetical protein NH8B_3958 [Pseudogulbenkiania sp. NH8B]) that overlaps RNA (5S ribosomal RNA) 748280011683 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 748280011684 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 748280011685 Walker A motif; other site 748280011686 ATP binding site [chemical binding]; other site 748280011687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280011688 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 748280011689 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 748280011690 active site 748280011691 HslU subunit interaction site [polypeptide binding]; other site 748280011692 Protein of unknown function (DUF465); Region: DUF465; cl01070 748280011693 Gram-negative bacterial tonB protein; Region: TonB; cl10048 748280011694 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280011695 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 748280011696 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 748280011697 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 748280011698 N-terminal plug; other site 748280011699 ligand-binding site [chemical binding]; other site 748280011700 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 748280011701 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 748280011702 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 748280011703 PAS domain; Region: PAS_9; pfam13426 748280011704 putative active site [active] 748280011705 heme pocket [chemical binding]; other site 748280011706 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280011707 dimer interface [polypeptide binding]; other site 748280011708 putative CheW interface [polypeptide binding]; other site 748280011709 Cache domain; Region: Cache_2; cl07034 748280011710 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 748280011711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280011712 dimer interface [polypeptide binding]; other site 748280011713 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280011714 putative CheW interface [polypeptide binding]; other site 748280011715 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; cl02459 748280011716 PAS domain; Region: PAS_9; pfam13426 748280011717 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 748280011718 PAS domain; Region: PAS_9; pfam13426 748280011719 putative active site [active] 748280011720 heme pocket [chemical binding]; other site 748280011721 PAS fold; Region: PAS_7; pfam12860 748280011722 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 748280011723 dimer interface [polypeptide binding]; other site 748280011724 phosphorylation site [posttranslational modification] 748280011725 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 748280011726 ATP binding site [chemical binding]; other site 748280011727 Mg2+ binding site [ion binding]; other site 748280011728 G-X-G motif; other site 748280011729 Response regulator receiver domain; Region: Response_reg; pfam00072 748280011730 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 748280011731 active site 748280011732 phosphorylation site [posttranslational modification] 748280011733 intermolecular recognition site; other site 748280011734 dimerization interface [polypeptide binding]; other site 748280011735 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 748280011736 putative binding surface; other site 748280011737 active site 748280011738 Response regulator receiver domain; Region: Response_reg; pfam00072 748280011739 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 748280011740 active site 748280011741 phosphorylation site [posttranslational modification] 748280011742 intermolecular recognition site; other site 748280011743 dimerization interface [polypeptide binding]; other site 748280011744 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280011745 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 748280011746 active site 748280011747 phosphorylation site [posttranslational modification] 748280011748 intermolecular recognition site; other site 748280011749 dimerization interface [polypeptide binding]; other site 748280011750 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 748280011751 Walker A motif; other site 748280011752 ATP binding site [chemical binding]; other site 748280011753 Walker B motif; other site 748280011754 arginine finger; other site 748280011755 Helix-turn-helix domains; Region: HTH; cl00088 748280011756 sensory histidine kinase AtoS; Provisional; Region: PRK11360 748280011757 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 748280011758 dimer interface [polypeptide binding]; other site 748280011759 phosphorylation site [posttranslational modification] 748280011760 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 748280011761 ATP binding site [chemical binding]; other site 748280011762 Mg2+ binding site [ion binding]; other site 748280011763 G-X-G motif; other site 748280011764 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 748280011765 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 in DNA...; Region: TOP4c; cd00187 748280011766 CAP-like domain; other site 748280011767 active site 748280011768 primary dimer interface [polypeptide binding]; other site 748280011769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280011770 Coenzyme A binding pocket [chemical binding]; other site 748280011771 putative acetyltransferase; Provisional; Region: PRK03624 748280011772 transketolase; Reviewed; Region: PRK12753 748280011773 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 748280011774 TPP-binding site [chemical binding]; other site 748280011775 dimer interface [polypeptide binding]; other site 748280011776 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 748280011777 PYR/PP interface [polypeptide binding]; other site 748280011778 dimer interface [polypeptide binding]; other site 748280011779 TPP binding site [chemical binding]; other site 748280011780 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280011781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011782 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 748280011783 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 748280011784 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; cl00198 748280011785 Phosphoglycerate kinase; Region: PGK; pfam00162 748280011786 substrate binding site [chemical binding]; other site 748280011787 hinge regions; other site 748280011788 ADP binding site [chemical binding]; other site 748280011789 catalytic site [active] 748280011790 LysE type translocator; Region: LysE; cl00565 748280011791 hypothetical protein; Provisional; Region: PRK08185 748280011792 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 748280011793 intersubunit interface [polypeptide binding]; other site 748280011794 active site 748280011795 zinc binding site [ion binding]; other site 748280011796 Na+ binding site [ion binding]; other site 748280011797 PAS domain; Region: PAS_9; pfam13426 748280011798 sensory histidine kinase CreC; Provisional; Region: PRK11100 748280011799 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280011800 active site 748280011801 substrate binding site [chemical binding]; other site 748280011802 catalytic site [active] 748280011803 Response regulator receiver domain; Region: Response_reg; pfam00072 748280011804 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 748280011805 active site 748280011806 phosphorylation site [posttranslational modification] 748280011807 intermolecular recognition site; other site 748280011808 dimerization interface [polypeptide binding]; other site 748280011809 Sodium:solute symporter family; Region: SSF; cl00456 748280011810 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 748280011811 dimer interface [polypeptide binding]; other site 748280011812 phosphorylation site [posttranslational modification] 748280011813 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 748280011814 ATP binding site [chemical binding]; other site 748280011815 Mg2+ binding site [ion binding]; other site 748280011816 G-X-G motif; other site 748280011817 HPP family; Region: HPP; pfam04982 748280011818 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 748280011819 FOG: CBS domain [General function prediction only]; Region: COG0517 748280011820 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 748280011821 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 748280011822 MoaE interaction surface [polypeptide binding]; other site 748280011823 MoeB interaction surface [polypeptide binding]; other site 748280011824 thiocarboxylated glycine; other site 748280011825 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 748280011826 MoaE homodimer interface [polypeptide binding]; other site 748280011827 MoaD interaction [polypeptide binding]; other site 748280011828 active site residues [active] 748280011829 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 748280011830 GTP binding site; other site 748280011831 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 748280011832 NeuB family; Region: NeuB; cl00496 748280011833 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 748280011834 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 748280011835 Cytochrome c; Region: Cytochrom_C; cl11414 748280011836 YGGT family; Region: YGGT; cl00508 748280011837 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 748280011838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011839 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 748280011840 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280011841 catalytic residue [active] 748280011842 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 748280011843 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 748280011844 Walker A motif; other site 748280011845 ATP binding site [chemical binding]; other site 748280011846 Walker B motif; other site 748280011847 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 748280011848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 748280011849 Walker A motif; other site 748280011850 ATP binding site [chemical binding]; other site 748280011851 Walker B motif; other site 748280011852 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280011853 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 748280011854 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 748280011855 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 748280011856 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 748280011857 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 748280011858 Walker A/P-loop; other site 748280011859 ATP binding site [chemical binding]; other site 748280011860 Q-loop/lid; other site 748280011861 ABC transporter signature motif; other site 748280011862 Walker B; other site 748280011863 D-loop; other site 748280011864 H-loop/switch region; other site 748280011865 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 748280011866 dimer interface [polypeptide binding]; other site 748280011867 conserved gate region; other site 748280011868 putative PBP binding loops; other site 748280011869 ABC-ATPase subunit interface; other site 748280011870 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280011871 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 748280011872 dimer interface [polypeptide binding]; other site 748280011873 conserved gate region; other site 748280011874 putative PBP binding loops; other site 748280011875 ABC-ATPase subunit interface; other site 748280011876 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 748280011877 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 748280011878 substrate binding pocket [chemical binding]; other site 748280011879 membrane-bound complex binding site; other site 748280011880 hinge residues; other site 748280011881 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 748280011882 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 748280011883 Walker A/P-loop; other site 748280011884 ATP binding site [chemical binding]; other site 748280011885 Q-loop/lid; other site 748280011886 ABC transporter signature motif; other site 748280011887 Walker B; other site 748280011888 D-loop; other site 748280011889 H-loop/switch region; other site 748280011890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280011891 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 748280011892 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 in...; Region: Frataxin; cd00503 748280011893 putative iron binding site [ion binding]; other site 748280011894 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 748280011895 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 748280011896 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280011897 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 748280011898 catalytic residue [active] 748280011899 Cupin domain; Region: Cupin_2; cl09118 748280011900 Cache domain; Region: Cache_1; pfam02743 748280011901 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011902 metal binding site [ion binding]; metal-binding site 748280011903 active site 748280011904 I-site; other site 748280011905 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 748280011906 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 748280011907 ATP binding site [chemical binding]; other site 748280011908 putative Mg++ binding site [ion binding]; other site 748280011909 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 748280011910 nucleotide binding region [chemical binding]; other site 748280011911 ATP-binding site [chemical binding]; other site 748280011912 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 748280011913 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 748280011914 inhibitor-cofactor binding pocket; inhibition site 748280011915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011916 catalytic residue [active] 748280011917 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 748280011918 putative active site [active] 748280011919 putative metal binding residues [ion binding]; other site 748280011920 signature motif; other site 748280011921 putative dimer interface [polypeptide binding]; other site 748280011922 putative phosphate binding site [ion binding]; other site 748280011923 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 748280011924 Protein of unknown function (DUF419); Region: DUF419; cl15265 748280011925 Peptidase family M48; Region: Peptidase_M48; cl12018 748280011926 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 748280011927 Rubredoxin; Region: Rubredoxin; pfam00301 748280011928 iron binding site [ion binding]; other site 748280011929 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 748280011930 substrate binding site [chemical binding]; other site 748280011931 dimer interface [polypeptide binding]; other site 748280011932 ATP binding site [chemical binding]; other site 748280011933 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 748280011934 thiamine phosphate binding site [chemical binding]; other site 748280011935 active site 748280011936 pyrophosphate binding site [ion binding]; other site 748280011937 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 748280011938 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 748280011939 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 748280011940 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 748280011941 putative active site [active] 748280011942 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 748280011943 putative metal binding site; other site 748280011944 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 748280011945 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 748280011946 putative NAD(P) binding site [chemical binding]; other site 748280011947 active site 748280011948 putative substrate binding site [chemical binding]; other site 748280011949 YdjC-like protein; Region: YdjC; cl01344 748280011950 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 748280011951 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; cl09108 748280011952 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 748280011953 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280011954 catalytic residue [active] 748280011955 Protein of unknown function (DUF989); Region: DUF989; pfam06181 748280011956 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 748280011957 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 748280011958 FeS/SAM binding site; other site 748280011959 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 748280011960 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280011961 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 748280011962 active site 748280011963 phosphorylation site [posttranslational modification] 748280011964 intermolecular recognition site; other site 748280011965 dimerization interface [polypeptide binding]; other site 748280011966 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 748280011967 DNA binding residues [nucleotide binding] 748280011968 dimerization interface [polypeptide binding]; other site 748280011969 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 748280011970 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 748280011971 S-adenosylmethionine binding site [chemical binding]; other site 748280011972 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 748280011973 Domain of unknown function DUF21; Region: DUF21; pfam01595 748280011974 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 748280011975 Transporter associated domain; Region: CorC_HlyC; cl08393 748280011976 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 748280011977 ligand binding site [chemical binding]; other site 748280011978 active site 748280011979 UGI interface [polypeptide binding]; other site 748280011980 catalytic site [active] 748280011981 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 748280011982 active site residue [active] 748280011983 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 748280011984 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 748280011985 S-adenosylmethionine binding site [chemical binding]; other site 748280011986 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 748280011987 ThiC-associated domain; Region: ThiC-associated; pfam13667 748280011988 ThiC family; Region: ThiC; cl08031 748280011989 Helix-turn-helix domains; Region: HTH; cl00088 748280011990 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 748280011991 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280011992 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 748280011993 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 748280011994 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 748280011995 Peptidase family U32; Region: Peptidase_U32; cl03113 748280011996 Collagenase; Region: DUF3656; pfam12392 748280011997 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 748280011998 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 748280011999 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 748280012000 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 748280012001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280012002 Zn2+ binding site [ion binding]; other site 748280012003 Mg2+ binding site [ion binding]; other site 748280012004 Cache domain; Region: Cache_1; pfam02743 748280012005 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 748280012006 dimerization interface [polypeptide binding]; other site 748280012007 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280012008 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280012009 dimer interface [polypeptide binding]; other site 748280012010 putative CheW interface [polypeptide binding]; other site 748280012011 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 748280012012 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 748280012013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280012014 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 748280012015 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 748280012016 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 748280012017 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280012018 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280012019 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 748280012020 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 748280012021 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 748280012022 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 748280012023 dimer interface [polypeptide binding]; other site 748280012024 PYR/PP interface [polypeptide binding]; other site 748280012025 TPP binding site [chemical binding]; other site 748280012026 substrate binding site [chemical binding]; other site 748280012027 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 748280012028 TPP-binding site [chemical binding]; other site 748280012029 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 748280012030 Predicted permeases [General function prediction only]; Region: RarD; COG2962 748280012031 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 748280012032 active site 748280012033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 748280012034 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 748280012035 CHASE domain; Region: CHASE; cl01369 748280012036 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 748280012037 PAS domain; Region: PAS_9; pfam13426 748280012038 putative active site [active] 748280012039 heme pocket [chemical binding]; other site 748280012040 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 748280012041 PAS domain; Region: PAS_9; pfam13426 748280012042 putative active site [active] 748280012043 heme pocket [chemical binding]; other site 748280012044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280012045 metal binding site [ion binding]; metal-binding site 748280012046 active site 748280012047 I-site; other site 748280012048 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 748280012049 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 748280012050 DXD motif; other site 748280012051 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 748280012052 active site 748280012053 phosphate binding residues; other site 748280012054 catalytic residues [active] 748280012055 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 748280012056 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 748280012057 Walker A/P-loop; other site 748280012058 ATP binding site [chemical binding]; other site 748280012059 Q-loop/lid; other site 748280012060 ABC transporter signature motif; other site 748280012061 Walker B; other site 748280012062 D-loop; other site 748280012063 H-loop/switch region; other site 748280012064 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280012065 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 748280012066 dimer interface [polypeptide binding]; other site 748280012067 conserved gate region; other site 748280012068 putative PBP binding loops; other site 748280012069 ABC-ATPase subunit interface; other site 748280012070 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280012071 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 748280012072 dimer interface [polypeptide binding]; other site 748280012073 conserved gate region; other site 748280012074 putative PBP binding loops; other site 748280012075 ABC-ATPase subunit interface; other site 748280012076 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 748280012077 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 748280012078 substrate binding pocket [chemical binding]; other site 748280012079 membrane-bound complex binding site; other site 748280012080 hinge residues; other site 748280012081 imidazolonepropionase; Validated; Region: PRK09356 748280012082 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 748280012083 active site 748280012084 urocanate hydratase; Provisional; Region: PRK05414 748280012085 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 748280012086 active sites [active] 748280012087 tetramer interface [polypeptide binding]; other site 748280012088 Transcriptional regulators [Transcription]; Region: PurR; COG1609 748280012089 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 748280012090 DNA binding site [nucleotide binding] 748280012091 domain linker motif; other site 748280012092 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 748280012093 putative dimerization interface [polypeptide binding]; other site 748280012094 putative ligand binding site [chemical binding]; other site 748280012095 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280012096 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 748280012097 substrate binding site [chemical binding]; other site 748280012098 ATP binding site [chemical binding]; other site 748280012099 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 748280012100 D-galactonate transporter; Region: 2A0114; TIGR00893 748280012101 putative substrate translocation pore; other site 748280012102 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 748280012103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280012104 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 748280012105 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 748280012106 Transglycosylase; Region: Transgly; cl07896 748280012107 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 748280012108 trimer interface [polypeptide binding]; other site 748280012109 eyelet of channel; other site 748280012110 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 748280012111 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 748280012112 Walker A/P-loop; other site 748280012113 ATP binding site [chemical binding]; other site 748280012114 Q-loop/lid; other site 748280012115 ABC transporter signature motif; other site 748280012116 Walker B; other site 748280012117 D-loop; other site 748280012118 H-loop/switch region; other site 748280012119 TOBE domain; Region: TOBE_2; cl01440 748280012120 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 748280012121 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 748280012122 active site 748280012123 catalytic site [active] 748280012124 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 748280012125 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 748280012126 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 748280012127 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 748280012128 dimer interface [polypeptide binding]; other site 748280012129 conserved gate region; other site 748280012130 putative PBP binding loops; other site 748280012131 ABC-ATPase subunit interface; other site 748280012132 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 748280012133 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 748280012134 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 748280012135 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; cl02459 748280012136 PAS fold; Region: PAS_7; pfam12860 748280012137 histidine kinase; Provisional; Region: PRK13557 748280012138 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 748280012139 ATP binding site [chemical binding]; other site 748280012140 G-X-G motif; other site 748280012141 osmolarity response regulator; Provisional; Region: ompR; PRK09468 748280012142 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 748280012143 active site 748280012144 phosphorylation site [posttranslational modification] 748280012145 intermolecular recognition site; other site 748280012146 dimerization interface [polypeptide binding]; other site 748280012147 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 748280012148 DNA binding site [nucleotide binding] 748280012149 Predicted dehydrogenase [General function prediction only]; Region: COG0579 748280012150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280012151 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 748280012152 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280012153 DNA-binding site [nucleotide binding]; DNA binding site 748280012154 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 748280012155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280012156 homodimer interface [polypeptide binding]; other site 748280012157 catalytic residue [active] 748280012158 Benzoate membrane transport protein; Region: BenE; pfam03594 748280012159 benzoate transporter; Region: benE; TIGR00843 748280012160 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280012161 Helix-turn-helix domains; Region: HTH; cl00088 748280012162 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 748280012163 dimerization interface [polypeptide binding]; other site 748280012164 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280012165 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280012166 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 748280012167 dimerization interface [polypeptide binding]; other site 748280012168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280012169 dimer interface [polypeptide binding]; other site 748280012170 putative CheW interface [polypeptide binding]; other site 748280012171 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 748280012172 proline aminopeptidase P II; Provisional; Region: PRK10879 748280012173 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 748280012174 active site 748280012175 Mechanosensitive ion channel; Region: MS_channel; pfam00924 748280012176 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 748280012177 NodB motif; other site 748280012178 putative active site [active] 748280012179 putative catalytic site [active] 748280012180 putative Zn binding site [ion binding]; other site 748280012181 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 748280012182 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 748280012183 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 748280012184 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 748280012185 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 748280012186 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 748280012187 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 748280012188 putative ADP-binding pocket [chemical binding]; other site 748280012189 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 748280012190 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 748280012191 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 748280012192 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 748280012193 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 748280012194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280012195 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 748280012196 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280012197 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 748280012198 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 748280012199 putative active site [active] 748280012200 catalytic site [active] 748280012201 putative metal binding site [ion binding]; other site 748280012202 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 748280012203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280012204 PAS domain S-box; Region: sensory_box; TIGR00229 748280012205 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; cl02459 748280012206 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 748280012207 PAS domain; Region: PAS_9; pfam13426 748280012208 putative active site [active] 748280012209 heme pocket [chemical binding]; other site 748280012210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280012211 metal binding site [ion binding]; metal-binding site 748280012212 active site 748280012213 I-site; other site 748280012214 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 748280012215 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 748280012216 trmE is a tRNA modification GTPase; Region: trmE; cd04164 748280012217 G1 box; other site 748280012218 GTP/Mg2+ binding site [chemical binding]; other site 748280012219 Switch I region; other site 748280012220 G2 box; other site 748280012221 Switch II region; other site 748280012222 G3 box; other site 748280012223 G4 box; other site 748280012224 G5 box; other site 748280012225 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 748280012226 membrane protein insertase; Provisional; Region: PRK01318 748280012227 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 748280012228 Haemolytic domain; Region: Haemolytic; cl00506 748280012229 Ribonuclease P; Region: Ribonuclease_P; cl00457 748280012230 Ribosomal protein L34; Region: Ribosomal_L34; cl00370