-- dump date 20140620_003423 -- class Genbank::misc_feature -- table misc_feature_note -- id note 748280000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 748280000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 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 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 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 EcoRII C terminal; Region: EcoRII-C; pfam09019 748280000031 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cl00010 748280000032 corepressor binding sites; other site 748280000033 DNA cytosine methylase; Provisional; Region: PRK10458 748280000034 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 748280000035 sequence-specific DNA binding site [nucleotide binding]; other site 748280000036 salt bridge; other site 748280000037 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 748280000038 cofactor binding site; other site 748280000039 DNA binding site [nucleotide binding] 748280000040 substrate interaction site [chemical binding]; other site 748280000041 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 748280000042 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 748280000043 non-specific DNA binding site [nucleotide binding]; other site 748280000044 salt bridge; other site 748280000045 sequence-specific DNA binding site [nucleotide binding]; other site 748280000046 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280000047 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 748280000048 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280000049 ABC transporter; Region: ABC_tran_2; pfam12848 748280000050 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280000051 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 748280000052 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 748280000053 catalytic site [active] 748280000054 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 748280000055 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 748280000056 Moco binding site; other site 748280000057 metal coordination site [ion binding]; other site 748280000058 Cytochrome c; Region: Cytochrom_C; cl11414 748280000059 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280000060 malate dehydrogenase; Provisional; Region: PRK13529 748280000061 Malic enzyme, N-terminal domain; Region: malic; pfam00390 748280000062 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 748280000063 NAD(P) binding pocket [chemical binding]; other site 748280000064 ABC-2 type transporter; Region: ABC2_membrane; cl17235 748280000065 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280000066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280000067 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 748280000068 Walker A/P-loop; other site 748280000069 ATP binding site [chemical binding]; other site 748280000070 Q-loop/lid; other site 748280000071 ABC transporter signature motif; other site 748280000072 Walker B; other site 748280000073 D-loop; other site 748280000074 H-loop/switch region; other site 748280000075 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 748280000076 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 748280000077 kynureninase; Region: kynureninase; TIGR01814 748280000078 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280000079 catalytic residue [active] 748280000080 Putative cyclase; Region: Cyclase; cl00814 748280000081 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280000082 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 748280000083 putative DNA binding site [nucleotide binding]; other site 748280000084 putative Zn2+ binding site [ion binding]; other site 748280000085 AsnC family; Region: AsnC_trans_reg; pfam01037 748280000086 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 748280000087 putative deacylase active site [active] 748280000088 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 748280000089 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 748280000090 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 748280000091 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 748280000092 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 748280000093 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 748280000094 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 748280000095 tRNA; other site 748280000096 putative tRNA binding site [nucleotide binding]; other site 748280000097 putative NADP binding site [chemical binding]; other site 748280000098 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 748280000099 peptide chain release factor 1; Validated; Region: prfA; PRK00591 748280000100 This domain is found in peptide chain release factors; Region: PCRF; smart00937 748280000101 RF-1 domain; Region: RF-1; pfam00472 748280000102 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 748280000103 EamA-like transporter family; Region: EamA; pfam00892 748280000104 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 748280000105 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 748280000106 Uncharacterized conserved protein [Function unknown]; Region: COG3246 748280000107 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 748280000108 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 748280000109 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280000110 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 748280000111 active site 748280000112 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 748280000113 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 748280000114 acyl-activating enzyme (AAE) consensus motif; other site 748280000115 putative AMP binding site [chemical binding]; other site 748280000116 putative active site [active] 748280000117 putative CoA binding site [chemical binding]; other site 748280000118 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280000119 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280000120 conserved cys residue [active] 748280000121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280000122 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 748280000123 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280000124 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280000125 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 748280000126 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 748280000127 Protein export membrane protein; Region: SecD_SecF; cl14618 748280000128 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280000129 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 748280000130 dimer interface [polypeptide binding]; other site 748280000131 phosphorylation site [posttranslational modification] 748280000132 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 748280000133 ATP binding site [chemical binding]; other site 748280000134 Mg2+ binding site [ion binding]; other site 748280000135 G-X-G motif; other site 748280000136 osmolarity response regulator; Provisional; Region: ompR; PRK09468 748280000137 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 748280000138 active site 748280000139 phosphorylation site [posttranslational modification] 748280000140 intermolecular recognition site; other site 748280000141 dimerization interface [polypeptide binding]; other site 748280000142 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 748280000143 DNA binding site [nucleotide binding] 748280000144 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 748280000145 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 748280000146 NADP binding site [chemical binding]; other site 748280000147 dimer interface [polypeptide binding]; other site 748280000148 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 748280000149 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 748280000150 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 748280000151 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280000152 substrate binding pocket [chemical binding]; other site 748280000153 membrane-bound complex binding site; other site 748280000154 hinge residues; other site 748280000155 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 748280000156 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 748280000157 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 748280000158 substrate binding pocket [chemical binding]; other site 748280000159 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 748280000160 B12 binding site [chemical binding]; other site 748280000161 cobalt ligand [ion binding]; other site 748280000162 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 748280000163 cystathionine gamma-synthase; Provisional; Region: PRK07811 748280000164 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 748280000165 homodimer interface [polypeptide binding]; other site 748280000166 substrate-cofactor binding pocket; other site 748280000167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000168 catalytic residue [active] 748280000169 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 748280000170 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 748280000171 dimer interface [polypeptide binding]; other site 748280000172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000173 catalytic residue [active] 748280000174 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 748280000175 futalosine nucleosidase; Region: fut_nucase; TIGR03664 748280000176 Protein of unknown function (DUF465); Region: DUF465; cl01070 748280000177 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 748280000178 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280000179 substrate binding pocket [chemical binding]; other site 748280000180 membrane-bound complex binding site; other site 748280000181 hinge residues; other site 748280000182 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 748280000183 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000184 DNA-binding site [nucleotide binding]; DNA binding site 748280000185 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 748280000186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000187 homodimer interface [polypeptide binding]; other site 748280000188 catalytic residue [active] 748280000189 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 748280000190 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280000191 GAF domain; Region: GAF; pfam01590 748280000192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280000193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000194 metal binding site [ion binding]; metal-binding site 748280000195 active site 748280000196 I-site; other site 748280000197 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 748280000198 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 748280000199 D-galactonate transporter; Region: 2A0114; TIGR00893 748280000200 putative substrate translocation pore; other site 748280000201 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 748280000202 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 748280000203 Walker A/P-loop; other site 748280000204 ATP binding site [chemical binding]; other site 748280000205 Q-loop/lid; other site 748280000206 ABC transporter signature motif; other site 748280000207 Walker B; other site 748280000208 D-loop; other site 748280000209 H-loop/switch region; other site 748280000210 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 748280000211 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 748280000212 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280000213 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 748280000214 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 748280000215 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 748280000216 non-specific DNA binding site [nucleotide binding]; other site 748280000217 salt bridge; other site 748280000218 sequence-specific DNA binding site [nucleotide binding]; other site 748280000219 Cupin domain; Region: Cupin_2; pfam07883 748280000220 EamA-like transporter family; Region: EamA; pfam00892 748280000221 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 748280000222 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 748280000223 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 748280000224 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280000225 Walker A motif; other site 748280000226 ATP binding site [chemical binding]; other site 748280000227 Walker B motif; other site 748280000228 arginine finger; other site 748280000229 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 748280000230 DNA-binding interface [nucleotide binding]; DNA binding site 748280000231 Gram-negative porin; Region: Porin_4; pfam13609 748280000232 enterobactin exporter EntS; Provisional; Region: PRK10489 748280000233 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 748280000234 serine/threonine protein kinase; Provisional; Region: PRK11768 748280000235 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 748280000236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000237 DNA-binding site [nucleotide binding]; DNA binding site 748280000238 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 748280000239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000240 homodimer interface [polypeptide binding]; other site 748280000241 catalytic residue [active] 748280000242 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 748280000243 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280000244 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 748280000245 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280000246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000247 DNA-binding site [nucleotide binding]; DNA binding site 748280000248 FCD domain; Region: FCD; pfam07729 748280000249 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 748280000250 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 748280000251 Na binding site [ion binding]; other site 748280000252 putative substrate binding site [chemical binding]; other site 748280000253 YaeQ protein; Region: YaeQ; pfam07152 748280000254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280000256 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 748280000257 putative effector binding pocket; other site 748280000258 dimerization interface [polypeptide binding]; other site 748280000259 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 748280000260 putative active site [active] 748280000261 metal binding site [ion binding]; metal-binding site 748280000262 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 748280000263 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 748280000264 ATP binding site [chemical binding]; other site 748280000265 Mg++ binding site [ion binding]; other site 748280000266 motif III; other site 748280000267 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 748280000268 nucleotide binding region [chemical binding]; other site 748280000269 ATP-binding site [chemical binding]; other site 748280000270 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 748280000271 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 748280000272 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 748280000273 RNB domain; Region: RNB; pfam00773 748280000274 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 748280000275 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 748280000276 putative DNA binding site [nucleotide binding]; other site 748280000277 putative Zn2+ binding site [ion binding]; other site 748280000278 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 748280000279 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 748280000280 N- and C-terminal domain interface [polypeptide binding]; other site 748280000281 glycerol kinase; Provisional; Region: glpK; PRK00047 748280000282 active site 748280000283 MgATP binding site [chemical binding]; other site 748280000284 catalytic site [active] 748280000285 metal binding site [ion binding]; metal-binding site 748280000286 glycerol binding site [chemical binding]; other site 748280000287 homotetramer interface [polypeptide binding]; other site 748280000288 homodimer interface [polypeptide binding]; other site 748280000289 FBP binding site [chemical binding]; other site 748280000290 protein IIAGlc interface [polypeptide binding]; other site 748280000291 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280000292 dimer interface [polypeptide binding]; other site 748280000293 putative CheW interface [polypeptide binding]; other site 748280000294 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 748280000295 argininosuccinate lyase; Provisional; Region: PRK00855 748280000296 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 748280000297 active sites [active] 748280000298 tetramer interface [polypeptide binding]; other site 748280000299 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 748280000300 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 748280000301 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 748280000302 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 748280000303 domain interfaces; other site 748280000304 active site 748280000305 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 748280000306 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 748280000307 active site 748280000308 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 748280000309 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 748280000310 HemY protein N-terminus; Region: HemY_N; pfam07219 748280000311 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280000312 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 748280000313 RNA binding surface [nucleotide binding]; other site 748280000314 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 748280000315 active site 748280000316 uracil binding [chemical binding]; other site 748280000317 PAS domain S-box; Region: sensory_box; TIGR00229 748280000318 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 748280000319 putative active site [active] 748280000320 heme pocket [chemical binding]; other site 748280000321 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280000322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000323 metal binding site [ion binding]; metal-binding site 748280000324 active site 748280000325 I-site; other site 748280000326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280000327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280000328 aminotransferase; Validated; Region: PRK08175 748280000329 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 748280000330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000331 homodimer interface [polypeptide binding]; other site 748280000332 catalytic residue [active] 748280000333 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 748280000334 active site 748280000335 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 748280000336 catalytic tetrad [active] 748280000337 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 748280000338 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 748280000339 Walker A/P-loop; other site 748280000340 ATP binding site [chemical binding]; other site 748280000341 Q-loop/lid; other site 748280000342 ABC transporter signature motif; other site 748280000343 Walker B; other site 748280000344 D-loop; other site 748280000345 H-loop/switch region; other site 748280000346 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 748280000347 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 748280000348 dimer interface [polypeptide binding]; other site 748280000349 conserved gate region; other site 748280000350 putative PBP binding loops; other site 748280000351 ABC-ATPase subunit interface; other site 748280000352 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 748280000353 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 748280000354 ABC-ATPase subunit interface; other site 748280000355 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 748280000356 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 748280000357 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 748280000358 HAMP domain; Region: HAMP; pfam00672 748280000359 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 748280000360 dimer interface [polypeptide binding]; other site 748280000361 phosphorylation site [posttranslational modification] 748280000362 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 748280000363 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 748280000364 ATP binding site [chemical binding]; other site 748280000365 Mg2+ binding site [ion binding]; other site 748280000366 G-X-G motif; other site 748280000367 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 748280000368 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 748280000369 active site 748280000370 phosphorylation site [posttranslational modification] 748280000371 intermolecular recognition site; other site 748280000372 dimerization interface [polypeptide binding]; other site 748280000373 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 748280000374 DNA binding site [nucleotide binding] 748280000375 AAA domain; Region: AAA_32; pfam13654 748280000376 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 748280000377 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 748280000378 active site 748280000379 intersubunit interface [polypeptide binding]; other site 748280000380 catalytic residue [active] 748280000381 phosphogluconate dehydratase; Validated; Region: PRK09054 748280000382 6-phosphogluconate dehydratase; Region: edd; TIGR01196 748280000383 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 748280000384 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 748280000385 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 748280000386 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 748280000387 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 748280000388 putative active site [active] 748280000389 glucokinase; Provisional; Region: glk; PRK00292 748280000390 glucokinase, proteobacterial type; Region: glk; TIGR00749 748280000391 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 748280000392 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 748280000393 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 748280000394 putative active site [active] 748280000395 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 748280000396 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 748280000397 active site 748280000398 dimer interface [polypeptide binding]; other site 748280000399 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 748280000400 dimer interface [polypeptide binding]; other site 748280000401 active site 748280000402 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 748280000403 DNA binding site [nucleotide binding] 748280000404 active site 748280000405 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 748280000406 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 748280000407 dimerization interface [polypeptide binding]; other site 748280000408 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 748280000409 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 748280000410 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280000411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000412 metal binding site [ion binding]; metal-binding site 748280000413 active site 748280000414 I-site; other site 748280000415 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 748280000416 putative active site [active] 748280000417 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 748280000418 trimer interface; other site 748280000419 sugar binding site [chemical binding]; other site 748280000420 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 748280000421 GIY-YIG motif/motif A; other site 748280000422 putative active site [active] 748280000423 putative metal binding site [ion binding]; other site 748280000424 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 748280000425 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 748280000426 ResB-like family; Region: ResB; pfam05140 748280000427 ResB-like family; Region: ResB; pfam05140 748280000428 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 748280000429 Cytochrome c553 [Energy production and conversion]; Region: COG2863 748280000430 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280000431 Cytochrome c; Region: Cytochrom_C; cl11414 748280000432 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 748280000433 G1 box; other site 748280000434 GTP/Mg2+ binding site [chemical binding]; other site 748280000435 Switch I region; other site 748280000436 G2 box; other site 748280000437 G3 box; other site 748280000438 Switch II region; other site 748280000439 G4 box; other site 748280000440 G5 box; other site 748280000441 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 748280000442 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 748280000443 Sporulation related domain; Region: SPOR; pfam05036 748280000444 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 748280000445 comF family protein; Region: comF; TIGR00201 748280000446 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280000447 active site 748280000448 biotin synthase; Region: bioB; TIGR00433 748280000449 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 748280000450 FeS/SAM binding site; other site 748280000451 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 748280000452 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 748280000453 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 748280000454 substrate-cofactor binding pocket; other site 748280000455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000456 catalytic residue [active] 748280000457 GAF domain; Region: GAF; cl17456 748280000458 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280000459 GAF domain; Region: GAF_2; pfam13185 748280000460 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 748280000461 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280000462 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000463 metal binding site [ion binding]; metal-binding site 748280000464 active site 748280000465 I-site; other site 748280000466 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 748280000467 Methyltransferase domain; Region: Methyltransf_11; pfam08241 748280000468 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 748280000469 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 748280000470 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 748280000471 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 748280000472 S-adenosylmethionine binding site [chemical binding]; other site 748280000473 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280000474 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 748280000475 nucleophile elbow; other site 748280000476 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280000477 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 748280000478 C-terminal domain interface [polypeptide binding]; other site 748280000479 GSH binding site (G-site) [chemical binding]; other site 748280000480 dimer interface [polypeptide binding]; other site 748280000481 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 748280000482 substrate binding pocket (H-site) [chemical binding]; other site 748280000483 N-terminal domain interface [polypeptide binding]; other site 748280000484 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 748280000485 active site 748280000486 DNA polymerase IV; Validated; Region: PRK02406 748280000487 DNA binding site [nucleotide binding] 748280000488 Rdx family; Region: Rdx; cl01407 748280000489 CHASE4 domain; Region: CHASE4; pfam05228 748280000490 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280000491 GAF domain; Region: GAF; pfam01590 748280000492 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280000493 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000494 metal binding site [ion binding]; metal-binding site 748280000495 active site 748280000496 I-site; other site 748280000497 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 748280000498 Protein of unknown function (DUF461); Region: DUF461; pfam04314 748280000499 inner membrane protein; Provisional; Region: PRK10995 748280000500 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 748280000501 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280000502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280000503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280000504 AzlC protein; Region: AzlC; pfam03591 748280000505 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 748280000506 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 748280000507 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 748280000508 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 748280000509 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 748280000510 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 748280000511 rod shape-determining protein MreC; Provisional; Region: PRK13922 748280000512 rod shape-determining protein MreC; Region: MreC; pfam04085 748280000513 rod shape-determining protein MreB; Provisional; Region: PRK13927 748280000514 MreB and similar proteins; Region: MreB_like; cd10225 748280000515 nucleotide binding site [chemical binding]; other site 748280000516 Mg binding site [ion binding]; other site 748280000517 putative protofilament interaction site [polypeptide binding]; other site 748280000518 RodZ interaction site [polypeptide binding]; other site 748280000519 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 748280000520 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 748280000521 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 748280000522 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 748280000523 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 748280000524 GatB domain; Region: GatB_Yqey; smart00845 748280000525 cell division protein MraZ; Reviewed; Region: PRK00326 748280000526 MraZ protein; Region: MraZ; pfam02381 748280000527 MraZ protein; Region: MraZ; pfam02381 748280000528 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 748280000529 MraW methylase family; Region: Methyltransf_5; cl17771 748280000530 Cell division protein FtsL; Region: FtsL; pfam04999 748280000531 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 748280000532 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 748280000533 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 748280000534 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 748280000535 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280000536 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000537 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000538 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 748280000539 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280000540 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000541 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000542 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 748280000543 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 748280000544 Mg++ binding site [ion binding]; other site 748280000545 putative catalytic motif [active] 748280000546 putative substrate binding site [chemical binding]; other site 748280000547 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 748280000548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000549 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000550 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000551 cell division protein FtsW; Region: ftsW; TIGR02614 748280000552 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 748280000553 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 748280000554 active site 748280000555 homodimer interface [polypeptide binding]; other site 748280000556 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 748280000557 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280000558 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280000559 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280000560 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 748280000561 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 748280000562 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 748280000563 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 748280000564 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 748280000565 Cell division protein FtsQ; Region: FtsQ; pfam03799 748280000566 cell division protein FtsA; Region: ftsA; TIGR01174 748280000567 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 748280000568 nucleotide binding site [chemical binding]; other site 748280000569 Cell division protein FtsA; Region: FtsA; pfam14450 748280000570 cell division protein FtsZ; Validated; Region: PRK09330 748280000571 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 748280000572 nucleotide binding site [chemical binding]; other site 748280000573 SulA interaction site; other site 748280000574 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 748280000575 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 748280000576 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 748280000577 trimer interface [polypeptide binding]; other site 748280000578 dimer interface [polypeptide binding]; other site 748280000579 putative active site [active] 748280000580 Putative ParB-like nuclease; Region: ParBc_2; cl17538 748280000581 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280000582 EamA-like transporter family; Region: EamA; pfam00892 748280000583 CNP1-like family; Region: CNP1; pfam08750 748280000584 NRDE protein; Region: NRDE; cl01315 748280000585 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 748280000586 CPxP motif; other site 748280000587 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 748280000588 active site 748280000589 substrate binding pocket [chemical binding]; other site 748280000590 dimer interface [polypeptide binding]; other site 748280000591 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280000592 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 748280000593 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280000594 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280000595 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280000596 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 748280000597 substrate binding pocket [chemical binding]; other site 748280000598 membrane-bound complex binding site; other site 748280000599 hinge residues; other site 748280000600 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 748280000601 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 748280000602 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 748280000603 putative ATP binding site [chemical binding]; other site 748280000604 putative substrate interface [chemical binding]; other site 748280000605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280000607 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 748280000608 putative dimerization interface [polypeptide binding]; other site 748280000609 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280000610 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 748280000611 active site 1 [active] 748280000612 dimer interface [polypeptide binding]; other site 748280000613 hexamer interface [polypeptide binding]; other site 748280000614 active site 2 [active] 748280000615 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 748280000616 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 748280000617 tetramer interface [polypeptide binding]; other site 748280000618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280000619 catalytic residue [active] 748280000620 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280000621 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 748280000622 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 748280000623 YfaZ precursor; Region: YfaZ; pfam07437 748280000624 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 748280000625 hypothetical protein; Provisional; Region: PRK11239 748280000626 Protein of unknown function, DUF480; Region: DUF480; pfam04337 748280000627 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 748280000628 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 748280000629 RNA binding surface [nucleotide binding]; other site 748280000630 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 748280000631 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280000632 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280000633 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 748280000634 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 748280000635 active site 748280000636 phosphorylation site [posttranslational modification] 748280000637 intermolecular recognition site; other site 748280000638 dimerization interface [polypeptide binding]; other site 748280000639 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 748280000640 TPR motif; other site 748280000641 binding surface 748280000642 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 748280000643 Part of AAA domain; Region: AAA_19; pfam13245 748280000644 Family description; Region: UvrD_C_2; pfam13538 748280000645 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 748280000646 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 748280000647 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 748280000648 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 748280000649 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 748280000650 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 748280000651 trimer interface [polypeptide binding]; other site 748280000652 active site 748280000653 substrate binding site [chemical binding]; other site 748280000654 CoA binding site [chemical binding]; other site 748280000655 ribonuclease G; Provisional; Region: PRK11712 748280000656 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 748280000657 homodimer interface [polypeptide binding]; other site 748280000658 oligonucleotide binding site [chemical binding]; other site 748280000659 Maf-like protein; Region: Maf; pfam02545 748280000660 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 748280000661 active site 748280000662 dimer interface [polypeptide binding]; other site 748280000663 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 748280000664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280000666 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 748280000667 putative substrate binding pocket [chemical binding]; other site 748280000668 dimerization interface [polypeptide binding]; other site 748280000669 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 748280000670 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 748280000671 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 748280000672 putative catalytic cysteine [active] 748280000673 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 748280000674 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280000675 acyl-activating enzyme (AAE) consensus motif; other site 748280000676 AMP binding site [chemical binding]; other site 748280000677 active site 748280000678 CoA binding site [chemical binding]; other site 748280000679 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 748280000680 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 748280000681 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280000682 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 748280000683 dimerization interface [polypeptide binding]; other site 748280000684 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280000685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280000686 dimer interface [polypeptide binding]; other site 748280000687 putative CheW interface [polypeptide binding]; other site 748280000688 Protein of unknown function (DUF721); Region: DUF721; pfam05258 748280000689 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 748280000690 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 748280000691 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 748280000692 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 748280000693 nucleotide binding region [chemical binding]; other site 748280000694 ATP-binding site [chemical binding]; other site 748280000695 SEC-C motif; Region: SEC-C; pfam02810 748280000696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280000697 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 748280000698 NAD(P) binding site [chemical binding]; other site 748280000699 active site 748280000700 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 748280000701 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 748280000702 Aspartase; Region: Aspartase; cd01357 748280000703 active sites [active] 748280000704 tetramer interface [polypeptide binding]; other site 748280000705 cell density-dependent motility repressor; Provisional; Region: PRK10082 748280000706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280000707 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 748280000708 dimerization interface [polypeptide binding]; other site 748280000709 CHASE domain; Region: CHASE; cl01369 748280000710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280000711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280000712 metal binding site [ion binding]; metal-binding site 748280000713 active site 748280000714 I-site; other site 748280000715 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 748280000716 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 748280000717 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 748280000718 S-adenosylmethionine binding site [chemical binding]; other site 748280000719 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 748280000720 TolR protein; Region: tolR; TIGR02801 748280000721 TolA protein; Region: tolA_full; TIGR02794 748280000722 TonB C terminal; Region: TonB_2; pfam13103 748280000723 translocation protein TolB; Provisional; Region: tolB; PRK02889 748280000724 TolB amino-terminal domain; Region: TolB_N; pfam04052 748280000725 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000726 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000727 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000728 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 748280000729 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 748280000730 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280000731 ligand binding site [chemical binding]; other site 748280000732 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 748280000733 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 748280000734 TPR motif; other site 748280000735 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 748280000736 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 748280000737 XdhC Rossmann domain; Region: XdhC_C; pfam13478 748280000738 ATP-grasp domain; Region: ATP-grasp; pfam02222 748280000739 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 748280000740 ATP binding site [chemical binding]; other site 748280000741 active site 748280000742 substrate binding site [chemical binding]; other site 748280000743 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 748280000744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 748280000745 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 748280000746 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 748280000747 PAS domain S-box; Region: sensory_box; TIGR00229 748280000748 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 748280000749 putative active site [active] 748280000750 heme pocket [chemical binding]; other site 748280000751 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 748280000752 PAS fold; Region: PAS_3; pfam08447 748280000753 putative active site [active] 748280000754 heme pocket [chemical binding]; other site 748280000755 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 748280000756 PAS fold; Region: PAS_3; pfam08447 748280000757 putative active site [active] 748280000758 heme pocket [chemical binding]; other site 748280000759 PAS fold; Region: PAS; pfam00989 748280000760 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 748280000761 putative active site [active] 748280000762 heme pocket [chemical binding]; other site 748280000763 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 748280000764 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 748280000765 active site 748280000766 FMN binding site [chemical binding]; other site 748280000767 2,4-decadienoyl-CoA binding site; other site 748280000768 catalytic residue [active] 748280000769 4Fe-4S cluster binding site [ion binding]; other site 748280000770 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 748280000771 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280000772 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 748280000773 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 748280000774 XdhC Rossmann domain; Region: XdhC_C; pfam13478 748280000775 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 748280000776 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 748280000777 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280000778 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 748280000779 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 748280000780 catalytic loop [active] 748280000781 iron binding site [ion binding]; other site 748280000782 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 748280000783 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 748280000784 YHS domain; Region: YHS; pfam04945 748280000785 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 748280000786 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 748280000787 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280000788 Soluble P-type ATPase [General function prediction only]; Region: COG4087 748280000789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280000790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280000791 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 748280000792 putative effector binding pocket; other site 748280000793 dimerization interface [polypeptide binding]; other site 748280000794 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 748280000795 ThiS interaction site; other site 748280000796 putative active site [active] 748280000797 tetramer interface [polypeptide binding]; other site 748280000798 pyruvate kinase; Provisional; Region: PRK06247 748280000799 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 748280000800 domain interfaces; other site 748280000801 active site 748280000802 Domain of unknown function (DUF336); Region: DUF336; cl01249 748280000803 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 748280000804 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 748280000805 MOFRL family; Region: MOFRL; pfam05161 748280000806 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 748280000807 tartronate semialdehyde reductase; Provisional; Region: PRK15059 748280000808 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280000809 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 748280000810 glyoxylate carboligase; Provisional; Region: PRK11269 748280000811 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280000812 PYR/PP interface [polypeptide binding]; other site 748280000813 dimer interface [polypeptide binding]; other site 748280000814 TPP binding site [chemical binding]; other site 748280000815 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 748280000816 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 748280000817 TPP-binding site [chemical binding]; other site 748280000818 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 748280000819 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 748280000820 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 748280000821 Na binding site [ion binding]; other site 748280000822 putative substrate binding site [chemical binding]; other site 748280000823 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 748280000824 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 748280000825 active site 748280000826 catalytic site [active] 748280000827 tetramer interface [polypeptide binding]; other site 748280000828 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 748280000829 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 748280000830 ureidoglycolate hydrolase; Provisional; Region: PRK03606 748280000831 allantoicase; Provisional; Region: PRK13257 748280000832 Allantoicase repeat; Region: Allantoicase; pfam03561 748280000833 Allantoicase repeat; Region: Allantoicase; pfam03561 748280000834 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 748280000835 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280000836 Transcriptional regulators [Transcription]; Region: FadR; COG2186 748280000837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 748280000838 FCD domain; Region: FCD; pfam07729 748280000839 Protein of unknown function (DUF989); Region: DUF989; pfam06181 748280000840 Predicted membrane protein [Function unknown]; Region: COG3748 748280000841 Cytochrome c; Region: Cytochrom_C; pfam00034 748280000842 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 748280000843 active site 748280000844 homotetramer interface [polypeptide binding]; other site 748280000845 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 748280000846 Transcriptional regulators [Transcription]; Region: FadR; COG2186 748280000847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280000848 DNA-binding site [nucleotide binding]; DNA binding site 748280000849 FCD domain; Region: FCD; pfam07729 748280000850 ornithine cyclodeaminase; Validated; Region: PRK07340 748280000851 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 748280000852 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280000853 hydroxyglutarate oxidase; Provisional; Region: PRK11728 748280000854 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280000855 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 748280000856 dimerization interface [polypeptide binding]; other site 748280000857 ligand binding site [chemical binding]; other site 748280000858 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 748280000859 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 748280000860 catalytic residues [active] 748280000861 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 748280000862 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280000863 substrate binding site [chemical binding]; other site 748280000864 ATP binding site [chemical binding]; other site 748280000865 Glutamate-cysteine ligase; Region: GshA; pfam08886 748280000866 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 748280000867 glutathione synthetase; Provisional; Region: PRK05246 748280000868 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 748280000869 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 748280000870 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 748280000871 ApbE family; Region: ApbE; pfam02424 748280000872 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 748280000873 DNA topoisomerase I; Validated; Region: PRK06599 748280000874 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 748280000875 active site 748280000876 interdomain interaction site; other site 748280000877 putative metal-binding site [ion binding]; other site 748280000878 nucleotide binding site [chemical binding]; other site 748280000879 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 748280000880 domain I; other site 748280000881 DNA binding groove [nucleotide binding] 748280000882 phosphate binding site [ion binding]; other site 748280000883 domain II; other site 748280000884 domain III; other site 748280000885 nucleotide binding site [chemical binding]; other site 748280000886 catalytic site [active] 748280000887 domain IV; other site 748280000888 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 748280000889 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 748280000890 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 748280000891 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 748280000892 Protein of unknown function (DUF494); Region: DUF494; pfam04361 748280000893 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 748280000894 DNA protecting protein DprA; Region: dprA; TIGR00732 748280000895 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 748280000896 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 748280000897 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 748280000898 active site 748280000899 catalytic residues [active] 748280000900 metal binding site [ion binding]; metal-binding site 748280000901 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 748280000902 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 748280000903 putative active site [active] 748280000904 substrate binding site [chemical binding]; other site 748280000905 putative cosubstrate binding site; other site 748280000906 catalytic site [active] 748280000907 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 748280000908 substrate binding site [chemical binding]; other site 748280000909 M48 family peptidase; Provisional; Region: PRK03001 748280000910 16S rRNA methyltransferase B; Provisional; Region: PRK10901 748280000911 NusB family; Region: NusB; pfam01029 748280000912 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 748280000913 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 748280000914 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 748280000915 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 748280000916 dimerization interface [polypeptide binding]; other site 748280000917 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 748280000918 dimer interface [polypeptide binding]; other site 748280000919 phosphorylation site [posttranslational modification] 748280000920 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 748280000921 ATP binding site [chemical binding]; other site 748280000922 Mg2+ binding site [ion binding]; other site 748280000923 G-X-G motif; other site 748280000924 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280000925 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 748280000926 active site 748280000927 phosphorylation site [posttranslational modification] 748280000928 intermolecular recognition site; other site 748280000929 dimerization interface [polypeptide binding]; other site 748280000930 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 748280000931 Walker A motif; other site 748280000932 ATP binding site [chemical binding]; other site 748280000933 Walker B motif; other site 748280000934 arginine finger; other site 748280000935 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 748280000936 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 748280000937 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 748280000938 ATP binding site [chemical binding]; other site 748280000939 substrate interface [chemical binding]; other site 748280000940 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 748280000941 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 748280000942 catalytic residues [active] 748280000943 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 748280000944 active site 748280000945 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 748280000946 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 748280000947 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 748280000948 dimerization interface [polypeptide binding]; other site 748280000949 DPS ferroxidase diiron center [ion binding]; other site 748280000950 ion pore; other site 748280000951 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 748280000952 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 748280000953 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 748280000954 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 748280000955 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280000956 active site 748280000957 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 748280000958 putative active site [active] 748280000959 putative catalytic site [active] 748280000960 putative DNA binding site [nucleotide binding]; other site 748280000961 putative phosphate binding site [ion binding]; other site 748280000962 metal binding site A [ion binding]; metal-binding site 748280000963 putative AP binding site [nucleotide binding]; other site 748280000964 putative metal binding site B [ion binding]; other site 748280000965 Serine hydrolase; Region: Ser_hydrolase; pfam06821 748280000966 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280000967 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 748280000968 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 748280000969 active site residue [active] 748280000970 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 748280000971 active site residue [active] 748280000972 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 748280000973 nucleotide binding site/active site [active] 748280000974 HIT family signature motif; other site 748280000975 catalytic residue [active] 748280000976 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280000977 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 748280000978 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280000979 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280000980 dimer interface [polypeptide binding]; other site 748280000981 putative CheW interface [polypeptide binding]; other site 748280000982 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 748280000983 putative substrate binding pocket [chemical binding]; other site 748280000984 trimer interface [polypeptide binding]; other site 748280000985 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 748280000986 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280000987 FAD binding domain; Region: FAD_binding_4; pfam01565 748280000988 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280000989 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 748280000990 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280000991 Cysteine-rich domain; Region: CCG; pfam02754 748280000992 Cysteine-rich domain; Region: CCG; pfam02754 748280000993 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 748280000994 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 748280000995 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 748280000996 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 748280000997 SurA N-terminal domain; Region: SurA_N; pfam09312 748280000998 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280000999 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280001000 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 748280001001 OstA-like protein; Region: OstA; cl00844 748280001002 Organic solvent tolerance protein; Region: OstA_C; pfam04453 748280001003 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 748280001004 Phosphotransferase enzyme family; Region: APH; pfam01636 748280001005 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 748280001006 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 748280001007 Substrate binding site; other site 748280001008 metal-binding site 748280001009 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 748280001010 active site 748280001011 putative DNA-binding cleft [nucleotide binding]; other site 748280001012 dimer interface [polypeptide binding]; other site 748280001013 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 748280001014 RuvA N terminal domain; Region: RuvA_N; pfam01330 748280001015 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 748280001016 short chain dehydrogenase; Provisional; Region: PRK06123 748280001017 classical (c) SDRs; Region: SDR_c; cd05233 748280001018 NAD(P) binding site [chemical binding]; other site 748280001019 active site 748280001020 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 748280001021 putative metal binding site [ion binding]; other site 748280001022 Uncharacterized conserved protein [Function unknown]; Region: COG1432 748280001023 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 748280001024 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 748280001025 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 748280001026 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 748280001027 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 748280001028 Walker A motif; other site 748280001029 ATP binding site [chemical binding]; other site 748280001030 Walker B motif; other site 748280001031 arginine finger; other site 748280001032 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 748280001033 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 748280001034 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 748280001035 catalytic triad [active] 748280001036 gamma-glutamyl kinase; Provisional; Region: PRK05429 748280001037 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 748280001038 nucleotide binding site [chemical binding]; other site 748280001039 homotetrameric interface [polypeptide binding]; other site 748280001040 putative phosphate binding site [ion binding]; other site 748280001041 putative allosteric binding site; other site 748280001042 PUA domain; Region: PUA; pfam01472 748280001043 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 748280001044 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 748280001045 inhibitor-cofactor binding pocket; inhibition site 748280001046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001047 catalytic residue [active] 748280001048 Pilin (bacterial filament); Region: Pilin; pfam00114 748280001049 O-Antigen ligase; Region: Wzy_C; pfam04932 748280001050 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 748280001051 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 748280001052 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280001053 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 748280001054 DNA binding residues [nucleotide binding] 748280001055 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 748280001056 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 748280001057 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 748280001058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280001059 Walker A/P-loop; other site 748280001060 ATP binding site [chemical binding]; other site 748280001061 Q-loop/lid; other site 748280001062 ABC transporter signature motif; other site 748280001063 Walker B; other site 748280001064 D-loop; other site 748280001065 H-loop/switch region; other site 748280001066 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 748280001067 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 748280001068 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 748280001069 P loop; other site 748280001070 GTP binding site [chemical binding]; other site 748280001071 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 748280001072 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 748280001073 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 748280001074 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 748280001075 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 748280001076 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 748280001077 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 748280001078 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 748280001079 S-adenosylmethionine binding site [chemical binding]; other site 748280001080 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 748280001081 elongation factor Tu; Reviewed; Region: PRK00049 748280001082 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 748280001083 G1 box; other site 748280001084 GEF interaction site [polypeptide binding]; other site 748280001085 GTP/Mg2+ binding site [chemical binding]; other site 748280001086 Switch I region; other site 748280001087 G2 box; other site 748280001088 G3 box; other site 748280001089 Switch II region; other site 748280001090 G4 box; other site 748280001091 G5 box; other site 748280001092 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 748280001093 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 748280001094 Antibiotic Binding Site [chemical binding]; other site 748280001095 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 748280001096 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 748280001097 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 748280001098 putative homodimer interface [polypeptide binding]; other site 748280001099 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 748280001100 heterodimer interface [polypeptide binding]; other site 748280001101 homodimer interface [polypeptide binding]; other site 748280001102 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 748280001103 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 748280001104 23S rRNA interface [nucleotide binding]; other site 748280001105 L7/L12 interface [polypeptide binding]; other site 748280001106 putative thiostrepton binding site; other site 748280001107 L25 interface [polypeptide binding]; other site 748280001108 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 748280001109 mRNA/rRNA interface [nucleotide binding]; other site 748280001110 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 748280001111 23S rRNA interface [nucleotide binding]; other site 748280001112 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 748280001113 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 748280001114 core dimer interface [polypeptide binding]; other site 748280001115 peripheral dimer interface [polypeptide binding]; other site 748280001116 L10 interface [polypeptide binding]; other site 748280001117 L11 interface [polypeptide binding]; other site 748280001118 putative EF-Tu interaction site [polypeptide binding]; other site 748280001119 putative EF-G interaction site [polypeptide binding]; other site 748280001120 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 748280001121 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 748280001122 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 748280001123 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 748280001124 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 748280001125 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 748280001126 RPB3 interaction site [polypeptide binding]; other site 748280001127 RPB1 interaction site [polypeptide binding]; other site 748280001128 RPB11 interaction site [polypeptide binding]; other site 748280001129 RPB10 interaction site [polypeptide binding]; other site 748280001130 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 748280001131 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 748280001132 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 748280001133 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 748280001134 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 748280001135 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 748280001136 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 748280001137 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 748280001138 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 748280001139 DNA binding site [nucleotide binding] 748280001140 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 748280001141 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 748280001142 S17 interaction site [polypeptide binding]; other site 748280001143 S8 interaction site; other site 748280001144 16S rRNA interaction site [nucleotide binding]; other site 748280001145 streptomycin interaction site [chemical binding]; other site 748280001146 23S rRNA interaction site [nucleotide binding]; other site 748280001147 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 748280001148 30S ribosomal protein S7; Validated; Region: PRK05302 748280001149 elongation factor G; Reviewed; Region: PRK00007 748280001150 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 748280001151 G1 box; other site 748280001152 putative GEF interaction site [polypeptide binding]; other site 748280001153 GTP/Mg2+ binding site [chemical binding]; other site 748280001154 Switch I region; other site 748280001155 G2 box; other site 748280001156 G3 box; other site 748280001157 Switch II region; other site 748280001158 G4 box; other site 748280001159 G5 box; other site 748280001160 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 748280001161 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 748280001162 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 748280001163 elongation factor Tu; Reviewed; Region: PRK00049 748280001164 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 748280001165 G1 box; other site 748280001166 GEF interaction site [polypeptide binding]; other site 748280001167 GTP/Mg2+ binding site [chemical binding]; other site 748280001168 Switch I region; other site 748280001169 G2 box; other site 748280001170 G3 box; other site 748280001171 Switch II region; other site 748280001172 G4 box; other site 748280001173 G5 box; other site 748280001174 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 748280001175 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 748280001176 Antibiotic Binding Site [chemical binding]; other site 748280001177 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 748280001178 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 748280001179 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 748280001180 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 748280001181 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 748280001182 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 748280001183 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 748280001184 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 748280001185 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 748280001186 putative translocon binding site; other site 748280001187 protein-rRNA interface [nucleotide binding]; other site 748280001188 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 748280001189 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 748280001190 G-X-X-G motif; other site 748280001191 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 748280001192 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 748280001193 23S rRNA interface [nucleotide binding]; other site 748280001194 5S rRNA interface [nucleotide binding]; other site 748280001195 putative antibiotic binding site [chemical binding]; other site 748280001196 L25 interface [polypeptide binding]; other site 748280001197 L27 interface [polypeptide binding]; other site 748280001198 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 748280001199 23S rRNA interface [nucleotide binding]; other site 748280001200 putative translocon interaction site; other site 748280001201 signal recognition particle (SRP54) interaction site; other site 748280001202 L23 interface [polypeptide binding]; other site 748280001203 trigger factor interaction site; other site 748280001204 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 748280001205 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 748280001206 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 748280001207 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 748280001208 RNA binding site [nucleotide binding]; other site 748280001209 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 748280001210 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 748280001211 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 748280001212 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 748280001213 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 748280001214 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 748280001215 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 748280001216 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 748280001217 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 748280001218 5S rRNA interface [nucleotide binding]; other site 748280001219 23S rRNA interface [nucleotide binding]; other site 748280001220 L5 interface [polypeptide binding]; other site 748280001221 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 748280001222 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 748280001223 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 748280001224 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 748280001225 23S rRNA binding site [nucleotide binding]; other site 748280001226 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 748280001227 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 748280001228 SecY translocase; Region: SecY; pfam00344 748280001229 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 748280001230 rRNA binding site [nucleotide binding]; other site 748280001231 predicted 30S ribosome binding site; other site 748280001232 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 748280001233 30S ribosomal protein S13; Region: bact_S13; TIGR03631 748280001234 30S ribosomal protein S11; Validated; Region: PRK05309 748280001235 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 748280001236 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 748280001237 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 748280001238 RNA binding surface [nucleotide binding]; other site 748280001239 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 748280001240 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 748280001241 alphaNTD homodimer interface [polypeptide binding]; other site 748280001242 alphaNTD - beta interaction site [polypeptide binding]; other site 748280001243 alphaNTD - beta' interaction site [polypeptide binding]; other site 748280001244 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 748280001245 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 748280001246 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 748280001247 glutaminase; Provisional; Region: PRK00971 748280001248 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 748280001249 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 748280001250 MOSC domain; Region: MOSC; pfam03473 748280001251 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 748280001252 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280001253 dimer interface [polypeptide binding]; other site 748280001254 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280001255 putative CheW interface [polypeptide binding]; other site 748280001256 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 748280001257 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 748280001258 putative active site [active] 748280001259 catalytic triad [active] 748280001260 putative dimer interface [polypeptide binding]; other site 748280001261 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 748280001262 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 748280001263 Transporter associated domain; Region: CorC_HlyC; smart01091 748280001264 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 748280001265 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 748280001266 PhoH-like protein; Region: PhoH; pfam02562 748280001267 YCII-related domain; Region: YCII; cl00999 748280001268 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 748280001269 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 748280001270 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 748280001271 FeS/SAM binding site; other site 748280001272 TRAM domain; Region: TRAM; pfam01938 748280001273 PAS domain S-box; Region: sensory_box; TIGR00229 748280001274 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 748280001275 putative active site [active] 748280001276 heme pocket [chemical binding]; other site 748280001277 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 748280001278 PAS domain; Region: PAS_9; pfam13426 748280001279 putative active site [active] 748280001280 heme pocket [chemical binding]; other site 748280001281 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280001282 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280001283 metal binding site [ion binding]; metal-binding site 748280001284 active site 748280001285 I-site; other site 748280001286 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 748280001287 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 748280001288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280001289 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 748280001290 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 748280001291 catalytic loop [active] 748280001292 iron binding site [ion binding]; other site 748280001293 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 748280001294 FAD binding pocket [chemical binding]; other site 748280001295 FAD binding motif [chemical binding]; other site 748280001296 phosphate binding motif [ion binding]; other site 748280001297 beta-alpha-beta structure motif; other site 748280001298 NAD binding pocket [chemical binding]; other site 748280001299 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 748280001300 inter-subunit interface; other site 748280001301 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 748280001302 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 748280001303 iron-sulfur cluster [ion binding]; other site 748280001304 [2Fe-2S] cluster binding site [ion binding]; other site 748280001305 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 748280001306 putative alpha subunit interface [polypeptide binding]; other site 748280001307 putative active site [active] 748280001308 putative substrate binding site [chemical binding]; other site 748280001309 Fe binding site [ion binding]; other site 748280001310 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 748280001311 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 748280001312 octamer interface [polypeptide binding]; other site 748280001313 active site 748280001314 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 748280001315 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 748280001316 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 748280001317 dimer interface [polypeptide binding]; other site 748280001318 active site 748280001319 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 748280001320 PAS domain; Region: PAS_9; pfam13426 748280001321 putative active site [active] 748280001322 heme pocket [chemical binding]; other site 748280001323 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280001324 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280001325 dimer interface [polypeptide binding]; other site 748280001326 putative CheW interface [polypeptide binding]; other site 748280001327 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 748280001328 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 748280001329 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280001330 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280001331 GAF domain; Region: GAF; pfam01590 748280001332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280001333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280001334 metal binding site [ion binding]; metal-binding site 748280001335 active site 748280001336 I-site; other site 748280001337 Uncharacterized conserved protein [Function unknown]; Region: COG1565 748280001338 Methyltransferase domain; Region: Methyltransf_12; pfam08242 748280001339 pteridine reductase; Provisional; Region: PRK09135 748280001340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280001341 NAD(P) binding site [chemical binding]; other site 748280001342 active site 748280001343 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 748280001344 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 748280001345 Ligand Binding Site [chemical binding]; other site 748280001346 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 748280001347 S-adenosylmethionine binding site [chemical binding]; other site 748280001348 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 748280001349 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 748280001350 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 748280001351 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 748280001352 putative trimer interface [polypeptide binding]; other site 748280001353 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 748280001354 putative CoA binding site [chemical binding]; other site 748280001355 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 748280001356 putative trimer interface [polypeptide binding]; other site 748280001357 putative active site [active] 748280001358 putative substrate binding site [chemical binding]; other site 748280001359 putative CoA binding site [chemical binding]; other site 748280001360 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 748280001361 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 748280001362 inhibitor-cofactor binding pocket; inhibition site 748280001363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001364 catalytic residue [active] 748280001365 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 748280001366 trimer interface [polypeptide binding]; other site 748280001367 active site 748280001368 substrate binding site [chemical binding]; other site 748280001369 CoA binding site [chemical binding]; other site 748280001370 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 748280001371 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 748280001372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280001373 catalytic residue [active] 748280001374 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 748280001375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280001376 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 748280001377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280001378 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 748280001379 putative glycosyl transferase; Provisional; Region: PRK10307 748280001380 Acyltransferase family; Region: Acyl_transf_3; pfam01757 748280001381 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 748280001382 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 748280001383 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 748280001384 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 748280001385 inhibitor-cofactor binding pocket; inhibition site 748280001386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001387 catalytic residue [active] 748280001388 Bacterial sugar transferase; Region: Bac_transf; pfam02397 748280001389 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 748280001390 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 748280001391 NAD(P) binding site [chemical binding]; other site 748280001392 homodimer interface [polypeptide binding]; other site 748280001393 substrate binding site [chemical binding]; other site 748280001394 active site 748280001395 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 748280001396 DNA-binding site [nucleotide binding]; DNA binding site 748280001397 RNA-binding motif; other site 748280001398 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 748280001399 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280001400 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280001401 metal binding site [ion binding]; metal-binding site 748280001402 active site 748280001403 I-site; other site 748280001404 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 748280001405 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 748280001406 active site 748280001407 catalytic tetrad [active] 748280001408 Protein with unknown function (DUF469); Region: DUF469; pfam04320 748280001409 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 748280001410 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 748280001411 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 748280001412 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 748280001413 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280001414 catalytic residue [active] 748280001415 VanZ like family; Region: VanZ; pfam04892 748280001416 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 748280001417 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 748280001418 motif II; other site 748280001419 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 748280001420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280001421 DNA-binding site [nucleotide binding]; DNA binding site 748280001422 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 748280001423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001424 homodimer interface [polypeptide binding]; other site 748280001425 catalytic residue [active] 748280001426 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 748280001427 active site residue [active] 748280001428 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 748280001429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 748280001430 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 748280001431 succinic semialdehyde dehydrogenase; Region: PLN02278 748280001432 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 748280001433 tetramerization interface [polypeptide binding]; other site 748280001434 NAD(P) binding site [chemical binding]; other site 748280001435 catalytic residues [active] 748280001436 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 748280001437 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 748280001438 inhibitor-cofactor binding pocket; inhibition site 748280001439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001440 catalytic residue [active] 748280001441 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 748280001442 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280001443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280001444 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280001445 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280001446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280001447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280001448 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 748280001449 feedback inhibition sensing region; other site 748280001450 homohexameric interface [polypeptide binding]; other site 748280001451 nucleotide binding site [chemical binding]; other site 748280001452 N-acetyl-L-glutamate binding site [chemical binding]; other site 748280001453 FOG: CBS domain [General function prediction only]; Region: COG0517 748280001454 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 748280001455 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 748280001456 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 748280001457 NAD binding site [chemical binding]; other site 748280001458 catalytic Zn binding site [ion binding]; other site 748280001459 structural Zn binding site [ion binding]; other site 748280001460 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 748280001461 Transcriptional regulator [Transcription]; Region: IclR; COG1414 748280001462 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280001463 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 748280001464 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 748280001465 FAD binding site [chemical binding]; other site 748280001466 substrate binding pocket [chemical binding]; other site 748280001467 catalytic base [active] 748280001468 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 748280001469 CoA-transferase family III; Region: CoA_transf_3; pfam02515 748280001470 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280001471 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 748280001472 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 748280001473 Predicted membrane protein [Function unknown]; Region: COG3671 748280001474 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 748280001475 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 748280001476 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 748280001477 GTP/Mg2+ binding site [chemical binding]; other site 748280001478 G4 box; other site 748280001479 G5 box; other site 748280001480 G1 box; other site 748280001481 Switch I region; other site 748280001482 G2 box; other site 748280001483 G3 box; other site 748280001484 Switch II region; other site 748280001485 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 748280001486 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 748280001487 hypothetical protein; Validated; Region: PRK00228 748280001488 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 748280001489 AAA domain; Region: AAA_23; pfam13476 748280001490 Walker A/P-loop; other site 748280001491 ATP binding site [chemical binding]; other site 748280001492 Q-loop/lid; other site 748280001493 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 748280001494 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 748280001495 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 748280001496 ABC transporter signature motif; other site 748280001497 Walker B; other site 748280001498 D-loop; other site 748280001499 H-loop/switch region; other site 748280001500 Uncharacterized conserved protein [Function unknown]; Region: COG2353 748280001501 YceI-like domain; Region: YceI; smart00867 748280001502 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 748280001503 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280001504 MarR family; Region: MarR; pfam01047 748280001505 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 748280001506 FtsZ protein binding site [polypeptide binding]; other site 748280001507 Ligase N family; Region: LIGANc; smart00532 748280001508 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 748280001509 nucleotide binding pocket [chemical binding]; other site 748280001510 K-X-D-G motif; other site 748280001511 catalytic site [active] 748280001512 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 748280001513 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 748280001514 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 748280001515 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 748280001516 Dimer interface [polypeptide binding]; other site 748280001517 BRCT sequence motif; other site 748280001518 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 748280001519 binding surface 748280001520 TPR motif; other site 748280001521 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 748280001522 binding surface 748280001523 TPR repeat; Region: TPR_11; pfam13414 748280001524 TPR motif; other site 748280001525 Tetratricopeptide repeat; Region: TPR_16; pfam13432 748280001526 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 748280001527 active site 748280001528 tetramer interface; other site 748280001529 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280001530 active site 748280001531 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 748280001532 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 748280001533 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280001534 acyl-activating enzyme (AAE) consensus motif; other site 748280001535 AMP binding site [chemical binding]; other site 748280001536 active site 748280001537 CoA binding site [chemical binding]; other site 748280001538 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280001539 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 748280001540 NAD(P) binding site [chemical binding]; other site 748280001541 catalytic residues [active] 748280001542 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 748280001543 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 748280001544 FeS/SAM binding site; other site 748280001545 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 748280001546 putative trimer interface [polypeptide binding]; other site 748280001547 putative CoA binding site [chemical binding]; other site 748280001548 Methyltransferase domain; Region: Methyltransf_23; pfam13489 748280001549 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 748280001550 S-adenosylmethionine binding site [chemical binding]; other site 748280001551 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 748280001552 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 748280001553 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 748280001554 inhibitor-cofactor binding pocket; inhibition site 748280001555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001556 catalytic residue [active] 748280001557 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280001558 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 748280001559 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 748280001560 active site 748280001561 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 748280001562 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 748280001563 Probable Catalytic site; other site 748280001564 metal-binding site 748280001565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280001566 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 748280001567 flagellin; Provisional; Region: PRK12802 748280001568 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280001569 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 748280001570 FlaG protein; Region: FlaG; pfam03646 748280001571 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 748280001572 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 748280001573 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 748280001574 Flagellar protein FliS; Region: FliS; cl00654 748280001575 Flagellar protein FliT; Region: FliT; pfam05400 748280001576 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 748280001577 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 748280001578 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 748280001579 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 748280001580 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280001581 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280001582 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 748280001583 UbiA prenyltransferase family; Region: UbiA; pfam01040 748280001584 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 748280001585 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 748280001586 Subunit I/III interface [polypeptide binding]; other site 748280001587 Subunit III/IV interface [polypeptide binding]; other site 748280001588 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 748280001589 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 748280001590 D-pathway; other site 748280001591 Putative ubiquinol binding site [chemical binding]; other site 748280001592 Low-spin heme (heme b) binding site [chemical binding]; other site 748280001593 Putative water exit pathway; other site 748280001594 Binuclear center (heme o3/CuB) [ion binding]; other site 748280001595 K-pathway; other site 748280001596 Putative proton exit pathway; other site 748280001597 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 748280001598 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 748280001599 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 748280001600 Helix-turn-helix domain; Region: HTH_17; pfam12728 748280001601 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 748280001602 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 748280001603 Toprim domain; Region: Toprim_3; pfam13362 748280001604 Nup85 Nucleoporin; Region: Nucleopor_Nup85; pfam07575 748280001605 Helix-turn-helix domain; Region: HTH_39; pfam14090 748280001606 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 748280001607 integrase; Provisional; Region: PRK09692 748280001608 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 748280001609 active site 748280001610 Int/Topo IB signature motif; other site 748280001611 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 748280001612 hypothetical protein; Provisional; Region: PRK11820 748280001613 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 748280001614 Protein kinase domain; Region: Pkinase; pfam00069 748280001615 Catalytic domain of Protein Kinases; Region: PKc; cd00180 748280001616 active site 748280001617 ATP binding site [chemical binding]; other site 748280001618 substrate binding site [chemical binding]; other site 748280001619 activation loop (A-loop); other site 748280001620 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 748280001621 active site 748280001622 ribonuclease PH; Reviewed; Region: rph; PRK00173 748280001623 Ribonuclease PH; Region: RNase_PH_bact; cd11362 748280001624 hexamer interface [polypeptide binding]; other site 748280001625 active site 748280001626 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 748280001627 sensor protein RstB; Provisional; Region: PRK10604 748280001628 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 748280001629 dimerization interface [polypeptide binding]; other site 748280001630 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 748280001631 ATP binding site [chemical binding]; other site 748280001632 Mg2+ binding site [ion binding]; other site 748280001633 G-X-G motif; other site 748280001634 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 748280001635 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 748280001636 active site 748280001637 phosphorylation site [posttranslational modification] 748280001638 intermolecular recognition site; other site 748280001639 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 748280001640 DNA binding site [nucleotide binding] 748280001641 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 748280001642 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 748280001643 NAD(P) binding site [chemical binding]; other site 748280001644 catalytic residues [active] 748280001645 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280001646 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 748280001647 non-specific DNA binding site [nucleotide binding]; other site 748280001648 salt bridge; other site 748280001649 sequence-specific DNA binding site [nucleotide binding]; other site 748280001650 Cupin domain; Region: Cupin_2; pfam07883 748280001651 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 748280001652 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 748280001653 catalytic triad [active] 748280001654 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280001655 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 748280001656 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280001657 putative aminotransferase; Validated; Region: PRK07480 748280001658 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 748280001659 inhibitor-cofactor binding pocket; inhibition site 748280001660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280001661 catalytic residue [active] 748280001662 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 748280001663 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 748280001664 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 748280001665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280001666 Walker A/P-loop; other site 748280001667 ATP binding site [chemical binding]; other site 748280001668 Q-loop/lid; other site 748280001669 ABC transporter signature motif; other site 748280001670 Walker B; other site 748280001671 D-loop; other site 748280001672 H-loop/switch region; other site 748280001673 TOBE domain; Region: TOBE_2; pfam08402 748280001674 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 748280001675 dimer interface [polypeptide binding]; other site 748280001676 conserved gate region; other site 748280001677 putative PBP binding loops; other site 748280001678 ABC-ATPase subunit interface; other site 748280001679 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 748280001680 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 748280001681 dimer interface [polypeptide binding]; other site 748280001682 conserved gate region; other site 748280001683 putative PBP binding loops; other site 748280001684 ABC-ATPase subunit interface; other site 748280001685 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 748280001686 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280001687 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 748280001688 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 748280001689 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 748280001690 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 748280001691 AAA domain; Region: AAA_18; pfam13238 748280001692 seryl-tRNA synthetase; Provisional; Region: PRK05431 748280001693 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 748280001694 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 748280001695 Baseplate J-like protein; Region: Baseplate_J; cl01294 748280001696 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 748280001697 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 748280001698 Phage Tail Protein X; Region: Phage_tail_X; cl02088 748280001699 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 748280001700 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 748280001701 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 748280001702 Phage tail tube protein FII; Region: Phage_tube; cl01390 748280001703 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 748280001704 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 748280001705 Gp37 protein; Region: Gp37; pfam09646 748280001706 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 748280001707 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 748280001708 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 748280001709 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 748280001710 tandem repeat interface [polypeptide binding]; other site 748280001711 oligomer interface [polypeptide binding]; other site 748280001712 active site residues [active] 748280001713 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 748280001714 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 748280001715 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 748280001716 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 748280001717 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 748280001718 gpW; Region: gpW; pfam02831 748280001719 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 748280001720 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 748280001721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 748280001722 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 748280001723 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 748280001724 non-specific DNA binding site [nucleotide binding]; other site 748280001725 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280001726 salt bridge; other site 748280001727 sequence-specific DNA binding site [nucleotide binding]; other site 748280001728 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 748280001729 Catalytic site [active] 748280001730 BRO family, N-terminal domain; Region: Bro-N; smart01040 748280001731 Arc-like DNA binding domain; Region: Arc; pfam03869 748280001732 Arc-like DNA binding domain; Region: Arc; pfam03869 748280001733 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 748280001734 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 748280001735 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 748280001736 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 748280001737 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 748280001738 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 748280001739 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 748280001740 active site 748280001741 DNA binding site [nucleotide binding] 748280001742 Int/Topo IB signature motif; other site 748280001743 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 748280001744 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 748280001745 FMN binding site [chemical binding]; other site 748280001746 active site 748280001747 catalytic residues [active] 748280001748 substrate binding site [chemical binding]; other site 748280001749 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 748280001750 active site 748280001751 dimerization interface [polypeptide binding]; other site 748280001752 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 748280001753 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 748280001754 FeS/SAM binding site; other site 748280001755 HemN C-terminal domain; Region: HemN_C; pfam06969 748280001756 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 748280001757 homotrimer interaction site [polypeptide binding]; other site 748280001758 putative active site [active] 748280001759 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280001760 serine/threonine transporter SstT; Provisional; Region: PRK13628 748280001761 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280001762 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 748280001763 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 748280001764 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 748280001765 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 748280001766 ssDNA binding site; other site 748280001767 generic binding surface II; other site 748280001768 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 748280001769 ATP binding site [chemical binding]; other site 748280001770 putative Mg++ binding site [ion binding]; other site 748280001771 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 748280001772 nucleotide binding region [chemical binding]; other site 748280001773 ATP-binding site [chemical binding]; other site 748280001774 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 748280001775 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 748280001776 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 748280001777 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 748280001778 Walker A/P-loop; other site 748280001779 ATP binding site [chemical binding]; other site 748280001780 Q-loop/lid; other site 748280001781 ABC transporter signature motif; other site 748280001782 Walker B; other site 748280001783 D-loop; other site 748280001784 H-loop/switch region; other site 748280001785 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 748280001786 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 748280001787 dimer interface [polypeptide binding]; other site 748280001788 conserved gate region; other site 748280001789 putative PBP binding loops; other site 748280001790 ABC-ATPase subunit interface; other site 748280001791 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 748280001792 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 748280001793 dimer interface [polypeptide binding]; other site 748280001794 conserved gate region; other site 748280001795 putative PBP binding loops; other site 748280001796 ABC-ATPase subunit interface; other site 748280001797 PBP superfamily domain; Region: PBP_like_2; cl17296 748280001798 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 748280001799 dimer interface [polypeptide binding]; other site 748280001800 substrate binding site [chemical binding]; other site 748280001801 catalytic triad [active] 748280001802 Preprotein translocase SecG subunit; Region: SecG; pfam03840 748280001803 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 748280001804 NADH dehydrogenase subunit B; Validated; Region: PRK06411 748280001805 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 748280001806 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 748280001807 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 748280001808 NADH dehydrogenase subunit D; Validated; Region: PRK06075 748280001809 NADH dehydrogenase subunit E; Validated; Region: PRK07539 748280001810 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 748280001811 putative dimer interface [polypeptide binding]; other site 748280001812 [2Fe-2S] cluster binding site [ion binding]; other site 748280001813 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 748280001814 SLBB domain; Region: SLBB; pfam10531 748280001815 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 748280001816 NADH dehydrogenase subunit G; Validated; Region: PRK09129 748280001817 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 748280001818 catalytic loop [active] 748280001819 iron binding site [ion binding]; other site 748280001820 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 748280001821 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 748280001822 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 748280001823 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 748280001824 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 748280001825 4Fe-4S binding domain; Region: Fer4; pfam00037 748280001826 4Fe-4S binding domain; Region: Fer4; pfam00037 748280001827 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 748280001828 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 748280001829 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 748280001830 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 748280001831 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 748280001832 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 748280001833 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 748280001834 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 748280001835 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 748280001836 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 748280001837 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 748280001838 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 748280001839 putative acyl-acceptor binding pocket; other site 748280001840 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 748280001841 putative acyl-acceptor binding pocket; other site 748280001842 S-adenosylmethionine synthetase; Validated; Region: PRK05250 748280001843 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 748280001844 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 748280001845 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 748280001846 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 748280001847 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 748280001848 homotetramer interface [polypeptide binding]; other site 748280001849 ligand binding site [chemical binding]; other site 748280001850 catalytic site [active] 748280001851 NAD binding site [chemical binding]; other site 748280001852 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 748280001853 FAD binding site [chemical binding]; other site 748280001854 hypothetical protein; Provisional; Region: PRK05208 748280001855 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280001856 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 748280001857 putative DNA binding site [nucleotide binding]; other site 748280001858 putative Zn2+ binding site [ion binding]; other site 748280001859 AsnC family; Region: AsnC_trans_reg; pfam01037 748280001860 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 748280001861 cofactor binding site; other site 748280001862 metal binding site [ion binding]; metal-binding site 748280001863 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 748280001864 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 748280001865 dimer interface [polypeptide binding]; other site 748280001866 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 748280001867 active site 748280001868 Fe binding site [ion binding]; other site 748280001869 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 748280001870 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 748280001871 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 748280001872 maleylacetoacetate isomerase; Region: maiA; TIGR01262 748280001873 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 748280001874 C-terminal domain interface [polypeptide binding]; other site 748280001875 GSH binding site (G-site) [chemical binding]; other site 748280001876 putative dimer interface [polypeptide binding]; other site 748280001877 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 748280001878 dimer interface [polypeptide binding]; other site 748280001879 N-terminal domain interface [polypeptide binding]; other site 748280001880 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 748280001881 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 748280001882 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 748280001883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280001884 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280001885 EamA-like transporter family; Region: EamA; pfam00892 748280001886 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 748280001887 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280001888 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 748280001889 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 748280001890 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 748280001891 adenine DNA glycosylase; Provisional; Region: PRK10880 748280001892 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 748280001893 minor groove reading motif; other site 748280001894 helix-hairpin-helix signature motif; other site 748280001895 substrate binding pocket [chemical binding]; other site 748280001896 active site 748280001897 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 748280001898 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 748280001899 DNA binding and oxoG recognition site [nucleotide binding] 748280001900 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 748280001901 HD domain; Region: HD_4; pfam13328 748280001902 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 748280001903 synthetase active site [active] 748280001904 NTP binding site [chemical binding]; other site 748280001905 metal binding site [ion binding]; metal-binding site 748280001906 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 748280001907 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 748280001908 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 748280001909 23S rRNA interface [nucleotide binding]; other site 748280001910 L3 interface [polypeptide binding]; other site 748280001911 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 748280001912 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 748280001913 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 748280001914 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 748280001915 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 748280001916 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 748280001917 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 748280001918 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280001919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280001920 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 748280001921 apolar tunnel; other site 748280001922 heme binding site [chemical binding]; other site 748280001923 dimerization interface [polypeptide binding]; other site 748280001924 Dihydroneopterin aldolase; Region: FolB; smart00905 748280001925 active site 748280001926 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 748280001927 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 748280001928 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 748280001929 putative active site [active] 748280001930 Zn binding site [ion binding]; other site 748280001931 MoxR-like ATPases [General function prediction only]; Region: COG0714 748280001932 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 748280001933 Walker A motif; other site 748280001934 ATP binding site [chemical binding]; other site 748280001935 Walker B motif; other site 748280001936 arginine finger; other site 748280001937 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 748280001938 Protein of unknown function DUF58; Region: DUF58; pfam01882 748280001939 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 748280001940 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 748280001941 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 748280001942 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 748280001943 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 748280001944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280001945 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 748280001946 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 748280001947 DNA binding residues [nucleotide binding] 748280001948 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 748280001949 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 748280001950 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280001951 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 748280001952 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 748280001953 S-adenosylmethionine binding site [chemical binding]; other site 748280001954 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 748280001955 quinolinate synthetase; Provisional; Region: PRK09375 748280001956 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 748280001957 CoA binding domain; Region: CoA_binding_2; pfam13380 748280001958 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 748280001959 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 748280001960 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 748280001961 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 748280001962 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 748280001963 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 748280001964 RimM N-terminal domain; Region: RimM; pfam01782 748280001965 PRC-barrel domain; Region: PRC; pfam05239 748280001966 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 748280001967 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 748280001968 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 748280001969 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 748280001970 DNA binding site [nucleotide binding] 748280001971 active site 748280001972 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 748280001973 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 748280001974 active site 748280001975 Int/Topo IB signature motif; other site 748280001976 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 748280001977 Clp amino terminal domain; Region: Clp_N; pfam02861 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 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 748280001984 Walker A motif; other site 748280001985 ATP binding site [chemical binding]; other site 748280001986 Walker B motif; other site 748280001987 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 748280001988 Uncharacterized conserved protein [Function unknown]; Region: COG2127 748280001989 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 748280001990 DNA-binding site [nucleotide binding]; DNA binding site 748280001991 RNA-binding motif; other site 748280001992 isocitrate dehydrogenase; Reviewed; Region: PRK07006 748280001993 isocitrate dehydrogenase; Validated; Region: PRK07362 748280001994 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 748280001995 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 748280001996 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 748280001997 active site 748280001998 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 748280001999 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 748280002000 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 748280002001 MutS domain I; Region: MutS_I; pfam01624 748280002002 MutS domain II; Region: MutS_II; pfam05188 748280002003 MutS domain III; Region: MutS_III; pfam05192 748280002004 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 748280002005 Walker A/P-loop; other site 748280002006 ATP binding site [chemical binding]; other site 748280002007 Q-loop/lid; other site 748280002008 ABC transporter signature motif; other site 748280002009 Walker B; other site 748280002010 D-loop; other site 748280002011 H-loop/switch region; other site 748280002012 Predicted transcriptional regulators [Transcription]; Region: COG1510 748280002013 MarR family; Region: MarR_2; pfam12802 748280002014 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 748280002015 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 748280002016 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 748280002017 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 748280002018 helicase Cas3; Provisional; Region: PRK09694 748280002019 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 748280002020 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 748280002021 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 748280002022 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 748280002023 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 748280002024 CT1975-like protein; Region: Cas_CT1975; pfam09344 748280002025 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 748280002026 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 748280002027 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 748280002028 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 748280002029 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 748280002030 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 748280002031 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 748280002032 inhibitor-cofactor binding pocket; inhibition site 748280002033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280002034 catalytic residue [active] 748280002035 Cupin domain; Region: Cupin_2; cl17218 748280002036 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 748280002037 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 748280002038 tetrameric interface [polypeptide binding]; other site 748280002039 NAD binding site [chemical binding]; other site 748280002040 catalytic residues [active] 748280002041 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 748280002042 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 748280002043 phosphate binding site [ion binding]; other site 748280002044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002046 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 748280002047 dimerization interface [polypeptide binding]; other site 748280002048 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280002049 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 748280002050 active site 748280002051 phosphorylation site [posttranslational modification] 748280002052 intermolecular recognition site; other site 748280002053 dimerization interface [polypeptide binding]; other site 748280002054 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 748280002055 Walker A motif; other site 748280002056 ATP binding site [chemical binding]; other site 748280002057 Walker B motif; other site 748280002058 arginine finger; other site 748280002059 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280002060 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 748280002061 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 748280002062 dimer interface [polypeptide binding]; other site 748280002063 phosphorylation site [posttranslational modification] 748280002064 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 748280002065 ATP binding site [chemical binding]; other site 748280002066 Mg2+ binding site [ion binding]; other site 748280002067 G-X-G motif; other site 748280002068 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 748280002069 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 748280002070 Walker A/P-loop; other site 748280002071 ATP binding site [chemical binding]; other site 748280002072 Q-loop/lid; other site 748280002073 ABC transporter signature motif; other site 748280002074 Walker B; other site 748280002075 D-loop; other site 748280002076 H-loop/switch region; other site 748280002077 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 748280002078 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 748280002079 putative PBP binding loops; other site 748280002080 dimer interface [polypeptide binding]; other site 748280002081 ABC-ATPase subunit interface; other site 748280002082 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 748280002083 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 748280002084 substrate binding pocket [chemical binding]; other site 748280002085 membrane-bound complex binding site; other site 748280002086 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 748280002087 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 748280002088 active site 748280002089 dimerization interface [polypeptide binding]; other site 748280002090 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 748280002091 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 748280002092 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 748280002093 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 748280002094 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 748280002095 ligand binding site [chemical binding]; other site 748280002096 flexible hinge region; other site 748280002097 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 748280002098 putative switch regulator; other site 748280002099 non-specific DNA interactions [nucleotide binding]; other site 748280002100 DNA binding site [nucleotide binding] 748280002101 sequence specific DNA binding site [nucleotide binding]; other site 748280002102 putative cAMP binding site [chemical binding]; other site 748280002103 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 748280002104 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 748280002105 FeS/SAM binding site; other site 748280002106 HemN C-terminal domain; Region: HemN_C; pfam06969 748280002107 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280002108 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 748280002109 Predicted transcriptional regulator [Transcription]; Region: COG1959 748280002110 Transcriptional regulator; Region: Rrf2; cl17282 748280002111 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 748280002112 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 748280002113 heme-binding site [chemical binding]; other site 748280002114 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 748280002115 FAD binding pocket [chemical binding]; other site 748280002116 FAD binding motif [chemical binding]; other site 748280002117 phosphate binding motif [ion binding]; other site 748280002118 beta-alpha-beta structure motif; other site 748280002119 NAD binding pocket [chemical binding]; other site 748280002120 Heme binding pocket [chemical binding]; other site 748280002121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 748280002122 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 748280002123 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 748280002124 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 748280002125 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 748280002126 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 748280002127 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 748280002128 dimerization interface [polypeptide binding]; other site 748280002129 substrate binding site [chemical binding]; other site 748280002130 active site 748280002131 calcium binding site [ion binding]; other site 748280002132 Acetokinase family; Region: Acetate_kinase; cl17229 748280002133 propionate/acetate kinase; Provisional; Region: PRK12379 748280002134 phosphate acetyltransferase; Provisional; Region: PRK11890 748280002135 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 748280002136 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 748280002137 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 748280002138 NAD binding site [chemical binding]; other site 748280002139 homotetramer interface [polypeptide binding]; other site 748280002140 homodimer interface [polypeptide binding]; other site 748280002141 substrate binding site [chemical binding]; other site 748280002142 active site 748280002143 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 748280002144 Uncharacterized conserved protein [Function unknown]; Region: COG2928 748280002145 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 748280002146 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 748280002147 dimer interface [polypeptide binding]; other site 748280002148 anticodon binding site; other site 748280002149 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 748280002150 homodimer interface [polypeptide binding]; other site 748280002151 motif 1; other site 748280002152 active site 748280002153 motif 2; other site 748280002154 GAD domain; Region: GAD; pfam02938 748280002155 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 748280002156 motif 3; other site 748280002157 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 748280002158 Cytochrome P450; Region: p450; cl12078 748280002159 peroxidase; Provisional; Region: PRK15000 748280002160 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 748280002161 dimer interface [polypeptide binding]; other site 748280002162 decamer (pentamer of dimers) interface [polypeptide binding]; other site 748280002163 catalytic triad [active] 748280002164 peroxidatic and resolving cysteines [active] 748280002165 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 748280002166 intracellular protease, PfpI family; Region: PfpI; TIGR01382 748280002167 conserved cys residue [active] 748280002168 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 748280002169 active site 748280002170 catalytic triad [active] 748280002171 oxyanion hole [active] 748280002172 switch loop; other site 748280002173 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 748280002174 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 748280002175 Walker A/P-loop; other site 748280002176 ATP binding site [chemical binding]; other site 748280002177 Q-loop/lid; other site 748280002178 ABC transporter signature motif; other site 748280002179 Walker B; other site 748280002180 D-loop; other site 748280002181 H-loop/switch region; other site 748280002182 FtsX-like permease family; Region: FtsX; pfam02687 748280002183 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 748280002184 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 748280002185 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 748280002186 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 748280002187 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 748280002188 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 748280002189 YceG-like family; Region: YceG; pfam02618 748280002190 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 748280002191 dimerization interface [polypeptide binding]; other site 748280002192 thymidylate kinase; Validated; Region: tmk; PRK00698 748280002193 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 748280002194 TMP-binding site; other site 748280002195 ATP-binding site [chemical binding]; other site 748280002196 DNA polymerase III subunit delta'; Validated; Region: PRK08699 748280002197 DNA polymerase III subunit delta'; Validated; Region: PRK08485 748280002198 PilZ domain; Region: PilZ; cl01260 748280002199 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 748280002200 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 748280002201 active site 748280002202 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 748280002203 putative hydrolase; Provisional; Region: PRK02113 748280002204 Chorismate mutase type II; Region: CM_2; smart00830 748280002205 hypothetical protein; Validated; Region: PRK06186 748280002206 conserved cys residue [active] 748280002207 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 748280002208 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 748280002209 active site 748280002210 HIGH motif; other site 748280002211 dimer interface [polypeptide binding]; other site 748280002212 KMSKS motif; other site 748280002213 PEP synthetase regulatory protein; Provisional; Region: PRK05339 748280002214 phosphoenolpyruvate synthase; Validated; Region: PRK06464 748280002215 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 748280002216 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 748280002217 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 748280002218 Dodecin; Region: Dodecin; pfam07311 748280002219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002220 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002221 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 748280002222 putative effector binding pocket; other site 748280002223 dimerization interface [polypeptide binding]; other site 748280002224 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280002225 EamA-like transporter family; Region: EamA; pfam00892 748280002226 EamA-like transporter family; Region: EamA; pfam00892 748280002227 Carbonic anhydrase; Region: Pro_CA; smart00947 748280002228 active site clefts [active] 748280002229 zinc binding site [ion binding]; other site 748280002230 dimer interface [polypeptide binding]; other site 748280002231 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 748280002232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002233 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 748280002234 dimerization interface [polypeptide binding]; other site 748280002235 diaminopimelate decarboxylase; Provisional; Region: PRK11165 748280002236 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 748280002237 active site 748280002238 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280002239 substrate binding site [chemical binding]; other site 748280002240 catalytic residues [active] 748280002241 dimer interface [polypeptide binding]; other site 748280002242 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 748280002243 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 748280002244 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 748280002245 ATP binding site [chemical binding]; other site 748280002246 putative Mg++ binding site [ion binding]; other site 748280002247 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 748280002248 nucleotide binding region [chemical binding]; other site 748280002249 ATP-binding site [chemical binding]; other site 748280002250 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 748280002251 PAS fold; Region: PAS_4; pfam08448 748280002252 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 748280002253 putative active site [active] 748280002254 heme pocket [chemical binding]; other site 748280002255 PAS domain S-box; Region: sensory_box; TIGR00229 748280002256 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 748280002257 putative active site [active] 748280002258 heme pocket [chemical binding]; other site 748280002259 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 748280002260 PAS domain; Region: PAS_9; pfam13426 748280002261 putative active site [active] 748280002262 heme pocket [chemical binding]; other site 748280002263 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280002264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002265 metal binding site [ion binding]; metal-binding site 748280002266 active site 748280002267 I-site; other site 748280002268 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 748280002269 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 748280002270 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 748280002271 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 748280002272 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 748280002273 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 748280002274 Multicopper oxidase; Region: Cu-oxidase; pfam00394 748280002275 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 748280002276 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 748280002277 putative homodimer interface [polypeptide binding]; other site 748280002278 putative homotetramer interface [polypeptide binding]; other site 748280002279 putative allosteric switch controlling residues; other site 748280002280 putative metal binding site [ion binding]; other site 748280002281 putative homodimer-homodimer interface [polypeptide binding]; other site 748280002282 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 748280002283 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 748280002284 metal-binding site [ion binding] 748280002285 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 748280002286 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 748280002287 generic binding surface I; other site 748280002288 generic binding surface II; other site 748280002289 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 748280002290 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 748280002291 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 748280002292 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 748280002293 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 748280002294 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 748280002295 Isochorismatase family; Region: Isochorismatase; pfam00857 748280002296 catalytic triad [active] 748280002297 dimer interface [polypeptide binding]; other site 748280002298 conserved cis-peptide bond; other site 748280002299 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280002300 FAD binding domain; Region: FAD_binding_4; pfam01565 748280002301 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 748280002302 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280002303 putative acetyltransferase YhhY; Provisional; Region: PRK10140 748280002304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280002305 Coenzyme A binding pocket [chemical binding]; other site 748280002306 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 748280002307 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280002308 active site 748280002309 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 748280002310 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 748280002311 putative GSH binding site [chemical binding]; other site 748280002312 catalytic residues [active] 748280002313 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 748280002314 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 748280002315 putative ion selectivity filter; other site 748280002316 putative pore gating glutamate residue; other site 748280002317 putative H+/Cl- coupling transport residue; other site 748280002318 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 748280002319 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 748280002320 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 748280002321 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 748280002322 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 748280002323 active site 748280002324 substrate binding site [chemical binding]; other site 748280002325 cosubstrate binding site; other site 748280002326 catalytic site [active] 748280002327 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 748280002328 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 748280002329 dimerization interface [polypeptide binding]; other site 748280002330 putative ATP binding site [chemical binding]; other site 748280002331 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 748280002332 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 748280002333 Walker A motif; other site 748280002334 ATP binding site [chemical binding]; other site 748280002335 Walker B motif; other site 748280002336 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 748280002337 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 748280002338 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 748280002339 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 748280002340 Walker A motif; other site 748280002341 ATP binding site [chemical binding]; other site 748280002342 Walker B motif; other site 748280002343 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 748280002344 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 748280002345 RibD C-terminal domain; Region: RibD_C; cl17279 748280002346 RibD C-terminal domain; Region: RibD_C; cl17279 748280002347 hypothetical protein; Provisional; Region: PRK08999 748280002348 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 748280002349 active site 748280002350 8-oxo-dGMP binding site [chemical binding]; other site 748280002351 nudix motif; other site 748280002352 metal binding site [ion binding]; metal-binding site 748280002353 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 748280002354 thiamine phosphate binding site [chemical binding]; other site 748280002355 active site 748280002356 pyrophosphate binding site [ion binding]; other site 748280002357 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 748280002358 UbiA prenyltransferase family; Region: UbiA; pfam01040 748280002359 Chorismate lyase; Region: Chor_lyase; cl01230 748280002360 LrgA family; Region: LrgA; pfam03788 748280002361 LrgB-like family; Region: LrgB; pfam04172 748280002362 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 748280002363 catalytic core [active] 748280002364 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 748280002365 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 748280002366 THF binding site; other site 748280002367 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 748280002368 substrate binding site [chemical binding]; other site 748280002369 THF binding site; other site 748280002370 zinc-binding site [ion binding]; other site 748280002371 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 748280002372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002373 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 748280002374 putative dimerization interface [polypeptide binding]; other site 748280002375 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 748280002376 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 748280002377 active site 748280002378 phosphorylation site [posttranslational modification] 748280002379 intermolecular recognition site; other site 748280002380 dimerization interface [polypeptide binding]; other site 748280002381 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 748280002382 Walker A motif; other site 748280002383 ATP binding site [chemical binding]; other site 748280002384 Walker B motif; other site 748280002385 arginine finger; other site 748280002386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280002387 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 748280002388 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 748280002389 dimer interface [polypeptide binding]; other site 748280002390 phosphorylation site [posttranslational modification] 748280002391 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 748280002392 ATP binding site [chemical binding]; other site 748280002393 Mg2+ binding site [ion binding]; other site 748280002394 G-X-G motif; other site 748280002395 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 748280002396 glutamine synthetase; Provisional; Region: glnA; PRK09469 748280002397 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 748280002398 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280002399 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 748280002400 active site residue [active] 748280002401 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 748280002402 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 748280002403 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 748280002404 shikimate binding site; other site 748280002405 NAD(P) binding site [chemical binding]; other site 748280002406 Transglycosylase; Region: Transgly; cl17702 748280002407 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 748280002408 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 748280002409 MgtE intracellular N domain; Region: MgtE_N; smart00924 748280002410 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 748280002411 Divalent cation transporter; Region: MgtE; cl00786 748280002412 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 748280002413 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 748280002414 S-adenosylmethionine binding site [chemical binding]; other site 748280002415 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 748280002416 active site 748280002417 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 748280002418 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 748280002419 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 748280002420 Cupin superfamily protein; Region: Cupin_4; pfam08007 748280002421 Cupin-like domain; Region: Cupin_8; pfam13621 748280002422 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 748280002423 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 748280002424 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 748280002425 dihydrodipicolinate synthase; Region: dapA; TIGR00674 748280002426 dimer interface [polypeptide binding]; other site 748280002427 active site 748280002428 catalytic residue [active] 748280002429 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 748280002430 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280002431 Walker A/P-loop; other site 748280002432 ATP binding site [chemical binding]; other site 748280002433 Q-loop/lid; other site 748280002434 ABC transporter signature motif; other site 748280002435 Walker B; other site 748280002436 D-loop; other site 748280002437 H-loop/switch region; other site 748280002438 ABC transporter; Region: ABC_tran_2; pfam12848 748280002439 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280002440 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280002441 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 748280002442 NAD(P) binding site [chemical binding]; other site 748280002443 homotetramer interface [polypeptide binding]; other site 748280002444 homodimer interface [polypeptide binding]; other site 748280002445 active site 748280002446 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 748280002447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002448 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 748280002449 substrate binding site [chemical binding]; other site 748280002450 dimerization interface [polypeptide binding]; other site 748280002451 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 748280002452 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 748280002453 Active Sites [active] 748280002454 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 748280002455 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 748280002456 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 748280002457 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 748280002458 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 748280002459 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280002460 ligand binding site [chemical binding]; other site 748280002461 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 748280002462 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 748280002463 active site 748280002464 Riboflavin kinase; Region: Flavokinase; smart00904 748280002465 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 748280002466 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280002467 active site 748280002468 HIGH motif; other site 748280002469 nucleotide binding site [chemical binding]; other site 748280002470 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 748280002471 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 748280002472 active site 748280002473 KMSKS motif; other site 748280002474 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 748280002475 tRNA binding surface [nucleotide binding]; other site 748280002476 anticodon binding site; other site 748280002477 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 748280002478 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 748280002479 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 748280002480 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 748280002481 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280002482 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 748280002483 substrate binding pocket [chemical binding]; other site 748280002484 membrane-bound complex binding site; other site 748280002485 hinge residues; other site 748280002486 heat shock protein 90; Provisional; Region: PRK05218 748280002487 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 748280002488 ATP binding site [chemical binding]; other site 748280002489 Mg2+ binding site [ion binding]; other site 748280002490 G-X-G motif; other site 748280002491 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 748280002492 thioredoxin 2; Provisional; Region: PRK10996 748280002493 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 748280002494 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 748280002495 catalytic residues [active] 748280002496 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 748280002497 catalytic site [active] 748280002498 putative active site [active] 748280002499 putative substrate binding site [chemical binding]; other site 748280002500 putative glutathione S-transferase; Provisional; Region: PRK10357 748280002501 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 748280002502 putative C-terminal domain interface [polypeptide binding]; other site 748280002503 putative GSH binding site (G-site) [chemical binding]; other site 748280002504 putative dimer interface [polypeptide binding]; other site 748280002505 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 748280002506 dimer interface [polypeptide binding]; other site 748280002507 N-terminal domain interface [polypeptide binding]; other site 748280002508 putative substrate binding pocket (H-site) [chemical binding]; other site 748280002509 Protein of unknown function (DUF541); Region: SIMPL; cl01077 748280002510 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 748280002511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280002512 Walker A/P-loop; other site 748280002513 ATP binding site [chemical binding]; other site 748280002514 Q-loop/lid; other site 748280002515 ABC transporter signature motif; other site 748280002516 Walker B; other site 748280002517 D-loop; other site 748280002518 H-loop/switch region; other site 748280002519 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 748280002520 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 748280002521 TM-ABC transporter signature motif; other site 748280002522 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 748280002523 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 748280002524 zinc binding site [ion binding]; other site 748280002525 putative ligand binding site [chemical binding]; other site 748280002526 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 748280002527 active site 748280002528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280002529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002530 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 748280002531 putative effector binding pocket; other site 748280002532 dimerization interface [polypeptide binding]; other site 748280002533 amino acid transporter; Region: 2A0306; TIGR00909 748280002534 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 748280002535 isocitrate lyase; Provisional; Region: PRK15063 748280002536 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 748280002537 tetramer interface [polypeptide binding]; other site 748280002538 active site 748280002539 Mg2+/Mn2+ binding site [ion binding]; other site 748280002540 GrpE; Region: GrpE; pfam01025 748280002541 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 748280002542 dimer interface [polypeptide binding]; other site 748280002543 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 748280002544 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 748280002545 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 748280002546 nucleotide binding site [chemical binding]; other site 748280002547 chaperone protein DnaJ; Provisional; Region: PRK10767 748280002548 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 748280002549 HSP70 interaction site [polypeptide binding]; other site 748280002550 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 748280002551 substrate binding site [polypeptide binding]; other site 748280002552 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 748280002553 Zn binding sites [ion binding]; other site 748280002554 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 748280002555 dimer interface [polypeptide binding]; other site 748280002556 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 748280002557 Spore germination protein; Region: Spore_permease; cl17796 748280002558 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 748280002559 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 748280002560 putative Cl- selectivity filter; other site 748280002561 putative pore gating glutamate residue; other site 748280002562 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 748280002563 dimer interface [polypeptide binding]; other site 748280002564 allosteric magnesium binding site [ion binding]; other site 748280002565 active site 748280002566 aspartate-rich active site metal binding site; other site 748280002567 Schiff base residues; other site 748280002568 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 748280002569 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 748280002570 substrate-cofactor binding pocket; other site 748280002571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280002572 catalytic residue [active] 748280002573 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 748280002574 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 748280002575 NAD(P) binding site [chemical binding]; other site 748280002576 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 748280002577 dimer interface [polypeptide binding]; other site 748280002578 motif 1; other site 748280002579 active site 748280002580 motif 2; other site 748280002581 motif 3; other site 748280002582 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 748280002583 DALR anticodon binding domain; Region: DALR_1; pfam05746 748280002584 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 748280002585 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 748280002586 active site 748280002587 motif I; other site 748280002588 motif II; other site 748280002589 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 748280002590 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280002591 putative acyl-acceptor binding pocket; other site 748280002592 Protein of unknown function DUF45; Region: DUF45; pfam01863 748280002593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280002594 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 748280002595 dimer interface [polypeptide binding]; other site 748280002596 active site 748280002597 metal binding site [ion binding]; metal-binding site 748280002598 glutathione binding site [chemical binding]; other site 748280002599 MASE1; Region: MASE1; cl17823 748280002600 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 748280002601 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 748280002602 putative active site [active] 748280002603 heme pocket [chemical binding]; other site 748280002604 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 748280002605 putative active site [active] 748280002606 heme pocket [chemical binding]; other site 748280002607 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280002608 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002609 metal binding site [ion binding]; metal-binding site 748280002610 active site 748280002611 I-site; other site 748280002612 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 748280002613 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; cl17221 748280002614 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 748280002615 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 748280002616 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 748280002617 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280002618 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 748280002619 PAS domain; Region: PAS_9; pfam13426 748280002620 putative active site [active] 748280002621 heme pocket [chemical binding]; other site 748280002622 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280002623 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002624 metal binding site [ion binding]; metal-binding site 748280002625 active site 748280002626 I-site; other site 748280002627 PAS domain; Region: PAS_9; pfam13426 748280002628 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 748280002629 putative active site [active] 748280002630 heme pocket [chemical binding]; other site 748280002631 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280002632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002633 metal binding site [ion binding]; metal-binding site 748280002634 active site 748280002635 I-site; other site 748280002636 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 748280002637 phosphoserine phosphatase SerB; Region: serB; TIGR00338 748280002638 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 748280002639 motif II; other site 748280002640 DoxX; Region: DoxX; pfam07681 748280002641 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 748280002642 hypothetical protein; Provisional; Region: PRK05409 748280002643 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 748280002644 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 748280002645 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 748280002646 FeS/SAM binding site; other site 748280002647 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 748280002648 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 748280002649 active site 748280002650 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 748280002651 active site 748280002652 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 748280002653 Ligand Binding Site [chemical binding]; other site 748280002654 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 748280002655 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280002656 DNA-binding site [nucleotide binding]; DNA binding site 748280002657 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 748280002658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280002659 homodimer interface [polypeptide binding]; other site 748280002660 catalytic residue [active] 748280002661 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280002662 EamA-like transporter family; Region: EamA; pfam00892 748280002663 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 748280002664 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 748280002665 potential catalytic triad [active] 748280002666 conserved cys residue [active] 748280002667 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 748280002668 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 748280002669 FMN binding site [chemical binding]; other site 748280002670 active site 748280002671 substrate binding site [chemical binding]; other site 748280002672 catalytic residue [active] 748280002673 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 748280002674 dimer interface [polypeptide binding]; other site 748280002675 FMN binding site [chemical binding]; other site 748280002676 NADPH bind site [chemical binding]; other site 748280002677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280002678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280002679 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280002680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002681 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 748280002682 dimerization interface [polypeptide binding]; other site 748280002683 substrate binding pocket [chemical binding]; other site 748280002684 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280002685 FAD binding domain; Region: FAD_binding_4; pfam01565 748280002686 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280002687 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 748280002688 ligand-binding site [chemical binding]; other site 748280002689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280002690 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 748280002691 TPR repeat; Region: TPR_11; pfam13414 748280002692 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 748280002693 binding surface 748280002694 TPR motif; other site 748280002695 Tetratricopeptide repeat; Region: TPR_12; pfam13424 748280002696 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 748280002697 binding surface 748280002698 TPR motif; other site 748280002699 TPR repeat; Region: TPR_11; pfam13414 748280002700 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 748280002701 binding surface 748280002702 TPR motif; other site 748280002703 TPR repeat; Region: TPR_11; pfam13414 748280002704 TPR repeat; Region: TPR_11; pfam13414 748280002705 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 748280002706 binding surface 748280002707 TPR motif; other site 748280002708 Tetratricopeptide repeat; Region: TPR_12; pfam13424 748280002709 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 748280002710 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 748280002711 Autotransporter beta-domain; Region: Autotransporter; pfam03797 748280002712 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 748280002713 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 748280002714 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 748280002715 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 748280002716 classical (c) SDRs; Region: SDR_c; cd05233 748280002717 NAD(P) binding site [chemical binding]; other site 748280002718 active site 748280002719 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 748280002720 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 748280002721 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 748280002722 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 748280002723 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 748280002724 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 748280002725 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 748280002726 dimer interface [polypeptide binding]; other site 748280002727 conserved gate region; other site 748280002728 putative PBP binding loops; other site 748280002729 ABC-ATPase subunit interface; other site 748280002730 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 748280002731 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 748280002732 Walker A/P-loop; other site 748280002733 ATP binding site [chemical binding]; other site 748280002734 Q-loop/lid; other site 748280002735 ABC transporter signature motif; other site 748280002736 Walker B; other site 748280002737 D-loop; other site 748280002738 H-loop/switch region; other site 748280002739 NifQ; Region: NifQ; pfam04891 748280002740 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 748280002741 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 748280002742 molybdenum-pterin binding domain; Region: Mop; TIGR00638 748280002743 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 748280002744 fumarate hydratase; Reviewed; Region: fumC; PRK00485 748280002745 Class II fumarases; Region: Fumarase_classII; cd01362 748280002746 active site 748280002747 tetramer interface [polypeptide binding]; other site 748280002748 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 748280002749 Fumarase C-terminus; Region: Fumerase_C; pfam05683 748280002750 Uncharacterized conserved protein [Function unknown]; Region: COG3791 748280002751 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 748280002752 putative hydrophobic ligand binding site [chemical binding]; other site 748280002753 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 748280002754 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280002755 Uncharacterized conserved protein [Function unknown]; Region: COG5649 748280002756 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280002757 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 748280002758 dimer interface [polypeptide binding]; other site 748280002759 OsmC-like protein; Region: OsmC; cl00767 748280002760 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280002761 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 748280002762 Uncharacterized conserved protein [Function unknown]; Region: COG3791 748280002763 hypothetical protein; Provisional; Region: PRK02237 748280002764 Protein of unknown function, DUF488; Region: DUF488; cl01246 748280002765 GlpM protein; Region: GlpM; pfam06942 748280002766 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280002767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280002768 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 748280002769 dimerization interface [polypeptide binding]; other site 748280002770 substrate binding pocket [chemical binding]; other site 748280002771 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 748280002772 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280002773 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 748280002774 C-terminal domain interface [polypeptide binding]; other site 748280002775 GSH binding site (G-site) [chemical binding]; other site 748280002776 dimer interface [polypeptide binding]; other site 748280002777 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 748280002778 N-terminal domain interface [polypeptide binding]; other site 748280002779 putative substrate binding pocket (H-site) [chemical binding]; other site 748280002780 dimer interface [polypeptide binding]; other site 748280002781 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 748280002782 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 748280002783 N-terminal plug; other site 748280002784 ligand-binding site [chemical binding]; other site 748280002785 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280002786 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280002787 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 748280002788 dimerization interface [polypeptide binding]; other site 748280002789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280002790 dimer interface [polypeptide binding]; other site 748280002791 putative CheW interface [polypeptide binding]; other site 748280002792 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 748280002793 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 748280002794 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 748280002795 active site 748280002796 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 748280002797 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 748280002798 Transglutaminase/protease-like homologues; Region: TGc; smart00460 748280002799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 748280002800 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 748280002801 Uncharacterized conserved protein [Function unknown]; Region: COG2308 748280002802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 748280002803 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280002804 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280002805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 748280002806 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280002807 TfoX C-terminal domain; Region: TfoX_C; pfam04994 748280002808 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 748280002809 nucleoside/Zn binding site; other site 748280002810 dimer interface [polypeptide binding]; other site 748280002811 catalytic motif [active] 748280002812 Predicted membrane protein [Function unknown]; Region: COG5393 748280002813 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 748280002814 GMP synthase; Reviewed; Region: guaA; PRK00074 748280002815 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 748280002816 AMP/PPi binding site [chemical binding]; other site 748280002817 candidate oxyanion hole; other site 748280002818 catalytic triad [active] 748280002819 potential glutamine specificity residues [chemical binding]; other site 748280002820 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 748280002821 ATP Binding subdomain [chemical binding]; other site 748280002822 Ligand Binding sites [chemical binding]; other site 748280002823 Dimerization subdomain; other site 748280002824 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 748280002825 SmpB-tmRNA interface; other site 748280002826 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 748280002827 putative coenzyme Q binding site [chemical binding]; other site 748280002828 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 748280002829 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280002830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002831 metal binding site [ion binding]; metal-binding site 748280002832 active site 748280002833 I-site; other site 748280002834 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 748280002835 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 748280002836 enolase; Provisional; Region: eno; PRK00077 748280002837 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 748280002838 dimer interface [polypeptide binding]; other site 748280002839 metal binding site [ion binding]; metal-binding site 748280002840 substrate binding pocket [chemical binding]; other site 748280002841 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 748280002842 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 748280002843 CTP synthetase; Validated; Region: pyrG; PRK05380 748280002844 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 748280002845 Catalytic site [active] 748280002846 active site 748280002847 UTP binding site [chemical binding]; other site 748280002848 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 748280002849 active site 748280002850 putative oxyanion hole; other site 748280002851 catalytic triad [active] 748280002852 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 748280002853 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 748280002854 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 748280002855 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 748280002856 S-adenosylmethionine binding site [chemical binding]; other site 748280002857 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 748280002858 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 748280002859 active site 748280002860 putative substrate binding pocket [chemical binding]; other site 748280002861 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 748280002862 dimerization interface [polypeptide binding]; other site 748280002863 PAS domain S-box; Region: sensory_box; TIGR00229 748280002864 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 748280002865 putative active site [active] 748280002866 heme pocket [chemical binding]; other site 748280002867 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 748280002868 PAS domain; Region: PAS_9; pfam13426 748280002869 putative active site [active] 748280002870 heme pocket [chemical binding]; other site 748280002871 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280002872 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280002873 metal binding site [ion binding]; metal-binding site 748280002874 active site 748280002875 I-site; other site 748280002876 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 748280002877 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 748280002878 PBCV-specific basic adaptor domain; Region: PBCV_basic_adap; pfam08789 748280002879 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 748280002880 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 748280002881 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 748280002882 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 748280002883 putative active site [active] 748280002884 putative NTP binding site [chemical binding]; other site 748280002885 putative nucleic acid binding site [nucleotide binding]; other site 748280002886 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 748280002887 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 748280002888 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 748280002889 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 748280002890 non-specific DNA binding site [nucleotide binding]; other site 748280002891 salt bridge; other site 748280002892 sequence-specific DNA binding site [nucleotide binding]; other site 748280002893 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 748280002894 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 748280002895 Zn binding sites [ion binding]; other site 748280002896 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 748280002897 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 748280002898 non-specific DNA binding site [nucleotide binding]; other site 748280002899 salt bridge; other site 748280002900 sequence-specific DNA binding site [nucleotide binding]; other site 748280002901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 748280002902 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 748280002903 non-specific DNA binding site [nucleotide binding]; other site 748280002904 salt bridge; other site 748280002905 sequence-specific DNA binding site [nucleotide binding]; other site 748280002906 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 748280002907 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280002908 sequence-specific DNA binding site [nucleotide binding]; other site 748280002909 salt bridge; other site 748280002910 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 748280002911 Catalytic site [active] 748280002912 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 748280002913 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280002914 Walker A motif; other site 748280002915 ATP binding site [chemical binding]; other site 748280002916 Walker B motif; other site 748280002917 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 748280002918 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 748280002919 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 748280002920 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 748280002921 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 748280002922 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 748280002923 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 748280002924 Phage-related minor tail protein [Function unknown]; Region: COG5281 748280002925 Phage minor tail protein; Region: Phage_min_tail; cl01940 748280002926 Phage minor tail protein L; Region: Phage_tail_L; cl01908 748280002927 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 748280002928 MPN+ (JAMM) motif; other site 748280002929 Zinc-binding site [ion binding]; other site 748280002930 NlpC/P60 family; Region: NLPC_P60; cl17555 748280002931 Phage-related protein, tail component [Function unknown]; Region: COG4723 748280002932 Phage-related protein, tail component [Function unknown]; Region: COG4733 748280002933 Putative phage tail protein; Region: Phage-tail_3; pfam13550 748280002934 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 748280002935 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 748280002936 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 748280002937 catalytic residue [active] 748280002938 integrase; Provisional; Region: PRK09692 748280002939 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 748280002940 active site 748280002941 Int/Topo IB signature motif; other site 748280002942 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 748280002943 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 748280002944 dimer interface [polypeptide binding]; other site 748280002945 putative anticodon binding site; other site 748280002946 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 748280002947 motif 1; other site 748280002948 active site 748280002949 motif 2; other site 748280002950 motif 3; other site 748280002951 peptide chain release factor 2; Validated; Region: prfB; PRK00578 748280002952 This domain is found in peptide chain release factors; Region: PCRF; smart00937 748280002953 RF-1 domain; Region: RF-1; pfam00472 748280002954 malate dehydrogenase; Provisional; Region: PRK05442 748280002955 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 748280002956 NAD(P) binding site [chemical binding]; other site 748280002957 dimer interface [polypeptide binding]; other site 748280002958 malate binding site [chemical binding]; other site 748280002959 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 748280002960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280002961 DNA-binding site [nucleotide binding]; DNA binding site 748280002962 UTRA domain; Region: UTRA; pfam07702 748280002963 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 748280002964 Iron-sulfur protein interface; other site 748280002965 proximal quinone binding site [chemical binding]; other site 748280002966 SdhD (CybS) interface [polypeptide binding]; other site 748280002967 proximal heme binding site [chemical binding]; other site 748280002968 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 748280002969 SdhC subunit interface [polypeptide binding]; other site 748280002970 proximal heme binding site [chemical binding]; other site 748280002971 cardiolipin binding site; other site 748280002972 Iron-sulfur protein interface; other site 748280002973 proximal quinone binding site [chemical binding]; other site 748280002974 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 748280002975 L-aspartate oxidase; Provisional; Region: PRK06175 748280002976 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 748280002977 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 748280002978 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 748280002979 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 748280002980 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 748280002981 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 748280002982 dimer interface [polypeptide binding]; other site 748280002983 active site 748280002984 citrylCoA binding site [chemical binding]; other site 748280002985 NADH binding [chemical binding]; other site 748280002986 cationic pore residues; other site 748280002987 oxalacetate/citrate binding site [chemical binding]; other site 748280002988 coenzyme A binding site [chemical binding]; other site 748280002989 catalytic triad [active] 748280002990 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 748280002991 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 748280002992 TPP-binding site [chemical binding]; other site 748280002993 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 748280002994 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 748280002995 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 748280002996 E3 interaction surface; other site 748280002997 lipoyl attachment site [posttranslational modification]; other site 748280002998 e3 binding domain; Region: E3_binding; pfam02817 748280002999 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 748280003000 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 748280003001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280003002 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 748280003003 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 748280003004 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 748280003005 CoA-ligase; Region: Ligase_CoA; pfam00549 748280003006 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 748280003007 CoA binding domain; Region: CoA_binding; smart00881 748280003008 CoA-ligase; Region: Ligase_CoA; pfam00549 748280003009 hypothetical protein; Provisional; Region: PRK10621 748280003010 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280003011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280003012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280003013 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 748280003014 putative effector binding pocket; other site 748280003015 dimerization interface [polypeptide binding]; other site 748280003016 Late embryogenesis abundant protein; Region: LEA_2; cl12118 748280003017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280003018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280003019 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 748280003020 putative dimerization interface [polypeptide binding]; other site 748280003021 putative outer membrane lipoprotein; Provisional; Region: PRK10510 748280003022 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280003023 ligand binding site [chemical binding]; other site 748280003024 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 748280003025 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 748280003026 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 748280003027 Walker A/P-loop; other site 748280003028 ATP binding site [chemical binding]; other site 748280003029 Q-loop/lid; other site 748280003030 ABC transporter signature motif; other site 748280003031 Walker B; other site 748280003032 D-loop; other site 748280003033 H-loop/switch region; other site 748280003034 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 748280003035 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 748280003036 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 748280003037 active site 748280003038 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 748280003039 putative active site [active] 748280003040 YdjC motif; other site 748280003041 Mg binding site [ion binding]; other site 748280003042 putative homodimer interface [polypeptide binding]; other site 748280003043 GtrA-like protein; Region: GtrA; pfam04138 748280003044 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 748280003045 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 748280003046 Ligand binding site; other site 748280003047 Putative Catalytic site; other site 748280003048 DXD motif; other site 748280003049 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 748280003050 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 748280003051 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 748280003052 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 748280003053 substrate binding site [chemical binding]; other site 748280003054 tetramer interface [polypeptide binding]; other site 748280003055 catalytic residue [active] 748280003056 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 748280003057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 748280003058 FixH; Region: FixH; pfam05751 748280003059 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 748280003060 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280003061 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 748280003062 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 748280003063 Cytochrome c; Region: Cytochrom_C; pfam00034 748280003064 Cytochrome c; Region: Cytochrom_C; pfam00034 748280003065 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 748280003066 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 748280003067 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 748280003068 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 748280003069 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 748280003070 Low-spin heme binding site [chemical binding]; other site 748280003071 Putative water exit pathway; other site 748280003072 Binuclear center (active site) [active] 748280003073 Putative proton exit pathway; other site 748280003074 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 748280003075 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 748280003076 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 748280003077 aminopeptidase N; Provisional; Region: pepN; PRK14015 748280003078 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 748280003079 active site 748280003080 Zn binding site [ion binding]; other site 748280003081 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 748280003082 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 748280003083 S-adenosylmethionine binding site [chemical binding]; other site 748280003084 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 748280003085 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 748280003086 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 748280003087 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 748280003088 Tetramer interface [polypeptide binding]; other site 748280003089 active site 748280003090 FMN-binding site [chemical binding]; other site 748280003091 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280003092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 748280003094 Transposase; Region: HTH_Tnp_1; pfam01527 748280003095 IS2 transposase TnpB; Reviewed; Region: PRK09409 748280003096 HTH-like domain; Region: HTH_21; pfam13276 748280003097 Integrase core domain; Region: rve; pfam00665 748280003098 Integrase core domain; Region: rve_3; pfam13683 748280003099 Transposase; Region: HTH_Tnp_1; cl17663 748280003100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 748280003101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280003102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280003103 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 748280003104 dimerization interface [polypeptide binding]; other site 748280003105 integrase; Provisional; Region: PRK09692 748280003106 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 748280003107 active site 748280003108 Int/Topo IB signature motif; other site 748280003109 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280003110 Sel1-like repeats; Region: SEL1; smart00671 748280003111 Sel1-like repeats; Region: SEL1; smart00671 748280003112 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 748280003113 HD domain; Region: HD_4; pfam13328 748280003114 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 748280003115 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 748280003116 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 748280003117 Protein of unknown function DUF45; Region: DUF45; pfam01863 748280003118 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 748280003119 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 748280003120 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 748280003121 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 748280003122 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 748280003123 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 748280003124 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 748280003125 HsdM N-terminal domain; Region: HsdM_N; pfam12161 748280003126 Methyltransferase domain; Region: Methyltransf_26; pfam13659 748280003127 DNA protecting protein DprA; Region: dprA; TIGR00732 748280003128 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 748280003129 FaeA-like protein; Region: FaeA; pfam04703 748280003130 DEAD-like helicases superfamily; Region: DEXDc; smart00487 748280003131 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 748280003132 ATP binding site [chemical binding]; other site 748280003133 putative Mg++ binding site [ion binding]; other site 748280003134 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 748280003135 nucleotide binding region [chemical binding]; other site 748280003136 ATP-binding site [chemical binding]; other site 748280003137 hypothetical protein; Provisional; Region: PRK08960 748280003138 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 748280003139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003140 homodimer interface [polypeptide binding]; other site 748280003141 catalytic residue [active] 748280003142 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 748280003143 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 748280003144 Domain of unknown function DUF59; Region: DUF59; pfam01883 748280003145 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 748280003146 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 748280003147 Walker A motif; other site 748280003148 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 748280003149 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 748280003150 active site 748280003151 HIGH motif; other site 748280003152 KMSKS motif; other site 748280003153 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 748280003154 tRNA binding surface [nucleotide binding]; other site 748280003155 anticodon binding site; other site 748280003156 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 748280003157 dimer interface [polypeptide binding]; other site 748280003158 putative tRNA-binding site [nucleotide binding]; other site 748280003159 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 748280003160 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 748280003161 PAS domain; Region: PAS_9; pfam13426 748280003162 putative active site [active] 748280003163 heme pocket [chemical binding]; other site 748280003164 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280003165 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280003166 dimer interface [polypeptide binding]; other site 748280003167 putative CheW interface [polypeptide binding]; other site 748280003168 hypothetical protein; Validated; Region: PRK02101 748280003169 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 748280003170 putative active site [active] 748280003171 dimerization interface [polypeptide binding]; other site 748280003172 putative tRNAtyr binding site [nucleotide binding]; other site 748280003173 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 748280003174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280003175 catalytic residue [active] 748280003176 LysM domain; Region: LysM; pfam01476 748280003177 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 748280003178 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 748280003179 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 748280003180 Methyltransferase domain; Region: Methyltransf_11; pfam08241 748280003181 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 748280003182 RNA/DNA hybrid binding site [nucleotide binding]; other site 748280003183 active site 748280003184 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 748280003185 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 748280003186 active site 748280003187 catalytic site [active] 748280003188 substrate binding site [chemical binding]; other site 748280003189 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 748280003190 substrate binding site; other site 748280003191 dimer interface; other site 748280003192 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 748280003193 homotrimer interaction site [polypeptide binding]; other site 748280003194 zinc binding site [ion binding]; other site 748280003195 CDP-binding sites; other site 748280003196 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 748280003197 tetramer (dimer of dimers) interface [polypeptide binding]; other site 748280003198 active site 748280003199 dimer interface [polypeptide binding]; other site 748280003200 transcriptional regulator PhoU; Provisional; Region: PRK11115 748280003201 PhoU domain; Region: PhoU; pfam01895 748280003202 PhoU domain; Region: PhoU; pfam01895 748280003203 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 748280003204 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 748280003205 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 748280003206 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 748280003207 oligomer interface [polypeptide binding]; other site 748280003208 metal binding site [ion binding]; metal-binding site 748280003209 metal binding site [ion binding]; metal-binding site 748280003210 Cl binding site [ion binding]; other site 748280003211 aspartate ring; other site 748280003212 basic sphincter; other site 748280003213 putative hydrophobic gate; other site 748280003214 periplasmic entrance; other site 748280003215 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280003216 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 748280003217 metal-binding site [ion binding] 748280003218 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280003219 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 748280003220 metal-binding site [ion binding] 748280003221 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280003222 Soluble P-type ATPase [General function prediction only]; Region: COG4087 748280003223 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 748280003224 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 748280003225 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 748280003226 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 748280003227 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280003228 Walker A/P-loop; other site 748280003229 ATP binding site [chemical binding]; other site 748280003230 Q-loop/lid; other site 748280003231 ABC transporter signature motif; other site 748280003232 Walker B; other site 748280003233 D-loop; other site 748280003234 H-loop/switch region; other site 748280003235 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 748280003236 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 748280003237 substrate binding pocket [chemical binding]; other site 748280003238 membrane-bound complex binding site; other site 748280003239 hinge residues; other site 748280003240 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 748280003241 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 748280003242 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 748280003243 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280003244 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 748280003245 dimer interface [polypeptide binding]; other site 748280003246 active site 748280003247 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280003248 folate binding site [chemical binding]; other site 748280003249 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 748280003250 ATP cone domain; Region: ATP-cone; pfam03477 748280003251 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 748280003252 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 748280003253 catalytic motif [active] 748280003254 Zn binding site [ion binding]; other site 748280003255 RibD C-terminal domain; Region: RibD_C; cl17279 748280003256 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 748280003257 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 748280003258 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 748280003259 active site 748280003260 Zn binding site [ion binding]; other site 748280003261 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 748280003262 putative deacylase active site [active] 748280003263 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 748280003264 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 748280003265 active site 748280003266 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280003267 dimer interface [polypeptide binding]; other site 748280003268 substrate binding site [chemical binding]; other site 748280003269 catalytic residue [active] 748280003270 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 748280003271 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280003272 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 748280003273 substrate binding pocket [chemical binding]; other site 748280003274 membrane-bound complex binding site; other site 748280003275 hinge residues; other site 748280003276 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 748280003277 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 748280003278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 748280003279 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 748280003280 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280003281 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 748280003282 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 748280003283 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 748280003284 ligand binding site [chemical binding]; other site 748280003285 Protein of unknown function (DUF796); Region: DUF796; pfam05638 748280003286 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 748280003287 Protein of unknown function (DUF877); Region: DUF877; pfam05943 748280003288 Protein of unknown function (DUF770); Region: DUF770; pfam05591 748280003289 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 748280003290 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 748280003291 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 748280003292 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 748280003293 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 748280003294 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 748280003295 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 748280003296 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 748280003297 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 748280003298 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 748280003299 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 748280003300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 748280003301 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 748280003302 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280003303 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 748280003304 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 748280003305 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 748280003306 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 748280003307 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 748280003308 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 748280003309 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 748280003310 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 748280003311 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 748280003312 Clp amino terminal domain; Region: Clp_N; pfam02861 748280003313 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 748280003314 Walker A motif; other site 748280003315 ATP binding site [chemical binding]; other site 748280003316 Walker B motif; other site 748280003317 arginine finger; other site 748280003318 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 748280003319 Walker A motif; other site 748280003320 ATP binding site [chemical binding]; other site 748280003321 Walker B motif; other site 748280003322 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 748280003323 PAAR motif; Region: PAAR_motif; pfam05488 748280003324 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 748280003325 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 748280003326 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 748280003327 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 748280003328 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 748280003329 putative DNA binding site [nucleotide binding]; other site 748280003330 putative Zn2+ binding site [ion binding]; other site 748280003331 AsnC family; Region: AsnC_trans_reg; pfam01037 748280003332 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280003333 hydroxyglutarate oxidase; Provisional; Region: PRK11728 748280003334 alanine racemase; Reviewed; Region: dadX; PRK03646 748280003335 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 748280003336 active site 748280003337 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280003338 substrate binding site [chemical binding]; other site 748280003339 catalytic residues [active] 748280003340 dimer interface [polypeptide binding]; other site 748280003341 Transcriptional regulators [Transcription]; Region: PurR; COG1609 748280003342 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 748280003343 DNA binding site [nucleotide binding] 748280003344 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 748280003345 putative dimerization interface [polypeptide binding]; other site 748280003346 putative ligand binding site [chemical binding]; other site 748280003347 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 748280003348 ATP-binding site [chemical binding]; other site 748280003349 Gluconate-6-phosphate binding site [chemical binding]; other site 748280003350 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 748280003351 D-galactonate transporter; Region: 2A0114; TIGR00893 748280003352 putative substrate translocation pore; other site 748280003353 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 748280003354 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 748280003355 active site 748280003356 phosphorylation site [posttranslational modification] 748280003357 intermolecular recognition site; other site 748280003358 dimerization interface [polypeptide binding]; other site 748280003359 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 748280003360 DNA binding residues [nucleotide binding] 748280003361 dimerization interface [polypeptide binding]; other site 748280003362 PAS domain S-box; Region: sensory_box; TIGR00229 748280003363 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 748280003364 putative active site [active] 748280003365 heme pocket [chemical binding]; other site 748280003366 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 748280003367 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 748280003368 putative active site [active] 748280003369 heme pocket [chemical binding]; other site 748280003370 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 748280003371 dimer interface [polypeptide binding]; other site 748280003372 phosphorylation site [posttranslational modification] 748280003373 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 748280003374 ATP binding site [chemical binding]; other site 748280003375 Mg2+ binding site [ion binding]; other site 748280003376 G-X-G motif; other site 748280003377 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 748280003378 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 748280003379 putative ligand binding site [chemical binding]; other site 748280003380 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280003381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003382 DNA-binding site [nucleotide binding]; DNA binding site 748280003383 FCD domain; Region: FCD; pfam07729 748280003384 potential protein location (hypothetical protein NH8B_1148 [Pseudogulbenkiania sp. NH8B]) that overlaps RNA (tRNA-H) 748280003385 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 748280003386 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 748280003387 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 748280003388 homodimer interface [polypeptide binding]; other site 748280003389 NADP binding site [chemical binding]; other site 748280003390 substrate binding site [chemical binding]; other site 748280003391 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 748280003392 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280003393 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280003394 putative active site [active] 748280003395 putative substrate binding site [chemical binding]; other site 748280003396 putative cosubstrate binding site; other site 748280003397 catalytic site [active] 748280003398 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 748280003399 catalytic residues [active] 748280003400 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 748280003401 nudix motif; other site 748280003402 hypothetical protein; Provisional; Region: PRK10396 748280003403 yecA family protein; Region: ygfB_yecA; TIGR02292 748280003404 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 748280003405 TRAM domain; Region: TRAM; cl01282 748280003406 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 748280003407 S-adenosylmethionine binding site [chemical binding]; other site 748280003408 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280003409 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 748280003410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003411 DNA-binding site [nucleotide binding]; DNA binding site 748280003412 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 748280003413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003414 homodimer interface [polypeptide binding]; other site 748280003415 catalytic residue [active] 748280003416 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280003417 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 748280003418 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 748280003419 active site 748280003420 HIGH motif; other site 748280003421 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 748280003422 active site 748280003423 KMSKS motif; other site 748280003424 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 748280003425 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 748280003426 heme binding site [chemical binding]; other site 748280003427 ferroxidase pore; other site 748280003428 ferroxidase diiron center [ion binding]; other site 748280003429 Yip1 domain; Region: Yip1; cl17815 748280003430 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 748280003431 Benzoate membrane transport protein; Region: BenE; pfam03594 748280003432 benzoate transporter; Region: benE; TIGR00843 748280003433 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 748280003434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003435 DNA-binding site [nucleotide binding]; DNA binding site 748280003436 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 748280003437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003438 homodimer interface [polypeptide binding]; other site 748280003439 catalytic residue [active] 748280003440 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280003441 Isochorismatase family; Region: Isochorismatase; pfam00857 748280003442 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 748280003443 catalytic triad [active] 748280003444 conserved cis-peptide bond; other site 748280003445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 748280003446 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 748280003447 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 748280003448 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 748280003449 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280003450 conserved cys residue [active] 748280003451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003452 LPP20 lipoprotein; Region: LPP20; pfam02169 748280003453 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 748280003454 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 748280003455 putative ligand binding site [chemical binding]; other site 748280003456 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 748280003457 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 748280003458 catalytic loop [active] 748280003459 iron binding site [ion binding]; other site 748280003460 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 748280003461 FAD binding pocket [chemical binding]; other site 748280003462 conserved FAD binding motif [chemical binding]; other site 748280003463 phosphate binding motif [ion binding]; other site 748280003464 beta-alpha-beta structure motif; other site 748280003465 NAD binding pocket [chemical binding]; other site 748280003466 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 748280003467 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 748280003468 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 748280003469 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 748280003470 dimer interface [polypeptide binding]; other site 748280003471 conserved gate region; other site 748280003472 putative PBP binding loops; other site 748280003473 ABC-ATPase subunit interface; other site 748280003474 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 748280003475 dimer interface [polypeptide binding]; other site 748280003476 conserved gate region; other site 748280003477 putative PBP binding loops; other site 748280003478 ABC-ATPase subunit interface; other site 748280003479 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280003480 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 748280003481 Walker A/P-loop; other site 748280003482 ATP binding site [chemical binding]; other site 748280003483 Q-loop/lid; other site 748280003484 ABC transporter signature motif; other site 748280003485 Walker B; other site 748280003486 D-loop; other site 748280003487 H-loop/switch region; other site 748280003488 TOBE domain; Region: TOBE_2; pfam08402 748280003489 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280003490 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 748280003491 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 748280003492 putative NAD(P) binding site [chemical binding]; other site 748280003493 dimer interface [polypeptide binding]; other site 748280003494 transcriptional activator TtdR; Provisional; Region: PRK09801 748280003495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280003496 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 748280003497 putative effector binding pocket; other site 748280003498 dimerization interface [polypeptide binding]; other site 748280003499 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 748280003500 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 748280003501 excinuclease ABC subunit B; Provisional; Region: PRK05298 748280003502 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 748280003503 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 748280003504 ATP-binding site [chemical binding]; other site 748280003505 ATP binding site [chemical binding]; other site 748280003506 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 748280003507 nucleotide binding region [chemical binding]; other site 748280003508 ATP-binding site [chemical binding]; other site 748280003509 Ultra-violet resistance protein B; Region: UvrB; pfam12344 748280003510 UvrB/uvrC motif; Region: UVR; pfam02151 748280003511 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 748280003512 DNA-binding site [nucleotide binding]; DNA binding site 748280003513 RNA-binding motif; other site 748280003514 Low molecular weight phosphatase family; Region: LMWPc; cd00115 748280003515 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 748280003516 active site 748280003517 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 748280003518 CheB methylesterase; Region: CheB_methylest; pfam01339 748280003519 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280003520 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 748280003521 active site 748280003522 phosphorylation site [posttranslational modification] 748280003523 intermolecular recognition site; other site 748280003524 dimerization interface [polypeptide binding]; other site 748280003525 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 748280003526 Walker A motif; other site 748280003527 ATP binding site [chemical binding]; other site 748280003528 Walker B motif; other site 748280003529 arginine finger; other site 748280003530 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280003531 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 748280003532 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 748280003533 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 748280003534 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 748280003535 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 748280003536 MgtE intracellular N domain; Region: MgtE_N; cl15244 748280003537 FliG C-terminal domain; Region: FliG_C; pfam01706 748280003538 flagellar assembly protein H; Validated; Region: fliH; PRK05687 748280003539 Flagellar assembly protein FliH; Region: FliH; pfam02108 748280003540 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 748280003541 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 748280003542 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 748280003543 Walker A motif/ATP binding site; other site 748280003544 Walker B motif; other site 748280003545 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 748280003546 Flagellar FliJ protein; Region: FliJ; pfam02050 748280003547 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 748280003548 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 748280003549 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 748280003550 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 748280003551 flagellar motor switch protein; Validated; Region: fliN; PRK05698 748280003552 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 748280003553 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 748280003554 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 748280003555 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 748280003556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280003557 Coenzyme A binding pocket [chemical binding]; other site 748280003558 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 748280003559 potential frameshift: common BLAST hit: gi|34498579|ref|NP_902794.1| flagellar biosynthetic protein FliR 748280003560 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 748280003561 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 748280003562 hypothetical protein; Validated; Region: PRK00110 748280003563 proline aminopeptidase P II; Provisional; Region: PRK10879 748280003564 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 748280003565 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 748280003566 active site 748280003567 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 748280003568 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 748280003569 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 748280003570 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 748280003571 dimerization domain [polypeptide binding]; other site 748280003572 dimer interface [polypeptide binding]; other site 748280003573 catalytic residues [active] 748280003574 Gram-negative bacterial tonB protein; Region: TonB; cl10048 748280003575 Acyl CoA binding protein; Region: ACBP; pfam00887 748280003576 acyl-CoA binding pocket [chemical binding]; other site 748280003577 CoA binding site [chemical binding]; other site 748280003578 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 748280003579 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 748280003580 NAD binding site [chemical binding]; other site 748280003581 substrate binding site [chemical binding]; other site 748280003582 homodimer interface [polypeptide binding]; other site 748280003583 active site 748280003584 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 748280003585 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 748280003586 NADP binding site [chemical binding]; other site 748280003587 active site 748280003588 putative substrate binding site [chemical binding]; other site 748280003589 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 748280003590 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 748280003591 substrate binding site; other site 748280003592 tetramer interface; other site 748280003593 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 748280003594 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 748280003595 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 748280003596 dimerization interface [polypeptide binding]; other site 748280003597 allosteric effector site; other site 748280003598 active site 748280003599 ADP/pyrophosphate binding site [chemical binding]; other site 748280003600 fructose-1,6-bisphosphate binding site; other site 748280003601 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 748280003602 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 748280003603 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 748280003604 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 748280003605 catalytic loop [active] 748280003606 iron binding site [ion binding]; other site 748280003607 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 748280003608 [4Fe-4S] binding site [ion binding]; other site 748280003609 molybdopterin cofactor binding site; other site 748280003610 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 748280003611 molybdopterin cofactor binding site; other site 748280003612 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 748280003613 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 748280003614 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 748280003615 Beta-Casp domain; Region: Beta-Casp; smart01027 748280003616 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 748280003617 Clp protease; Region: CLP_protease; pfam00574 748280003618 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 748280003619 oligomer interface [polypeptide binding]; other site 748280003620 active site residues [active] 748280003621 pyruvate kinase; Provisional; Region: PRK06247 748280003622 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 748280003623 domain interfaces; other site 748280003624 active site 748280003625 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 748280003626 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 748280003627 tetrameric interface [polypeptide binding]; other site 748280003628 activator binding site; other site 748280003629 NADP binding site [chemical binding]; other site 748280003630 substrate binding site [chemical binding]; other site 748280003631 catalytic residues [active] 748280003632 putative oxidoreductase; Provisional; Region: PRK11579 748280003633 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 748280003634 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 748280003635 hypothetical protein; Provisional; Region: PRK02487 748280003636 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 748280003637 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 748280003638 active site 748280003639 dimer interface [polypeptide binding]; other site 748280003640 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 748280003641 dimer interface [polypeptide binding]; other site 748280003642 active site 748280003643 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 748280003644 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 748280003645 trimer interface [polypeptide binding]; other site 748280003646 eyelet of channel; other site 748280003647 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 748280003648 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 748280003649 active site 748280003650 motif I; other site 748280003651 motif II; other site 748280003652 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 748280003653 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280003654 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 748280003655 putative substrate binding site [chemical binding]; other site 748280003656 putative ATP binding site [chemical binding]; other site 748280003657 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 748280003658 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 748280003659 TM-ABC transporter signature motif; other site 748280003660 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 748280003661 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 748280003662 Walker A/P-loop; other site 748280003663 ATP binding site [chemical binding]; other site 748280003664 Q-loop/lid; other site 748280003665 ABC transporter signature motif; other site 748280003666 Walker B; other site 748280003667 D-loop; other site 748280003668 H-loop/switch region; other site 748280003669 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 748280003670 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 748280003671 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 748280003672 putative ligand binding site [chemical binding]; other site 748280003673 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 748280003674 active site 748280003675 P-loop; other site 748280003676 phosphorylation site [posttranslational modification] 748280003677 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 748280003678 active site 748280003679 P-loop; other site 748280003680 phosphorylation site [posttranslational modification] 748280003681 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 748280003682 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 748280003683 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 748280003684 putative substrate binding site [chemical binding]; other site 748280003685 putative ATP binding site [chemical binding]; other site 748280003686 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 748280003687 active site 748280003688 phosphorylation site [posttranslational modification] 748280003689 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 748280003690 dimerization domain swap beta strand [polypeptide binding]; other site 748280003691 regulatory protein interface [polypeptide binding]; other site 748280003692 active site 748280003693 regulatory phosphorylation site [posttranslational modification]; other site 748280003694 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 748280003695 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 748280003696 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 748280003697 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 748280003698 Transcriptional regulators [Transcription]; Region: PurR; COG1609 748280003699 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 748280003700 DNA binding site [nucleotide binding] 748280003701 domain linker motif; other site 748280003702 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 748280003703 Predicted small integral membrane protein [Function unknown]; Region: COG5605 748280003704 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 748280003705 Subunit I/III interface [polypeptide binding]; other site 748280003706 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 748280003707 Subunit I/III interface [polypeptide binding]; other site 748280003708 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 748280003709 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 748280003710 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 748280003711 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 748280003712 Cytochrome c; Region: Cytochrom_C; cl11414 748280003713 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 748280003714 catalytic residues [active] 748280003715 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 748280003716 homotrimer interaction site [polypeptide binding]; other site 748280003717 putative active site [active] 748280003718 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 748280003719 active site 748280003720 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280003721 Predicted membrane protein [Function unknown]; Region: COG4648 748280003722 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 748280003723 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280003724 acyl-activating enzyme (AAE) consensus motif; other site 748280003725 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280003726 AMP binding site [chemical binding]; other site 748280003727 active site 748280003728 acyl-activating enzyme (AAE) consensus motif; other site 748280003729 CoA binding site [chemical binding]; other site 748280003730 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 748280003731 active site 2 [active] 748280003732 dimer interface [polypeptide binding]; other site 748280003733 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 748280003734 putative acyl-acceptor binding pocket; other site 748280003735 Predicted exporter [General function prediction only]; Region: COG4258 748280003736 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280003737 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 748280003738 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 748280003739 NodB motif; other site 748280003740 active site 748280003741 catalytic site [active] 748280003742 metal binding site [ion binding]; metal-binding site 748280003743 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 748280003744 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 748280003745 dimer interface [polypeptide binding]; other site 748280003746 active site 748280003747 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 748280003748 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 748280003749 putative active site 1 [active] 748280003750 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280003751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280003752 NAD(P) binding site [chemical binding]; other site 748280003753 active site 748280003754 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 748280003755 active site 2 [active] 748280003756 active site 1 [active] 748280003757 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 748280003758 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 748280003759 dimer interface [polypeptide binding]; other site 748280003760 active site 748280003761 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 748280003762 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280003763 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 748280003764 putative acyl-acceptor binding pocket; other site 748280003765 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 748280003766 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 748280003767 Ligand binding site; other site 748280003768 Putative Catalytic site; other site 748280003769 DXD motif; other site 748280003770 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 748280003771 S-adenosylmethionine binding site [chemical binding]; other site 748280003772 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 748280003773 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 748280003774 dimer interface [polypeptide binding]; other site 748280003775 ssDNA binding site [nucleotide binding]; other site 748280003776 tetramer (dimer of dimers) interface [polypeptide binding]; other site 748280003777 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 748280003778 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280003779 putative substrate translocation pore; other site 748280003780 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 748280003781 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 748280003782 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 748280003783 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 748280003784 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 748280003785 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 748280003786 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280003787 substrate binding pocket [chemical binding]; other site 748280003788 membrane-bound complex binding site; other site 748280003789 hinge residues; other site 748280003790 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 748280003791 nitrilase; Region: PLN02798 748280003792 putative active site [active] 748280003793 catalytic triad [active] 748280003794 dimer interface [polypeptide binding]; other site 748280003795 putative aminotransferase; Provisional; Region: PRK12414 748280003796 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 748280003797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280003798 homodimer interface [polypeptide binding]; other site 748280003799 catalytic residue [active] 748280003800 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280003801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280003802 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 748280003803 dimerization interface [polypeptide binding]; other site 748280003804 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 748280003805 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 748280003806 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 748280003807 nudix motif; other site 748280003808 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 748280003809 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 748280003810 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 748280003811 heme binding site [chemical binding]; other site 748280003812 ferroxidase pore; other site 748280003813 ferroxidase diiron center [ion binding]; other site 748280003814 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 748280003815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 748280003816 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 748280003817 Fatty acid desaturase; Region: FA_desaturase; pfam00487 748280003818 Di-iron ligands [ion binding]; other site 748280003819 Transposase; Region: DDE_Tnp_ISL3; pfam01610 748280003820 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 748280003821 homotrimer interaction site [polypeptide binding]; other site 748280003822 putative active site [active] 748280003823 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 748280003824 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 748280003825 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 748280003826 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280003827 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 748280003828 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 748280003829 exonuclease I; Provisional; Region: sbcB; PRK11779 748280003830 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 748280003831 active site 748280003832 catalytic site [active] 748280003833 substrate binding site [chemical binding]; other site 748280003834 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 748280003835 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 748280003836 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 748280003837 ATP binding site [chemical binding]; other site 748280003838 Mg2+ binding site [ion binding]; other site 748280003839 G-X-G motif; other site 748280003840 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 748280003841 ATP binding site [chemical binding]; other site 748280003842 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 748280003843 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 748280003844 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 748280003845 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 748280003846 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 748280003847 Protein export membrane protein; Region: SecD_SecF; pfam02355 748280003848 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 748280003849 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 748280003850 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 748280003851 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 748280003852 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 748280003853 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 748280003854 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 748280003855 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 748280003856 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 748280003857 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 748280003858 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 748280003859 active site 748280003860 dimer interface [polypeptide binding]; other site 748280003861 motif 1; other site 748280003862 motif 2; other site 748280003863 motif 3; other site 748280003864 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 748280003865 anticodon binding site; other site 748280003866 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 748280003867 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 748280003868 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 748280003869 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 748280003870 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 748280003871 23S rRNA binding site [nucleotide binding]; other site 748280003872 L21 binding site [polypeptide binding]; other site 748280003873 L13 binding site [polypeptide binding]; other site 748280003874 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 748280003875 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 748280003876 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 748280003877 dimer interface [polypeptide binding]; other site 748280003878 motif 1; other site 748280003879 active site 748280003880 motif 2; other site 748280003881 motif 3; other site 748280003882 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 748280003883 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 748280003884 putative tRNA-binding site [nucleotide binding]; other site 748280003885 B3/4 domain; Region: B3_4; pfam03483 748280003886 tRNA synthetase B5 domain; Region: B5; smart00874 748280003887 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 748280003888 dimer interface [polypeptide binding]; other site 748280003889 motif 1; other site 748280003890 motif 3; other site 748280003891 motif 2; other site 748280003892 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 748280003893 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 748280003894 IHF - DNA interface [nucleotide binding]; other site 748280003895 IHF dimer interface [polypeptide binding]; other site 748280003896 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 748280003897 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 748280003898 DNA binding residues [nucleotide binding] 748280003899 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 748280003900 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 748280003901 S-adenosylmethionine binding site [chemical binding]; other site 748280003902 HAMP domain; Region: HAMP; pfam00672 748280003903 dimerization interface [polypeptide binding]; other site 748280003904 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280003905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280003906 dimer interface [polypeptide binding]; other site 748280003907 putative CheW interface [polypeptide binding]; other site 748280003908 Predicted membrane protein [Function unknown]; Region: COG2119 748280003909 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 748280003910 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 748280003911 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 748280003912 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 748280003913 potential frameshift: common BLAST hit: gi|82702860|ref|YP_412426.1| glycine cleavage T protein (aminomethyl transferase) 748280003914 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 748280003915 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 748280003916 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 748280003917 H-NS histone family; Region: Histone_HNS; pfam00816 748280003918 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 748280003919 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 748280003920 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 748280003921 putative active site [active] 748280003922 Zn binding site [ion binding]; other site 748280003923 Phasin protein; Region: Phasin_2; pfam09361 748280003924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 748280003925 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 748280003926 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 748280003927 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 748280003928 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 748280003929 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 748280003930 FOG: CBS domain [General function prediction only]; Region: COG0517 748280003931 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 748280003932 FOG: CBS domain [General function prediction only]; Region: COG0517 748280003933 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 748280003934 FOG: CBS domain [General function prediction only]; Region: COG0517 748280003935 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 748280003936 PAS domain; Region: PAS_9; pfam13426 748280003937 putative active site [active] 748280003938 heme pocket [chemical binding]; other site 748280003939 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280003940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280003941 metal binding site [ion binding]; metal-binding site 748280003942 active site 748280003943 I-site; other site 748280003944 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 748280003945 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 748280003946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003947 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280003948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280003949 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280003950 seryl-tRNA synthetase; Provisional; Region: PRK05431 748280003951 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 748280003952 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 748280003953 dimer interface [polypeptide binding]; other site 748280003954 active site 748280003955 motif 1; other site 748280003956 motif 2; other site 748280003957 motif 3; other site 748280003958 recombination factor protein RarA; Reviewed; Region: PRK13342 748280003959 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 748280003960 Walker A motif; other site 748280003961 ATP binding site [chemical binding]; other site 748280003962 Walker B motif; other site 748280003963 arginine finger; other site 748280003964 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 748280003965 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 748280003966 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 748280003967 NAD synthetase; Provisional; Region: PRK13981 748280003968 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 748280003969 multimer interface [polypeptide binding]; other site 748280003970 active site 748280003971 catalytic triad [active] 748280003972 protein interface 1 [polypeptide binding]; other site 748280003973 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 748280003974 homodimer interface [polypeptide binding]; other site 748280003975 NAD binding pocket [chemical binding]; other site 748280003976 ATP binding pocket [chemical binding]; other site 748280003977 Mg binding site [ion binding]; other site 748280003978 active-site loop [active] 748280003979 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 748280003980 Protein of unknown function, DUF482; Region: DUF482; pfam04339 748280003981 Transcriptional regulators [Transcription]; Region: FadR; COG2186 748280003982 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280003983 DNA-binding site [nucleotide binding]; DNA binding site 748280003984 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 748280003985 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 748280003986 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 748280003987 putative NAD(P) binding site [chemical binding]; other site 748280003988 active site 748280003989 putative substrate binding site [chemical binding]; other site 748280003990 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 748280003991 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 748280003992 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 748280003993 putative substrate translocation pore; other site 748280003994 putative aldolase; Validated; Region: PRK08130 748280003995 intersubunit interface [polypeptide binding]; other site 748280003996 active site 748280003997 Zn2+ binding site [ion binding]; other site 748280003998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 748280003999 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 748280004000 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280004001 Predicted flavoprotein [General function prediction only]; Region: COG0431 748280004002 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 748280004003 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280004004 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280004005 conserved cys residue [active] 748280004006 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 748280004007 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 748280004008 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 748280004009 active site 748280004010 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280004011 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 748280004012 dimer interface [polypeptide binding]; other site 748280004013 active site 748280004014 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280004015 folate binding site [chemical binding]; other site 748280004016 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 748280004017 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 748280004018 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 748280004019 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 748280004020 hydroxyglutarate oxidase; Provisional; Region: PRK11728 748280004021 hydroxyglutarate oxidase; Provisional; Region: PRK11728 748280004022 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 748280004023 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 748280004024 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 748280004025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280004026 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 748280004027 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280004028 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 748280004029 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 748280004030 active site 748280004031 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 748280004032 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280004033 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280004034 putative active site [active] 748280004035 putative substrate binding site [chemical binding]; other site 748280004036 putative cosubstrate binding site; other site 748280004037 catalytic site [active] 748280004038 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 748280004039 Na binding site [ion binding]; other site 748280004040 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 748280004041 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 748280004042 Na binding site [ion binding]; other site 748280004043 Creatinine amidohydrolase; Region: Creatininase; pfam02633 748280004044 Cache domain; Region: Cache_1; pfam02743 748280004045 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 748280004046 dimerization interface [polypeptide binding]; other site 748280004047 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004048 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004049 dimer interface [polypeptide binding]; other site 748280004050 putative CheW interface [polypeptide binding]; other site 748280004051 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 748280004052 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 748280004053 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 748280004054 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280004055 conserved cys residue [active] 748280004056 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280004057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280004058 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 748280004059 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 748280004060 Isochorismatase family; Region: Isochorismatase; pfam00857 748280004061 catalytic triad [active] 748280004062 metal binding site [ion binding]; metal-binding site 748280004063 conserved cis-peptide bond; other site 748280004064 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 748280004065 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 748280004066 active site 748280004067 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 748280004068 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 748280004069 putative active site [active] 748280004070 putative metal binding site [ion binding]; other site 748280004071 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 748280004072 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 748280004073 hypothetical protein; Reviewed; Region: PRK09588 748280004074 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 748280004075 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 748280004076 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280004077 Zn2+ binding site [ion binding]; other site 748280004078 Mg2+ binding site [ion binding]; other site 748280004079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280004080 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 748280004081 ATP binding site [chemical binding]; other site 748280004082 Mg2+ binding site [ion binding]; other site 748280004083 G-X-G motif; other site 748280004084 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280004085 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 748280004086 substrate binding pocket [chemical binding]; other site 748280004087 membrane-bound complex binding site; other site 748280004088 hinge residues; other site 748280004089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280004090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280004091 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 748280004092 putative effector binding pocket; other site 748280004093 putative dimerization interface [polypeptide binding]; other site 748280004094 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 748280004095 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 748280004096 substrate binding site [chemical binding]; other site 748280004097 catalytic Zn binding site [ion binding]; other site 748280004098 NAD binding site [chemical binding]; other site 748280004099 structural Zn binding site [ion binding]; other site 748280004100 dimer interface [polypeptide binding]; other site 748280004101 S-formylglutathione hydrolase; Region: PLN02442 748280004102 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 748280004103 choline dehydrogenase; Validated; Region: PRK02106 748280004104 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280004105 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 748280004106 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 748280004107 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 748280004108 tetrameric interface [polypeptide binding]; other site 748280004109 NAD binding site [chemical binding]; other site 748280004110 catalytic residues [active] 748280004111 benzoate transport; Region: 2A0115; TIGR00895 748280004112 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 748280004113 putative substrate translocation pore; other site 748280004114 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 748280004115 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280004116 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280004117 ABC-2 type transporter; Region: ABC2_membrane; cl17235 748280004118 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280004119 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280004120 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 748280004121 Walker A/P-loop; other site 748280004122 ATP binding site [chemical binding]; other site 748280004123 Q-loop/lid; other site 748280004124 ABC transporter signature motif; other site 748280004125 Walker B; other site 748280004126 D-loop; other site 748280004127 H-loop/switch region; other site 748280004128 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 748280004129 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 748280004130 putative substrate binding pocket [chemical binding]; other site 748280004131 putative dimerization interface [polypeptide binding]; other site 748280004132 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 748280004133 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 748280004134 dimer interface [polypeptide binding]; other site 748280004135 active site 748280004136 heme binding site [chemical binding]; other site 748280004137 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 748280004138 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 748280004139 ATP binding site [chemical binding]; other site 748280004140 putative Mg++ binding site [ion binding]; other site 748280004141 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 748280004142 nucleotide binding region [chemical binding]; other site 748280004143 ATP-binding site [chemical binding]; other site 748280004144 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 748280004145 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 748280004146 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280004147 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280004148 putative active site [active] 748280004149 putative substrate binding site [chemical binding]; other site 748280004150 putative cosubstrate binding site; other site 748280004151 catalytic site [active] 748280004152 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 748280004153 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 748280004154 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 748280004155 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 748280004156 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 748280004157 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280004158 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 748280004159 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 748280004160 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 748280004161 active site 748280004162 dimer interface [polypeptide binding]; other site 748280004163 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 748280004164 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 748280004165 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 748280004166 dimer interface [polypeptide binding]; other site 748280004167 decamer (pentamer of dimers) interface [polypeptide binding]; other site 748280004168 catalytic triad [active] 748280004169 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 748280004170 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 748280004171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 748280004172 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 748280004173 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280004174 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 748280004175 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 748280004176 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 748280004177 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 748280004178 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 748280004179 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280004180 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 748280004181 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 748280004182 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 748280004183 putative active site [active] 748280004184 putative FMN binding site [chemical binding]; other site 748280004185 putative substrate binding site [chemical binding]; other site 748280004186 putative catalytic residue [active] 748280004187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 748280004188 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 748280004189 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280004190 4Fe-4S binding domain; Region: Fer4; cl02805 748280004191 Cysteine-rich domain; Region: CCG; pfam02754 748280004192 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 748280004193 Electron transfer flavoprotein domain; Region: ETF; smart00893 748280004194 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 748280004195 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 748280004196 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 748280004197 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 748280004198 [2Fe-2S] cluster binding site [ion binding]; other site 748280004199 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 748280004200 putative alpha subunit interface [polypeptide binding]; other site 748280004201 putative active site [active] 748280004202 putative substrate binding site [chemical binding]; other site 748280004203 Fe binding site [ion binding]; other site 748280004204 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 748280004205 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 748280004206 FAD binding pocket [chemical binding]; other site 748280004207 FAD binding motif [chemical binding]; other site 748280004208 phosphate binding motif [ion binding]; other site 748280004209 beta-alpha-beta structure motif; other site 748280004210 NAD binding pocket [chemical binding]; other site 748280004211 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 748280004212 catalytic loop [active] 748280004213 iron binding site [ion binding]; other site 748280004214 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 748280004215 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 748280004216 Walker A/P-loop; other site 748280004217 ATP binding site [chemical binding]; other site 748280004218 Q-loop/lid; other site 748280004219 ABC transporter signature motif; other site 748280004220 Walker B; other site 748280004221 D-loop; other site 748280004222 H-loop/switch region; other site 748280004223 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 748280004224 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 748280004225 dimer interface [polypeptide binding]; other site 748280004226 conserved gate region; other site 748280004227 putative PBP binding loops; other site 748280004228 ABC-ATPase subunit interface; other site 748280004229 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280004230 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280004231 conserved cys residue [active] 748280004232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280004233 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 748280004234 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 748280004235 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 748280004236 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 748280004237 putative substrate translocation pore; other site 748280004238 methionine sulfoxide reductase B; Provisional; Region: PRK00222 748280004239 SelR domain; Region: SelR; pfam01641 748280004240 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 748280004241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 748280004242 catalytic residues [active] 748280004243 methionine sulfoxide reductase A; Provisional; Region: PRK13014 748280004244 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 748280004245 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 748280004246 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 748280004247 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280004248 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 748280004249 dimer interface [polypeptide binding]; other site 748280004250 active site 748280004251 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280004252 folate binding site [chemical binding]; other site 748280004253 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 748280004254 active site 748280004255 SAM binding site [chemical binding]; other site 748280004256 homodimer interface [polypeptide binding]; other site 748280004257 Cytochrome c; Region: Cytochrom_C; pfam00034 748280004258 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 748280004259 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 748280004260 D-pathway; other site 748280004261 Low-spin heme binding site [chemical binding]; other site 748280004262 Putative water exit pathway; other site 748280004263 K-pathway; other site 748280004264 Binuclear center (active site) [active] 748280004265 Putative proton exit pathway; other site 748280004266 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 748280004267 Subunit I/III interface [polypeptide binding]; other site 748280004268 MoxR-like ATPases [General function prediction only]; Region: COG0714 748280004269 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 748280004270 Walker A motif; other site 748280004271 ATP binding site [chemical binding]; other site 748280004272 Walker B motif; other site 748280004273 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 748280004274 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 748280004275 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 748280004276 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280004277 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 748280004278 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 748280004279 Cytochrome c; Region: Cytochrom_C; cl11414 748280004280 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 748280004281 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 748280004282 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280004283 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280004284 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 748280004285 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280004286 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; cl17220 748280004287 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280004288 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 748280004289 putative C-terminal domain interface [polypeptide binding]; other site 748280004290 putative GSH binding site (G-site) [chemical binding]; other site 748280004291 putative dimer interface [polypeptide binding]; other site 748280004292 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 748280004293 putative N-terminal domain interface [polypeptide binding]; other site 748280004294 putative dimer interface [polypeptide binding]; other site 748280004295 putative substrate binding pocket (H-site) [chemical binding]; other site 748280004296 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280004297 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 748280004298 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 748280004299 FeS/SAM binding site; other site 748280004300 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 748280004301 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280004302 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 748280004303 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 748280004304 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 748280004305 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280004306 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 748280004307 ligand binding site [chemical binding]; other site 748280004308 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 748280004309 putative switch regulator; other site 748280004310 non-specific DNA interactions [nucleotide binding]; other site 748280004311 DNA binding site [nucleotide binding] 748280004312 sequence specific DNA binding site [nucleotide binding]; other site 748280004313 putative cAMP binding site [chemical binding]; other site 748280004314 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 748280004315 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 748280004316 putative substrate translocation pore; other site 748280004317 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 748280004318 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 748280004319 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 748280004320 [4Fe-4S] binding site [ion binding]; other site 748280004321 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 748280004322 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 748280004323 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 748280004324 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 748280004325 molybdopterin cofactor binding site; other site 748280004326 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 748280004327 4Fe-4S binding domain; Region: Fer4; cl02805 748280004328 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 748280004329 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 748280004330 Site-specific recombinase; Region: SpecificRecomb; cl15411 748280004331 Nitrate and nitrite sensing; Region: NIT; pfam08376 748280004332 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 748280004333 dimerization interface [polypeptide binding]; other site 748280004334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004335 dimer interface [polypeptide binding]; other site 748280004336 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280004337 putative CheW interface [polypeptide binding]; other site 748280004338 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 748280004339 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 748280004340 FeS/SAM binding site; other site 748280004341 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 748280004342 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 748280004343 active site clefts [active] 748280004344 zinc binding site [ion binding]; other site 748280004345 dimer interface [polypeptide binding]; other site 748280004346 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 748280004347 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 748280004348 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 748280004349 dimerization interface [polypeptide binding]; other site 748280004350 GAF domain; Region: GAF_3; pfam13492 748280004351 Histidine kinase; Region: HisKA_3; pfam07730 748280004352 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 748280004353 ATP binding site [chemical binding]; other site 748280004354 Mg2+ binding site [ion binding]; other site 748280004355 G-X-G motif; other site 748280004356 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280004357 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 748280004358 active site 748280004359 phosphorylation site [posttranslational modification] 748280004360 intermolecular recognition site; other site 748280004361 dimerization interface [polypeptide binding]; other site 748280004362 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 748280004363 DNA binding residues [nucleotide binding] 748280004364 dimerization interface [polypeptide binding]; other site 748280004365 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280004366 PAS fold; Region: PAS_4; pfam08448 748280004367 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 748280004368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280004369 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 748280004370 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 748280004371 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 748280004372 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 748280004373 inhibitor site; inhibition site 748280004374 active site 748280004375 dimer interface [polypeptide binding]; other site 748280004376 catalytic residue [active] 748280004377 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 748280004378 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 748280004379 dimer interface [polypeptide binding]; other site 748280004380 NADP binding site [chemical binding]; other site 748280004381 catalytic residues [active] 748280004382 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280004383 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280004384 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 748280004385 dimerization interface [polypeptide binding]; other site 748280004386 ligand binding site [chemical binding]; other site 748280004387 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 748280004388 Proline racemase; Region: Pro_racemase; pfam05544 748280004389 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 748280004390 active site 748280004391 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 748280004392 Uncharacterized conserved protein [Function unknown]; Region: COG4121 748280004393 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 748280004394 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 748280004395 active site residue [active] 748280004396 selenophosphate synthetase; Provisional; Region: PRK00943 748280004397 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 748280004398 dimerization interface [polypeptide binding]; other site 748280004399 putative ATP binding site [chemical binding]; other site 748280004400 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 748280004401 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 748280004402 Catalytic site [active] 748280004403 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 748280004404 Clp amino terminal domain; Region: Clp_N; pfam02861 748280004405 Clp amino terminal domain; Region: Clp_N; pfam02861 748280004406 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 748280004407 Walker A motif; other site 748280004408 ATP binding site [chemical binding]; other site 748280004409 Walker B motif; other site 748280004410 arginine finger; other site 748280004411 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 748280004412 Walker A motif; other site 748280004413 ATP binding site [chemical binding]; other site 748280004414 Walker B motif; other site 748280004415 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 748280004416 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 748280004417 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 748280004418 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 748280004419 ANTAR domain; Region: ANTAR; pfam03861 748280004420 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 748280004421 NMT1-like family; Region: NMT1_2; pfam13379 748280004422 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 748280004423 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 748280004424 dimer interface [polypeptide binding]; other site 748280004425 conserved gate region; other site 748280004426 putative PBP binding loops; other site 748280004427 ABC-ATPase subunit interface; other site 748280004428 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 748280004429 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 748280004430 Walker A/P-loop; other site 748280004431 ATP binding site [chemical binding]; other site 748280004432 Q-loop/lid; other site 748280004433 ABC transporter signature motif; other site 748280004434 Walker B; other site 748280004435 D-loop; other site 748280004436 H-loop/switch region; other site 748280004437 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 748280004438 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 748280004439 putative substrate translocation pore; other site 748280004440 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 748280004441 active site 748280004442 Protein kinase domain; Region: Pkinase; pfam00069 748280004443 Catalytic domain of Protein Kinases; Region: PKc; cd00180 748280004444 active site 748280004445 ATP binding site [chemical binding]; other site 748280004446 substrate binding site [chemical binding]; other site 748280004447 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280004448 substrate binding site [chemical binding]; other site 748280004449 activation loop (A-loop); other site 748280004450 activation loop (A-loop); other site 748280004451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280004452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280004453 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 748280004454 dimerization interface [polypeptide binding]; other site 748280004455 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 748280004456 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280004457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280004458 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 748280004459 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 748280004460 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 748280004461 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 748280004462 [2Fe-2S] cluster binding site [ion binding]; other site 748280004463 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 748280004464 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 748280004465 [4Fe-4S] binding site [ion binding]; other site 748280004466 molybdopterin cofactor binding site; other site 748280004467 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 748280004468 molybdopterin cofactor binding site; other site 748280004469 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 748280004470 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 748280004471 active site 748280004472 SAM binding site [chemical binding]; other site 748280004473 homodimer interface [polypeptide binding]; other site 748280004474 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 748280004475 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 748280004476 trimer interface [polypeptide binding]; other site 748280004477 eyelet of channel; other site 748280004478 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 748280004479 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 748280004480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280004481 homodimer interface [polypeptide binding]; other site 748280004482 catalytic residue [active] 748280004483 flagellar assembly protein FliW; Provisional; Region: PRK13284 748280004484 putative protease; Provisional; Region: PRK15452 748280004485 Peptidase family U32; Region: Peptidase_U32; pfam01136 748280004486 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 748280004487 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 748280004488 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 748280004489 active site 748280004490 HIGH motif; other site 748280004491 KMSK motif region; other site 748280004492 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 748280004493 tRNA binding surface [nucleotide binding]; other site 748280004494 anticodon binding site; other site 748280004495 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280004496 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 748280004497 substrate binding pocket [chemical binding]; other site 748280004498 membrane-bound complex binding site; other site 748280004499 hinge residues; other site 748280004500 putative acyltransferase; Provisional; Region: PRK05790 748280004501 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 748280004502 dimer interface [polypeptide binding]; other site 748280004503 active site 748280004504 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 748280004505 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 748280004506 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 748280004507 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 748280004508 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 748280004509 RNA binding surface [nucleotide binding]; other site 748280004510 Helix-turn-helix domain; Region: HTH_31; pfam13560 748280004511 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 748280004512 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 748280004513 substrate binding site [chemical binding]; other site 748280004514 ligand binding site [chemical binding]; other site 748280004515 Entericidin EcnA/B family; Region: Entericidin; cl02322 748280004516 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 748280004517 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 748280004518 substrate binding site [chemical binding]; other site 748280004519 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 748280004520 tartrate dehydrogenase; Region: TTC; TIGR02089 748280004521 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 748280004522 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 748280004523 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 748280004524 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 748280004525 FimV N-terminal domain; Region: FimV_core; TIGR03505 748280004526 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 748280004527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 748280004528 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 748280004529 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 748280004530 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 748280004531 dimerization interface 3.5A [polypeptide binding]; other site 748280004532 active site 748280004533 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 748280004534 active site 748280004535 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 748280004536 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 748280004537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280004538 catalytic residue [active] 748280004539 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 748280004540 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 748280004541 substrate binding site [chemical binding]; other site 748280004542 active site 748280004543 catalytic residues [active] 748280004544 heterodimer interface [polypeptide binding]; other site 748280004545 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 748280004546 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 748280004547 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 748280004548 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 748280004549 ligand binding site [chemical binding]; other site 748280004550 NAD binding site [chemical binding]; other site 748280004551 tetramer interface [polypeptide binding]; other site 748280004552 catalytic site [active] 748280004553 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 748280004554 L-serine binding site [chemical binding]; other site 748280004555 ACT domain interface; other site 748280004556 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280004557 FAD binding domain; Region: FAD_binding_4; pfam01565 748280004558 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280004559 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 748280004560 C-terminal domain interface [polypeptide binding]; other site 748280004561 GSH binding site (G-site) [chemical binding]; other site 748280004562 dimer interface [polypeptide binding]; other site 748280004563 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 748280004564 dimer interface [polypeptide binding]; other site 748280004565 N-terminal domain interface [polypeptide binding]; other site 748280004566 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 748280004567 Response regulator receiver domain; Region: Response_reg; pfam00072 748280004568 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 748280004569 active site 748280004570 phosphorylation site [posttranslational modification] 748280004571 intermolecular recognition site; other site 748280004572 dimerization interface [polypeptide binding]; other site 748280004573 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 748280004574 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 748280004575 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 748280004576 active site 748280004577 phosphorylation site [posttranslational modification] 748280004578 intermolecular recognition site; other site 748280004579 CheB methylesterase; Region: CheB_methylest; pfam01339 748280004580 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 748280004581 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 748280004582 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 748280004583 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 748280004584 putative CheA interaction surface; other site 748280004585 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 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 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 748280004591 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 748280004592 putative binding surface; other site 748280004593 active site 748280004594 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 748280004595 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 748280004596 ATP binding site [chemical binding]; other site 748280004597 Mg2+ binding site [ion binding]; other site 748280004598 G-X-G motif; other site 748280004599 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 748280004600 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 748280004601 anti sigma factor interaction site; other site 748280004602 regulatory phosphorylation site [posttranslational modification]; other site 748280004603 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 748280004604 Response regulator receiver domain; Region: Response_reg; pfam00072 748280004605 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 748280004606 active site 748280004607 phosphorylation site [posttranslational modification] 748280004608 intermolecular recognition site; other site 748280004609 dimerization interface [polypeptide binding]; other site 748280004610 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 748280004611 metabolite-proton symporter; Region: 2A0106; TIGR00883 748280004612 putative substrate translocation pore; other site 748280004613 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 748280004614 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 748280004615 metal binding site [ion binding]; metal-binding site 748280004616 putative dimer interface [polypeptide binding]; other site 748280004617 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 748280004618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280004619 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 748280004620 dimerization interface [polypeptide binding]; other site 748280004621 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 748280004622 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 748280004623 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 748280004624 Uncharacterized small protein [Function unknown]; Region: COG2879 748280004625 carbon starvation protein A; Provisional; Region: PRK15015 748280004626 Carbon starvation protein CstA; Region: CstA; pfam02554 748280004627 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 748280004628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 748280004629 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 748280004630 Histidine kinase; Region: HisKA_3; pfam07730 748280004631 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 748280004632 ATP binding site [chemical binding]; other site 748280004633 Mg2+ binding site [ion binding]; other site 748280004634 G-X-G motif; other site 748280004635 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280004636 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 748280004637 active site 748280004638 phosphorylation site [posttranslational modification] 748280004639 intermolecular recognition site; other site 748280004640 dimerization interface [polypeptide binding]; other site 748280004641 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 748280004642 dimerization interface [polypeptide binding]; other site 748280004643 DNA binding residues [nucleotide binding] 748280004644 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 748280004645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280004646 Walker A/P-loop; other site 748280004647 ATP binding site [chemical binding]; other site 748280004648 Q-loop/lid; other site 748280004649 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280004650 ABC transporter; Region: ABC_tran_2; pfam12848 748280004651 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280004652 UGMP family protein; Validated; Region: PRK09604 748280004653 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 748280004654 OsmC-like protein; Region: OsmC; cl00767 748280004655 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 748280004656 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 748280004657 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 748280004658 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 748280004659 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280004660 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 748280004661 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 748280004662 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 748280004663 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 748280004664 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 748280004665 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 748280004666 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280004667 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 748280004668 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 748280004669 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 748280004670 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 748280004671 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 748280004672 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280004673 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 748280004674 Flagellar L-ring protein; Region: FlgH; pfam02107 748280004675 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 748280004676 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 748280004677 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 748280004678 Rod binding protein; Region: Rod-binding; cl01626 748280004679 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 748280004680 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 748280004681 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 748280004682 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280004683 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 748280004684 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280004685 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 748280004686 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 748280004687 putative active site [active] 748280004688 Zn binding site [ion binding]; other site 748280004689 enoyl-CoA hydratase; Provisional; Region: PRK05995 748280004690 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 748280004691 substrate binding site [chemical binding]; other site 748280004692 oxyanion hole (OAH) forming residues; other site 748280004693 trimer interface [polypeptide binding]; other site 748280004694 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 748280004695 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 748280004696 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 748280004697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280004698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280004699 metal binding site [ion binding]; metal-binding site 748280004700 active site 748280004701 I-site; other site 748280004702 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 748280004703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280004704 Walker A/P-loop; other site 748280004705 ATP binding site [chemical binding]; other site 748280004706 Q-loop/lid; other site 748280004707 ABC transporter signature motif; other site 748280004708 Walker B; other site 748280004709 D-loop; other site 748280004710 H-loop/switch region; other site 748280004711 TOBE domain; Region: TOBE_2; pfam08402 748280004712 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 748280004713 dimer interface [polypeptide binding]; other site 748280004714 conserved gate region; other site 748280004715 putative PBP binding loops; other site 748280004716 ABC-ATPase subunit interface; other site 748280004717 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 748280004718 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 748280004719 dimer interface [polypeptide binding]; other site 748280004720 conserved gate region; other site 748280004721 putative PBP binding loops; other site 748280004722 ABC-ATPase subunit interface; other site 748280004723 PAS domain S-box; Region: sensory_box; TIGR00229 748280004724 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 748280004725 putative active site [active] 748280004726 heme pocket [chemical binding]; other site 748280004727 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280004728 GAF domain; Region: GAF; pfam01590 748280004729 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280004730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280004731 metal binding site [ion binding]; metal-binding site 748280004732 active site 748280004733 I-site; other site 748280004734 arginine decarboxylase; Provisional; Region: PRK05354 748280004735 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 748280004736 dimer interface [polypeptide binding]; other site 748280004737 active site 748280004738 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280004739 catalytic residues [active] 748280004740 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 748280004741 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280004742 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280004743 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 748280004744 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 748280004745 dimer interface [polypeptide binding]; other site 748280004746 phosphorylation site [posttranslational modification] 748280004747 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 748280004748 ATP binding site [chemical binding]; other site 748280004749 Mg2+ binding site [ion binding]; other site 748280004750 G-X-G motif; other site 748280004751 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280004752 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 748280004753 active site 748280004754 phosphorylation site [posttranslational modification] 748280004755 intermolecular recognition site; other site 748280004756 dimerization interface [polypeptide binding]; other site 748280004757 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 748280004758 Walker A motif; other site 748280004759 ATP binding site [chemical binding]; other site 748280004760 Walker B motif; other site 748280004761 arginine finger; other site 748280004762 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280004763 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004765 dimer interface [polypeptide binding]; other site 748280004766 putative CheW interface [polypeptide binding]; other site 748280004767 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 748280004768 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 748280004769 Cache domain; Region: Cache_1; pfam02743 748280004770 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 748280004771 dimerization interface [polypeptide binding]; other site 748280004772 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004774 dimer interface [polypeptide binding]; other site 748280004775 putative CheW interface [polypeptide binding]; other site 748280004776 HDOD domain; Region: HDOD; pfam08668 748280004777 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280004778 Zn2+ binding site [ion binding]; other site 748280004779 Mg2+ binding site [ion binding]; other site 748280004780 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 748280004781 dimer interface [polypeptide binding]; other site 748280004782 phosphorylation site [posttranslational modification] 748280004783 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 748280004784 ATP binding site [chemical binding]; other site 748280004785 Mg2+ binding site [ion binding]; other site 748280004786 G-X-G motif; other site 748280004787 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 748280004788 Response regulator receiver domain; Region: Response_reg; pfam00072 748280004789 active site 748280004790 phosphorylation site [posttranslational modification] 748280004791 intermolecular recognition site; other site 748280004792 dimerization interface [polypeptide binding]; other site 748280004793 PAS domain S-box; Region: sensory_box; TIGR00229 748280004794 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 748280004795 putative active site [active] 748280004796 heme pocket [chemical binding]; other site 748280004797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280004798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280004799 metal binding site [ion binding]; metal-binding site 748280004800 active site 748280004801 I-site; other site 748280004802 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 748280004803 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 748280004804 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 748280004805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280004806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280004807 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 748280004808 putative effector binding pocket; other site 748280004809 dimerization interface [polypeptide binding]; other site 748280004810 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 748280004811 active site 748280004812 Zn binding site [ion binding]; other site 748280004813 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 748280004814 putative uracil binding site [chemical binding]; other site 748280004815 putative active site [active] 748280004816 EamA-like transporter family; Region: EamA; pfam00892 748280004817 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 748280004818 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 748280004819 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280004820 active site 748280004821 catalytic site [active] 748280004822 substrate binding site [chemical binding]; other site 748280004823 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 748280004824 active site 748280004825 catalytic residues [active] 748280004826 metal binding site [ion binding]; metal-binding site 748280004827 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 748280004828 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280004829 substrate binding pocket [chemical binding]; other site 748280004830 membrane-bound complex binding site; other site 748280004831 hinge residues; other site 748280004832 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 748280004833 2-methylcitrate dehydratase; Region: prpD; TIGR02330 748280004834 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 748280004835 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 748280004836 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 748280004837 substrate binding site [chemical binding]; other site 748280004838 ligand binding site [chemical binding]; other site 748280004839 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 748280004840 substrate binding site [chemical binding]; other site 748280004841 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 748280004842 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 748280004843 dimer interface [polypeptide binding]; other site 748280004844 active site 748280004845 citrylCoA binding site [chemical binding]; other site 748280004846 oxalacetate/citrate binding site [chemical binding]; other site 748280004847 coenzyme A binding site [chemical binding]; other site 748280004848 catalytic triad [active] 748280004849 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 748280004850 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 748280004851 tetramer interface [polypeptide binding]; other site 748280004852 active site 748280004853 Mg2+/Mn2+ binding site [ion binding]; other site 748280004854 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 748280004855 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280004856 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 748280004857 DNA binding residues [nucleotide binding] 748280004858 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 748280004859 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 748280004860 anti-sigma E factor; Provisional; Region: rseB; PRK09455 748280004861 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 748280004862 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 748280004863 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 748280004864 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 748280004865 protein binding site [polypeptide binding]; other site 748280004866 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 748280004867 protein binding site [polypeptide binding]; other site 748280004868 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 748280004869 GTP-binding protein LepA; Provisional; Region: PRK05433 748280004870 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 748280004871 G1 box; other site 748280004872 putative GEF interaction site [polypeptide binding]; other site 748280004873 GTP/Mg2+ binding site [chemical binding]; other site 748280004874 Switch I region; other site 748280004875 G2 box; other site 748280004876 G3 box; other site 748280004877 Switch II region; other site 748280004878 G4 box; other site 748280004879 G5 box; other site 748280004880 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 748280004881 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 748280004882 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 748280004883 signal peptidase I; Provisional; Region: PRK10861 748280004884 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 748280004885 Catalytic site [active] 748280004886 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 748280004887 putative major pilin subunit; Provisional; Region: PRK10574 748280004888 ribonuclease III; Reviewed; Region: rnc; PRK00102 748280004889 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 748280004890 dimerization interface [polypeptide binding]; other site 748280004891 active site 748280004892 metal binding site [ion binding]; metal-binding site 748280004893 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 748280004894 GTPase Era; Reviewed; Region: era; PRK00089 748280004895 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 748280004896 G1 box; other site 748280004897 GTP/Mg2+ binding site [chemical binding]; other site 748280004898 Switch I region; other site 748280004899 G2 box; other site 748280004900 Switch II region; other site 748280004901 G3 box; other site 748280004902 G4 box; other site 748280004903 G5 box; other site 748280004904 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 748280004905 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 748280004906 Recombination protein O N terminal; Region: RecO_N; pfam11967 748280004907 Recombination protein O C terminal; Region: RecO_C; pfam02565 748280004908 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 748280004909 active site 748280004910 hydrophilic channel; other site 748280004911 dimerization interface [polypeptide binding]; other site 748280004912 catalytic residues [active] 748280004913 active site lid [active] 748280004914 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 748280004915 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 748280004916 beta-hexosaminidase; Provisional; Region: PRK05337 748280004917 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 748280004918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280004919 Zn2+ binding site [ion binding]; other site 748280004920 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 748280004921 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 748280004922 ATP binding site [chemical binding]; other site 748280004923 putative Mg++ binding site [ion binding]; other site 748280004924 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 748280004925 nucleotide binding region [chemical binding]; other site 748280004926 Helicase associated domain (HA2); Region: HA2; pfam04408 748280004927 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 748280004928 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 748280004929 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 748280004930 catalytic site [active] 748280004931 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 748280004932 active site 748280004933 catalytic site [active] 748280004934 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 748280004935 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 748280004936 dimerization interface [polypeptide binding]; other site 748280004937 putative Zn2+ binding site [ion binding]; other site 748280004938 putative DNA binding site [nucleotide binding]; other site 748280004939 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 748280004940 substrate binding site [chemical binding]; other site 748280004941 dimerization interface [polypeptide binding]; other site 748280004942 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 748280004943 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 748280004944 Walker A/P-loop; other site 748280004945 ATP binding site [chemical binding]; other site 748280004946 Q-loop/lid; other site 748280004947 ABC transporter signature motif; other site 748280004948 Walker B; other site 748280004949 D-loop; other site 748280004950 H-loop/switch region; other site 748280004951 TOBE-like domain; Region: TOBE_3; pfam12857 748280004952 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 748280004953 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 748280004954 dimer interface [polypeptide binding]; other site 748280004955 conserved gate region; other site 748280004956 putative PBP binding loops; other site 748280004957 ABC-ATPase subunit interface; other site 748280004958 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 748280004959 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 748280004960 dimer interface [polypeptide binding]; other site 748280004961 conserved gate region; other site 748280004962 putative PBP binding loops; other site 748280004963 ABC-ATPase subunit interface; other site 748280004964 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 748280004965 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 748280004966 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280004967 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280004968 dimer interface [polypeptide binding]; other site 748280004969 putative CheW interface [polypeptide binding]; other site 748280004970 phosphate acetyltransferase; Reviewed; Region: PRK05632 748280004971 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 748280004972 DRTGG domain; Region: DRTGG; pfam07085 748280004973 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 748280004974 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 748280004975 propionate/acetate kinase; Provisional; Region: PRK12379 748280004976 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 748280004977 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 748280004978 [2Fe-2S] cluster binding site [ion binding]; other site 748280004979 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 748280004980 alpha subunit interface [polypeptide binding]; other site 748280004981 active site 748280004982 substrate binding site [chemical binding]; other site 748280004983 Fe binding site [ion binding]; other site 748280004984 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280004985 EamA-like transporter family; Region: EamA; pfam00892 748280004986 EamA-like transporter family; Region: EamA; cl17759 748280004987 EamA-like transporter family; Region: EamA; pfam00892 748280004988 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280004989 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 748280004990 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 748280004991 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 748280004992 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 748280004993 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 748280004994 RNA binding site [nucleotide binding]; other site 748280004995 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 748280004996 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 748280004997 Chromate transporter; Region: Chromate_transp; pfam02417 748280004998 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 748280004999 structural tetrad; other site 748280005000 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 748280005001 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280005002 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280005003 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 748280005004 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 748280005005 dimer interface [polypeptide binding]; other site 748280005006 conserved gate region; other site 748280005007 putative PBP binding loops; other site 748280005008 ABC-ATPase subunit interface; other site 748280005009 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 748280005010 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 748280005011 Walker A/P-loop; other site 748280005012 ATP binding site [chemical binding]; other site 748280005013 Q-loop/lid; other site 748280005014 ABC transporter signature motif; other site 748280005015 Walker B; other site 748280005016 D-loop; other site 748280005017 H-loop/switch region; other site 748280005018 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 748280005019 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 748280005020 substrate binding pocket [chemical binding]; other site 748280005021 membrane-bound complex binding site; other site 748280005022 hinge residues; other site 748280005023 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280005024 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 748280005025 SnoaL-like domain; Region: SnoaL_2; pfam12680 748280005026 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 748280005027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280005028 DNA-binding site [nucleotide binding]; DNA binding site 748280005029 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 748280005030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280005031 homodimer interface [polypeptide binding]; other site 748280005032 catalytic residue [active] 748280005033 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 748280005034 thiamine phosphate binding site [chemical binding]; other site 748280005035 active site 748280005036 pyrophosphate binding site [ion binding]; other site 748280005037 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 748280005038 ThiS interaction site; other site 748280005039 putative active site [active] 748280005040 tetramer interface [polypeptide binding]; other site 748280005041 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 748280005042 thiS-thiF/thiG interaction site; other site 748280005043 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 748280005044 ThiC-associated domain; Region: ThiC-associated; pfam13667 748280005045 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 748280005046 Predicted membrane protein [Function unknown]; Region: COG2855 748280005047 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 748280005048 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 748280005049 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280005050 PYR/PP interface [polypeptide binding]; other site 748280005051 dimer interface [polypeptide binding]; other site 748280005052 TPP binding site [chemical binding]; other site 748280005053 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 748280005054 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 748280005055 TPP-binding site; other site 748280005056 Transcriptional regulator [Transcription]; Region: IclR; COG1414 748280005057 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 748280005058 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280005059 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 748280005060 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 748280005061 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 748280005062 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 748280005063 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 748280005064 metal ion-dependent adhesion site (MIDAS); other site 748280005065 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 748280005066 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 748280005067 Cache domain; Region: Cache_1; pfam02743 748280005068 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 748280005069 dimerization interface [polypeptide binding]; other site 748280005070 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280005071 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005072 dimer interface [polypeptide binding]; other site 748280005073 putative CheW interface [polypeptide binding]; other site 748280005074 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 748280005075 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 748280005076 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280005077 PYR/PP interface [polypeptide binding]; other site 748280005078 dimer interface [polypeptide binding]; other site 748280005079 TPP binding site [chemical binding]; other site 748280005080 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 748280005081 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 748280005082 TPP-binding site; other site 748280005083 Transcriptional regulator [Transcription]; Region: IclR; COG1414 748280005084 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 748280005085 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280005086 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 748280005087 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280005088 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 748280005089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280005090 substrate binding pocket [chemical binding]; other site 748280005091 membrane-bound complex binding site; other site 748280005092 hinge residues; other site 748280005093 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 748280005094 non-specific DNA binding site [nucleotide binding]; other site 748280005095 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280005096 salt bridge; other site 748280005097 sequence-specific DNA binding site [nucleotide binding]; other site 748280005098 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 748280005099 Catalytic site [active] 748280005100 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 748280005101 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 748280005102 putative transposase OrfB; Reviewed; Region: PHA02517 748280005103 Integrase core domain; Region: rve; pfam00665 748280005104 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 748280005105 AAA domain; Region: AAA_22; pfam13401 748280005106 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 748280005107 non-specific DNA binding site [nucleotide binding]; other site 748280005108 salt bridge; other site 748280005109 sequence-specific DNA binding site [nucleotide binding]; other site 748280005110 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 748280005111 non-specific DNA binding site [nucleotide binding]; other site 748280005112 salt bridge; other site 748280005113 sequence-specific DNA binding site [nucleotide binding]; other site 748280005114 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 748280005115 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 748280005116 IHF dimer interface [polypeptide binding]; other site 748280005117 IHF - DNA interface [nucleotide binding]; other site 748280005118 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 748280005119 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 748280005120 amidase catalytic site [active] 748280005121 Zn binding residues [ion binding]; other site 748280005122 substrate binding site [chemical binding]; other site 748280005123 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 748280005124 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 748280005125 Protein of unknown function (DUF935); Region: DUF935; pfam06074 748280005126 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 748280005127 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 748280005128 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 748280005129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005130 AAA domain; Region: AAA_21; pfam13304 748280005131 Walker A/P-loop; other site 748280005132 ATP binding site [chemical binding]; other site 748280005133 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 748280005134 ABC transporter signature motif; other site 748280005135 Walker B; other site 748280005136 D-loop; other site 748280005137 H-loop/switch region; other site 748280005138 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 748280005139 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 748280005140 active site 748280005141 DNA binding site [nucleotide binding] 748280005142 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 748280005143 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 748280005144 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 748280005145 Catalytic site [active] 748280005146 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 748280005147 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 748280005148 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280005149 Sel1-like repeats; Region: SEL1; smart00671 748280005150 Sel1-like repeats; Region: SEL1; smart00671 748280005151 SEC-C motif; Region: SEC-C; pfam02810 748280005152 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 748280005153 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 748280005154 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 748280005155 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 748280005156 cofactor binding site; other site 748280005157 DNA binding site [nucleotide binding] 748280005158 substrate interaction site [chemical binding]; other site 748280005159 Competence protein CoiA-like family; Region: CoiA; cl11541 748280005160 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 748280005161 tape measure domain; Region: tape_meas_nterm; TIGR02675 748280005162 DNA-specific endonuclease I; Provisional; Region: PRK15137 748280005163 Endonuclease I; Region: Endonuclease_1; pfam04231 748280005164 NACHT domain; Region: NACHT; pfam05729 748280005165 phosphoglycolate phosphatase; Provisional; Region: PRK13222 748280005166 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 748280005167 motif II; other site 748280005168 threonine dehydratase; Reviewed; Region: PRK09224 748280005169 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 748280005170 tetramer interface [polypeptide binding]; other site 748280005171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280005172 catalytic residue [active] 748280005173 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 748280005174 putative Ile/Val binding site [chemical binding]; other site 748280005175 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 748280005176 putative Ile/Val binding site [chemical binding]; other site 748280005177 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 748280005178 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 748280005179 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 748280005180 Protein of unknown function (DUF493); Region: DUF493; pfam04359 748280005181 lipoate-protein ligase B; Provisional; Region: PRK14342 748280005182 lipoyl synthase; Provisional; Region: PRK05481 748280005183 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 748280005184 FeS/SAM binding site; other site 748280005185 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 748280005186 Cytochrome C' Region: Cytochrom_C_2; pfam01322 748280005187 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 748280005188 metal binding site 2 [ion binding]; metal-binding site 748280005189 putative DNA binding helix; other site 748280005190 metal binding site 1 [ion binding]; metal-binding site 748280005191 dimer interface [polypeptide binding]; other site 748280005192 structural Zn2+ binding site [ion binding]; other site 748280005193 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 748280005194 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 748280005195 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 748280005196 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 748280005197 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 748280005198 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 748280005199 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 748280005200 ABC-ATPase subunit interface; other site 748280005201 dimer interface [polypeptide binding]; other site 748280005202 putative PBP binding regions; other site 748280005203 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 748280005204 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 748280005205 metal binding site [ion binding]; metal-binding site 748280005206 Family description; Region: DsbD_2; pfam13386 748280005207 enoyl-CoA hydratase; Provisional; Region: PRK09076 748280005208 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 748280005209 substrate binding site [chemical binding]; other site 748280005210 oxyanion hole (OAH) forming residues; other site 748280005211 trimer interface [polypeptide binding]; other site 748280005212 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280005213 SurA N-terminal domain; Region: SurA_N_3; cl07813 748280005214 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280005215 BolA-like protein; Region: BolA; pfam01722 748280005216 YciI-like protein; Reviewed; Region: PRK11370 748280005217 intracellular septation protein A; Reviewed; Region: PRK00259 748280005218 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 748280005219 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 748280005220 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 748280005221 Uncharacterized conserved protein [Function unknown]; Region: COG1739 748280005222 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 748280005223 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 748280005224 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 748280005225 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 748280005226 motif II; other site 748280005227 ParA-like protein; Provisional; Region: PHA02518 748280005228 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 748280005229 P-loop; other site 748280005230 Magnesium ion binding site [ion binding]; other site 748280005231 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 748280005232 PAS domain; Region: PAS_9; pfam13426 748280005233 putative active site [active] 748280005234 heme pocket [chemical binding]; other site 748280005235 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280005236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005237 dimer interface [polypeptide binding]; other site 748280005238 putative CheW interface [polypeptide binding]; other site 748280005239 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 748280005240 putative active site [active] 748280005241 putative catalytic site [active] 748280005242 PII uridylyl-transferase; Provisional; Region: PRK03059 748280005243 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280005244 metal binding triad; other site 748280005245 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 748280005246 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280005247 Zn2+ binding site [ion binding]; other site 748280005248 Mg2+ binding site [ion binding]; other site 748280005249 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 748280005250 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 748280005251 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 748280005252 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 748280005253 Predicted permeases [General function prediction only]; Region: COG0795 748280005254 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 748280005255 multifunctional aminopeptidase A; Provisional; Region: PRK00913 748280005256 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 748280005257 interface (dimer of trimers) [polypeptide binding]; other site 748280005258 Substrate-binding/catalytic site; other site 748280005259 Zn-binding sites [ion binding]; other site 748280005260 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 748280005261 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 748280005262 Staphylococcal nuclease homologues; Region: SNc; smart00318 748280005263 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 748280005264 Catalytic site; other site 748280005265 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 748280005266 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280005267 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 748280005268 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 748280005269 putative active site [active] 748280005270 PhoH-like protein; Region: PhoH; pfam02562 748280005271 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 748280005272 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 748280005273 catalytic triad [active] 748280005274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 748280005275 Smr domain; Region: Smr; pfam01713 748280005276 thioredoxin reductase; Provisional; Region: PRK10262 748280005277 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280005278 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280005279 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280005280 Sel1-like repeats; Region: SEL1; smart00671 748280005281 Sel1-like repeats; Region: SEL1; smart00671 748280005282 Sel1-like repeats; Region: SEL1; smart00671 748280005283 Sel1-like repeats; Region: SEL1; smart00671 748280005284 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280005285 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280005286 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280005287 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 748280005288 putative active site [active] 748280005289 Zinc-finger domain; Region: zf-CHCC; cl01821 748280005290 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 748280005291 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 748280005292 homodimer interface [polypeptide binding]; other site 748280005293 substrate-cofactor binding pocket; other site 748280005294 catalytic residue [active] 748280005295 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 748280005296 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280005297 metal binding triad; other site 748280005298 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 748280005299 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280005300 metal binding triad; other site 748280005301 TIGR02099 family protein; Region: TIGR02099 748280005302 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 748280005303 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 748280005304 nitrilase; Region: PLN02798 748280005305 putative active site [active] 748280005306 catalytic triad [active] 748280005307 dimer interface [polypeptide binding]; other site 748280005308 protease TldD; Provisional; Region: tldD; PRK10735 748280005309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280005310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005311 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 748280005312 dimerizarion interface [polypeptide binding]; other site 748280005313 CrgA pocket; other site 748280005314 substrate binding pocket [chemical binding]; other site 748280005315 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 748280005316 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 748280005317 octamer interface [polypeptide binding]; other site 748280005318 active site 748280005319 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 748280005320 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 748280005321 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 748280005322 dimer interface [polypeptide binding]; other site 748280005323 active site 748280005324 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 748280005325 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 748280005326 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 748280005327 putative alpha subunit interface [polypeptide binding]; other site 748280005328 putative active site [active] 748280005329 putative substrate binding site [chemical binding]; other site 748280005330 Fe binding site [ion binding]; other site 748280005331 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 748280005332 inter-subunit interface; other site 748280005333 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 748280005334 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 748280005335 catalytic loop [active] 748280005336 iron binding site [ion binding]; other site 748280005337 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 748280005338 FAD binding pocket [chemical binding]; other site 748280005339 FAD binding motif [chemical binding]; other site 748280005340 phosphate binding motif [ion binding]; other site 748280005341 beta-alpha-beta structure motif; other site 748280005342 NAD binding pocket [chemical binding]; other site 748280005343 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 748280005344 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 748280005345 putative NAD(P) binding site [chemical binding]; other site 748280005346 active site 748280005347 benzoate transporter; Region: benE; TIGR00843 748280005348 Benzoate membrane transport protein; Region: BenE; pfam03594 748280005349 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 748280005350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005351 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 748280005352 dimerization interface [polypeptide binding]; other site 748280005353 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 748280005354 benzoate transport; Region: 2A0115; TIGR00895 748280005355 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 748280005356 putative substrate translocation pore; other site 748280005357 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 748280005358 putative hydrolase; Provisional; Region: PRK11460 748280005359 Predicted esterase [General function prediction only]; Region: COG0400 748280005360 MarC family integral membrane protein; Region: MarC; cl00919 748280005361 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cl00238 748280005362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280005363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005364 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 748280005365 putative effector binding pocket; other site 748280005366 dimerization interface [polypeptide binding]; other site 748280005367 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 748280005368 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 748280005369 active site 748280005370 acyl-activating enzyme (AAE) consensus motif; other site 748280005371 putative CoA binding site [chemical binding]; other site 748280005372 AMP binding site [chemical binding]; other site 748280005373 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 748280005374 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 748280005375 tetrameric interface [polypeptide binding]; other site 748280005376 NAD binding site [chemical binding]; other site 748280005377 catalytic residues [active] 748280005378 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 748280005379 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 748280005380 substrate binding pocket [chemical binding]; other site 748280005381 FAD binding site [chemical binding]; other site 748280005382 catalytic base [active] 748280005383 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 748280005384 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 748280005385 substrate binding site [chemical binding]; other site 748280005386 oxyanion hole (OAH) forming residues; other site 748280005387 trimer interface [polypeptide binding]; other site 748280005388 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 748280005389 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280005390 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 748280005391 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 748280005392 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 748280005393 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 748280005394 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 748280005395 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280005396 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 748280005397 Walker A motif; other site 748280005398 ATP binding site [chemical binding]; other site 748280005399 Walker B motif; other site 748280005400 arginine finger; other site 748280005401 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 748280005402 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 748280005403 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 748280005404 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 748280005405 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 748280005406 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 748280005407 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 748280005408 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 748280005409 Cupin domain; Region: Cupin_2; cl17218 748280005410 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 748280005411 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 748280005412 Walker A/P-loop; other site 748280005413 ATP binding site [chemical binding]; other site 748280005414 Q-loop/lid; other site 748280005415 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 748280005416 ABC transporter signature motif; other site 748280005417 Walker B; other site 748280005418 D-loop; other site 748280005419 H-loop/switch region; other site 748280005420 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 748280005421 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 748280005422 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 748280005423 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 748280005424 active site 748280005425 phosphorylation site [posttranslational modification] 748280005426 intermolecular recognition site; other site 748280005427 dimerization interface [polypeptide binding]; other site 748280005428 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 748280005429 DNA binding residues [nucleotide binding] 748280005430 dimerization interface [polypeptide binding]; other site 748280005431 Ion channel; Region: Ion_trans_2; pfam07885 748280005432 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 748280005433 TrkA-N domain; Region: TrkA_N; pfam02254 748280005434 methionine sulfoxide reductase A; Provisional; Region: PRK14054 748280005435 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 748280005436 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 748280005437 putative active site [active] 748280005438 Zn binding site [ion binding]; other site 748280005439 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 748280005440 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 748280005441 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 748280005442 active site 748280005443 tetramer interface [polypeptide binding]; other site 748280005444 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 748280005445 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 748280005446 FMN binding site [chemical binding]; other site 748280005447 active site 748280005448 catalytic residues [active] 748280005449 substrate binding site [chemical binding]; other site 748280005450 oxaloacetate decarboxylase alpha subunit; Region: oadA; TIGR01108 748280005451 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 748280005452 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 748280005453 Catalytic site [active] 748280005454 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 748280005455 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 748280005456 ATP binding site [chemical binding]; other site 748280005457 Mg++ binding site [ion binding]; other site 748280005458 motif III; other site 748280005459 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 748280005460 nucleotide binding region [chemical binding]; other site 748280005461 ATP-binding site [chemical binding]; other site 748280005462 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 748280005463 putative RNA binding site [nucleotide binding]; other site 748280005464 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280005465 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 748280005466 substrate binding pocket [chemical binding]; other site 748280005467 membrane-bound complex binding site; other site 748280005468 hinge residues; other site 748280005469 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 748280005470 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 748280005471 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 748280005472 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 748280005473 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 748280005474 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 748280005475 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 748280005476 putative substrate translocation pore; other site 748280005477 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280005478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005479 transcriptional activator TtdR; Provisional; Region: PRK09801 748280005480 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 748280005481 putative effector binding pocket; other site 748280005482 putative dimerization interface [polypeptide binding]; other site 748280005483 Predicted transcriptional regulator [Transcription]; Region: COG2345 748280005484 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 748280005485 putative DNA binding site [nucleotide binding]; other site 748280005486 putative Zn2+ binding site [ion binding]; other site 748280005487 Transcriptional regulator PadR-like family; Region: PadR; cl17335 748280005488 EamA-like transporter family; Region: EamA; pfam00892 748280005489 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280005490 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280005491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280005492 Isochorismatase family; Region: Isochorismatase; pfam00857 748280005493 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 748280005494 catalytic triad [active] 748280005495 conserved cis-peptide bond; other site 748280005496 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280005497 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 748280005498 active site 748280005499 nucleophile elbow; other site 748280005500 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 748280005501 FAD binding pocket [chemical binding]; other site 748280005502 conserved FAD binding motif [chemical binding]; other site 748280005503 phosphate binding motif [ion binding]; other site 748280005504 beta-alpha-beta structure motif; other site 748280005505 NAD binding pocket [chemical binding]; other site 748280005506 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 748280005507 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 748280005508 putative substrate translocation pore; other site 748280005509 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280005510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005511 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 748280005512 dimerization interface [polypeptide binding]; other site 748280005513 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 748280005514 CoenzymeA binding site [chemical binding]; other site 748280005515 subunit interaction site [polypeptide binding]; other site 748280005516 PHB binding site; other site 748280005517 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280005518 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 748280005519 DNA binding residues [nucleotide binding] 748280005520 dimerization interface [polypeptide binding]; other site 748280005521 Predicted amidohydrolase [General function prediction only]; Region: COG0388 748280005522 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 748280005523 putative active site [active] 748280005524 catalytic triad [active] 748280005525 putative dimer interface [polypeptide binding]; other site 748280005526 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 748280005527 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 748280005528 putative FMN binding site [chemical binding]; other site 748280005529 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 748280005530 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 748280005531 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 748280005532 catalytic triad [active] 748280005533 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 748280005534 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 748280005535 Walker A motif; other site 748280005536 homodimer interface [polypeptide binding]; other site 748280005537 ATP binding site [chemical binding]; other site 748280005538 hydroxycobalamin binding site [chemical binding]; other site 748280005539 Walker B motif; other site 748280005540 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 748280005541 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 748280005542 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 748280005543 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 748280005544 active site 748280005545 SAM binding site [chemical binding]; other site 748280005546 homodimer interface [polypeptide binding]; other site 748280005547 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 748280005548 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 748280005549 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 748280005550 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 748280005551 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 748280005552 active site 748280005553 SAM binding site [chemical binding]; other site 748280005554 homodimer interface [polypeptide binding]; other site 748280005555 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 748280005556 active site 748280005557 SAM binding site [chemical binding]; other site 748280005558 homodimer interface [polypeptide binding]; other site 748280005559 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 748280005560 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 748280005561 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 748280005562 putative active site [active] 748280005563 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 748280005564 putative active site [active] 748280005565 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 748280005566 Precorrin-8X methylmutase; Region: CbiC; pfam02570 748280005567 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 748280005568 active site 748280005569 putative homodimer interface [polypeptide binding]; other site 748280005570 SAM binding site [chemical binding]; other site 748280005571 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 748280005572 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 748280005573 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 748280005574 metal ion-dependent adhesion site (MIDAS); other site 748280005575 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 748280005576 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 748280005577 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 748280005578 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 748280005579 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 748280005580 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 748280005581 dimer interface [polypeptide binding]; other site 748280005582 [2Fe-2S] cluster binding site [ion binding]; other site 748280005583 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 748280005584 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 748280005585 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280005586 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 748280005587 putative substrate translocation pore; other site 748280005588 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 748280005589 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 748280005590 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280005591 catalytic residue [active] 748280005592 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 748280005593 cobyric acid synthase; Provisional; Region: PRK00784 748280005594 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 748280005595 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 748280005596 catalytic triad [active] 748280005597 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 748280005598 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 748280005599 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 748280005600 putative NAD(P) binding site [chemical binding]; other site 748280005601 active site 748280005602 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280005603 thiamine pyrophosphate protein; Validated; Region: PRK08199 748280005604 dimer interface [polypeptide binding]; other site 748280005605 PYR/PP interface [polypeptide binding]; other site 748280005606 TPP binding site [chemical binding]; other site 748280005607 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 748280005608 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 748280005609 TPP-binding site [chemical binding]; other site 748280005610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 748280005611 MOSC domain; Region: MOSC; pfam03473 748280005612 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 748280005613 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 748280005614 catalytic triad [active] 748280005615 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 748280005616 active site 748280005617 DNA binding site [nucleotide binding] 748280005618 Int/Topo IB signature motif; other site 748280005619 Helix-turn-helix domain; Region: HTH_17; pfam12728 748280005620 AAA domain; Region: AAA_25; pfam13481 748280005621 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 748280005622 Walker A motif; other site 748280005623 ATP binding site [chemical binding]; other site 748280005624 Walker B motif; other site 748280005625 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 748280005626 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 748280005627 Isochorismatase family; Region: Isochorismatase; pfam00857 748280005628 catalytic triad [active] 748280005629 conserved cis-peptide bond; other site 748280005630 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 748280005631 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 748280005632 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 748280005633 Repair protein; Region: Repair_PSII; pfam04536 748280005634 Repair protein; Region: Repair_PSII; cl01535 748280005635 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 748280005636 Na2 binding site [ion binding]; other site 748280005637 putative substrate binding site 1 [chemical binding]; other site 748280005638 Na binding site 1 [ion binding]; other site 748280005639 putative substrate binding site 2 [chemical binding]; other site 748280005640 L,D-transpeptidase; Provisional; Region: PRK10260 748280005641 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280005642 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280005643 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 748280005644 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 748280005645 putative active site [active] 748280005646 putative metal binding site [ion binding]; other site 748280005647 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 748280005648 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 748280005649 dimerization interface [polypeptide binding]; other site 748280005650 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280005651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005652 dimer interface [polypeptide binding]; other site 748280005653 putative CheW interface [polypeptide binding]; other site 748280005654 hypothetical protein; Provisional; Region: PRK08609 748280005655 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 748280005656 active site 748280005657 primer binding site [nucleotide binding]; other site 748280005658 NTP binding site [chemical binding]; other site 748280005659 metal binding triad [ion binding]; metal-binding site 748280005660 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 748280005661 active site 748280005662 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 748280005663 30S subunit binding site; other site 748280005664 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 748280005665 DNA-binding site [nucleotide binding]; DNA binding site 748280005666 RNA-binding motif; other site 748280005667 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280005668 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 748280005669 dimer interface [polypeptide binding]; other site 748280005670 phosphorylation site [posttranslational modification] 748280005671 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 748280005672 ATP binding site [chemical binding]; other site 748280005673 Mg2+ binding site [ion binding]; other site 748280005674 G-X-G motif; other site 748280005675 Uncharacterized conserved protein [Function unknown]; Region: COG3287 748280005676 FIST N domain; Region: FIST; pfam08495 748280005677 FIST C domain; Region: FIST_C; pfam10442 748280005678 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 748280005679 Hypothetical protein TTHB210, a sigma(E)-regulated gene product found in Thermus thermophilus, and similar proteins; Region: TTHB210-like; cd11669 748280005680 oligomer interface [polypeptide binding]; other site 748280005681 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 748280005682 Cytochrome b562; Region: Cytochrom_B562; cl01546 748280005683 exonuclease subunit SbcD; Provisional; Region: PRK10966 748280005684 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 748280005685 active site 748280005686 metal binding site [ion binding]; metal-binding site 748280005687 DNA binding site [nucleotide binding] 748280005688 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 748280005689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005690 Walker A/P-loop; other site 748280005691 ATP binding site [chemical binding]; other site 748280005692 Q-loop/lid; other site 748280005693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005694 ABC transporter signature motif; other site 748280005695 Walker B; other site 748280005696 D-loop; other site 748280005697 H-loop/switch region; other site 748280005698 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 748280005699 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 748280005700 FeS/SAM binding site; other site 748280005701 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 748280005702 exonuclease subunit SbcD; Provisional; Region: PRK10966 748280005703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005704 AAA domain; Region: AAA_23; pfam13476 748280005705 Walker A/P-loop; other site 748280005706 ATP binding site [chemical binding]; other site 748280005707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005708 ABC transporter signature motif; other site 748280005709 Walker B; other site 748280005710 D-loop; other site 748280005711 H-loop/switch region; other site 748280005712 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 748280005713 active site 748280005714 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 748280005715 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 748280005716 non-specific DNA binding site [nucleotide binding]; other site 748280005717 salt bridge; other site 748280005718 sequence-specific DNA binding site [nucleotide binding]; other site 748280005719 AAA domain; Region: AAA_22; pfam13401 748280005720 Bacterial TniB protein; Region: TniB; pfam05621 748280005721 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 748280005722 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 748280005723 non-specific DNA binding site [nucleotide binding]; other site 748280005724 salt bridge; other site 748280005725 sequence-specific DNA binding site [nucleotide binding]; other site 748280005726 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 748280005727 Restriction endonuclease; Region: Mrr_cat; pfam04471 748280005728 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 748280005729 metal binding triad [ion binding]; metal-binding site 748280005730 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 748280005731 AAA domain; Region: AAA_23; pfam13476 748280005732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005733 Walker A/P-loop; other site 748280005734 ATP binding site [chemical binding]; other site 748280005735 AAA domain; Region: AAA_21; pfam13304 748280005736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005737 ABC transporter signature motif; other site 748280005738 Walker B; other site 748280005739 D-loop; other site 748280005740 H-loop/switch region; other site 748280005741 HNH endonuclease; Region: HNH_5; pfam14279 748280005742 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 748280005743 putative active site [active] 748280005744 catalytic site [active] 748280005745 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 748280005746 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 748280005747 dimer interface [polypeptide binding]; other site 748280005748 putative radical transfer pathway; other site 748280005749 diiron center [ion binding]; other site 748280005750 tyrosyl radical; other site 748280005751 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 748280005752 ATP cone domain; Region: ATP-cone; pfam03477 748280005753 ATP cone domain; Region: ATP-cone; pfam03477 748280005754 Class I ribonucleotide reductase; Region: RNR_I; cd01679 748280005755 active site 748280005756 dimer interface [polypeptide binding]; other site 748280005757 catalytic residues [active] 748280005758 effector binding site; other site 748280005759 R2 peptide binding site; other site 748280005760 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 748280005761 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 748280005762 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 748280005763 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 748280005764 RNA binding surface [nucleotide binding]; other site 748280005765 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 748280005766 active site 748280005767 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 748280005768 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 748280005769 PgaD-like protein; Region: PgaD; pfam13994 748280005770 N-glycosyltransferase; Provisional; Region: PRK11204 748280005771 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 748280005772 DXD motif; other site 748280005773 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 748280005774 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 748280005775 putative active site [active] 748280005776 putative metal binding site [ion binding]; other site 748280005777 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 748280005778 Nitrogen regulatory protein P-II; Region: P-II; smart00938 748280005779 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 748280005780 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 748280005781 dimerization interface [polypeptide binding]; other site 748280005782 ATP binding site [chemical binding]; other site 748280005783 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 748280005784 dimerization interface [polypeptide binding]; other site 748280005785 ATP binding site [chemical binding]; other site 748280005786 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 748280005787 putative active site [active] 748280005788 catalytic triad [active] 748280005789 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 748280005790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005791 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 748280005792 dimerization interface [polypeptide binding]; other site 748280005793 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 748280005794 heme-binding site [chemical binding]; other site 748280005795 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280005796 GAF domain; Region: GAF; pfam01590 748280005797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280005798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280005799 metal binding site [ion binding]; metal-binding site 748280005800 active site 748280005801 I-site; other site 748280005802 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 748280005803 LysE type translocator; Region: LysE; cl00565 748280005804 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 748280005805 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 748280005806 S-adenosylmethionine binding site [chemical binding]; other site 748280005807 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 748280005808 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 748280005809 active site 748280005810 substrate binding site [chemical binding]; other site 748280005811 metal binding site [ion binding]; metal-binding site 748280005812 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 748280005813 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 748280005814 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 748280005815 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 748280005816 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 748280005817 glutamine binding [chemical binding]; other site 748280005818 catalytic triad [active] 748280005819 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 748280005820 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 748280005821 non-specific DNA binding site [nucleotide binding]; other site 748280005822 salt bridge; other site 748280005823 sequence-specific DNA binding site [nucleotide binding]; other site 748280005824 hypothetical protein; Provisional; Region: PRK06847 748280005825 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 748280005826 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 748280005827 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 748280005828 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 748280005829 non-specific DNA binding site [nucleotide binding]; other site 748280005830 salt bridge; other site 748280005831 sequence-specific DNA binding site [nucleotide binding]; other site 748280005832 Predicted chitinase [General function prediction only]; Region: COG3179 748280005833 catalytic residue [active] 748280005834 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 748280005835 BRO family, N-terminal domain; Region: Bro-N; smart01040 748280005836 AAA ATPase domain; Region: AAA_16; pfam13191 748280005837 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 748280005838 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 748280005839 integrase; Provisional; Region: PRK09692 748280005840 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 748280005841 active site 748280005842 Int/Topo IB signature motif; other site 748280005843 Integrase core domain; Region: rve; pfam00665 748280005844 Integrase core domain; Region: rve_3; pfam13683 748280005845 Transposase; Region: HTH_Tnp_1; cl17663 748280005846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 748280005847 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 748280005848 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 748280005849 active site 748280005850 Zn binding site [ion binding]; other site 748280005851 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 748280005852 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 748280005853 substrate binding pocket [chemical binding]; other site 748280005854 membrane-bound complex binding site; other site 748280005855 hinge residues; other site 748280005856 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 748280005857 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 748280005858 metal binding site [ion binding]; metal-binding site 748280005859 putative dimer interface [polypeptide binding]; other site 748280005860 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 748280005861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280005862 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 748280005863 dimerization interface [polypeptide binding]; other site 748280005864 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 748280005865 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 748280005866 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 748280005867 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 748280005868 PhoU domain; Region: PhoU; pfam01895 748280005869 PhoU domain; Region: PhoU; pfam01895 748280005870 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 748280005871 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 748280005872 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280005873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280005874 Walker A/P-loop; other site 748280005875 ATP binding site [chemical binding]; other site 748280005876 Q-loop/lid; other site 748280005877 ABC transporter signature motif; other site 748280005878 Walker B; other site 748280005879 D-loop; other site 748280005880 H-loop/switch region; other site 748280005881 TOBE domain; Region: TOBE_2; pfam08402 748280005882 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 748280005883 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 748280005884 dimer interface [polypeptide binding]; other site 748280005885 conserved gate region; other site 748280005886 putative PBP binding loops; other site 748280005887 ABC-ATPase subunit interface; other site 748280005888 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 748280005889 dimer interface [polypeptide binding]; other site 748280005890 conserved gate region; other site 748280005891 ABC-ATPase subunit interface; other site 748280005892 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 748280005893 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 748280005894 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280005895 DNA-binding site [nucleotide binding]; DNA binding site 748280005896 transcriptional regulator protein; Region: phnR; TIGR03337 748280005897 UTRA domain; Region: UTRA; pfam07702 748280005898 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 748280005899 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 748280005900 acyl-activating enzyme (AAE) consensus motif; other site 748280005901 putative AMP binding site [chemical binding]; other site 748280005902 putative active site [active] 748280005903 putative CoA binding site [chemical binding]; other site 748280005904 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 748280005905 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 748280005906 catalytic residues [active] 748280005907 Serine hydrolase; Region: Ser_hydrolase; pfam06821 748280005908 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 748280005909 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 748280005910 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280005911 putative substrate translocation pore; other site 748280005912 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 748280005913 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 748280005914 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 748280005915 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 748280005916 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 748280005917 NADP binding site [chemical binding]; other site 748280005918 dimer interface [polypeptide binding]; other site 748280005919 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 748280005920 Ligand Binding Site [chemical binding]; other site 748280005921 Hemerythrin-like domain; Region: Hr-like; cd12108 748280005922 Fe binding site [ion binding]; other site 748280005923 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 748280005924 [2Fe-2S] cluster binding site [ion binding]; other site 748280005925 AAA domain; Region: AAA_22; pfam13401 748280005926 AAA ATPase domain; Region: AAA_16; pfam13191 748280005927 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280005928 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 748280005929 DNA binding residues [nucleotide binding] 748280005930 dimerization interface [polypeptide binding]; other site 748280005931 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 748280005932 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 748280005933 ligand binding site [chemical binding]; other site 748280005934 homodimer interface [polypeptide binding]; other site 748280005935 NAD(P) binding site [chemical binding]; other site 748280005936 trimer interface B [polypeptide binding]; other site 748280005937 trimer interface A [polypeptide binding]; other site 748280005938 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 748280005939 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 748280005940 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 748280005941 beta-ketothiolase; Provisional; Region: PRK09051 748280005942 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 748280005943 dimer interface [polypeptide binding]; other site 748280005944 active site 748280005945 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 748280005946 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280005947 acyl-activating enzyme (AAE) consensus motif; other site 748280005948 AMP binding site [chemical binding]; other site 748280005949 active site 748280005950 CoA binding site [chemical binding]; other site 748280005951 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280005952 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280005953 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280005954 active site 748280005955 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280005956 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 748280005957 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 748280005958 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280005959 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 748280005960 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 748280005961 substrate binding site [chemical binding]; other site 748280005962 oxyanion hole (OAH) forming residues; other site 748280005963 trimer interface [polypeptide binding]; other site 748280005964 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 748280005965 PAS domain; Region: PAS_9; pfam13426 748280005966 putative active site [active] 748280005967 heme pocket [chemical binding]; other site 748280005968 HAMP domain; Region: HAMP; pfam00672 748280005969 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280005970 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280005971 dimer interface [polypeptide binding]; other site 748280005972 putative CheW interface [polypeptide binding]; other site 748280005973 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 748280005974 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280005975 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 748280005976 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 748280005977 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 748280005978 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 748280005979 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 748280005980 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 748280005981 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280005982 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280005983 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 748280005984 putative metal binding site [ion binding]; other site 748280005985 putative homodimer interface [polypeptide binding]; other site 748280005986 putative homotetramer interface [polypeptide binding]; other site 748280005987 putative homodimer-homodimer interface [polypeptide binding]; other site 748280005988 putative allosteric switch controlling residues; other site 748280005989 High-affinity nickel-transport protein; Region: NicO; cl00964 748280005990 High-affinity nickel-transport protein; Region: NicO; cl00964 748280005991 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 748280005992 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 748280005993 putative hydrophobic ligand binding site [chemical binding]; other site 748280005994 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 748280005995 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 748280005996 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 748280005997 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 748280005998 RNA polymerase sigma factor; Provisional; Region: PRK12511 748280005999 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280006000 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 748280006001 DNA binding residues [nucleotide binding] 748280006002 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280006003 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 748280006004 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280006005 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006006 metal binding site [ion binding]; metal-binding site 748280006007 active site 748280006008 I-site; other site 748280006009 UreD urease accessory protein; Region: UreD; pfam01774 748280006010 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 748280006011 alpha-gamma subunit interface [polypeptide binding]; other site 748280006012 beta-gamma subunit interface [polypeptide binding]; other site 748280006013 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 748280006014 gamma-beta subunit interface [polypeptide binding]; other site 748280006015 alpha-beta subunit interface [polypeptide binding]; other site 748280006016 urease subunit alpha; Reviewed; Region: ureC; PRK13207 748280006017 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 748280006018 subunit interactions [polypeptide binding]; other site 748280006019 active site 748280006020 flap region; other site 748280006021 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 748280006022 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 748280006023 dimer interface [polypeptide binding]; other site 748280006024 catalytic residues [active] 748280006025 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 748280006026 UreF; Region: UreF; pfam01730 748280006027 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 748280006028 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 748280006029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 748280006030 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 748280006031 non-specific DNA binding site [nucleotide binding]; other site 748280006032 salt bridge; other site 748280006033 sequence-specific DNA binding site [nucleotide binding]; other site 748280006034 HipA N-terminal domain; Region: Couple_hipA; cl11853 748280006035 HipA-like N-terminal domain; Region: HipA_N; pfam07805 748280006036 HipA-like C-terminal domain; Region: HipA_C; pfam07804 748280006037 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 748280006038 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 748280006039 NAD(P) binding site [chemical binding]; other site 748280006040 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 748280006041 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 748280006042 metal binding site [ion binding]; metal-binding site 748280006043 putative dimer interface [polypeptide binding]; other site 748280006044 Predicted membrane protein [Function unknown]; Region: COG2860 748280006045 UPF0126 domain; Region: UPF0126; pfam03458 748280006046 UPF0126 domain; Region: UPF0126; pfam03458 748280006047 benzoate transport; Region: 2A0115; TIGR00895 748280006048 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 748280006049 putative substrate translocation pore; other site 748280006050 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 748280006051 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 748280006052 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 748280006053 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 748280006054 maleylacetoacetate isomerase; Region: maiA; TIGR01262 748280006055 C-terminal domain interface [polypeptide binding]; other site 748280006056 GSH binding site (G-site) [chemical binding]; other site 748280006057 putative dimer interface [polypeptide binding]; other site 748280006058 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 748280006059 dimer interface [polypeptide binding]; other site 748280006060 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 748280006061 N-terminal domain interface [polypeptide binding]; other site 748280006062 salicylate hydroxylase; Provisional; Region: PRK08163 748280006063 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 748280006064 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 748280006065 Cupin domain; Region: Cupin_2; pfam07883 748280006066 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 748280006067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006068 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 748280006069 substrate binding pocket [chemical binding]; other site 748280006070 dimerization interface [polypeptide binding]; other site 748280006071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006073 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 748280006074 putative effector binding pocket; other site 748280006075 dimerization interface [polypeptide binding]; other site 748280006076 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 748280006077 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 748280006078 catalytic residues [active] 748280006079 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 748280006080 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280006081 NAD binding site [chemical binding]; other site 748280006082 substrate binding site [chemical binding]; other site 748280006083 putative active site [active] 748280006084 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 748280006085 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 748280006086 Cl- selectivity filter; other site 748280006087 Cl- binding residues [ion binding]; other site 748280006088 pore gating glutamate residue; other site 748280006089 dimer interface [polypeptide binding]; other site 748280006090 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 748280006091 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 748280006092 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 748280006093 DNA binding residues [nucleotide binding] 748280006094 dimer interface [polypeptide binding]; other site 748280006095 putative metal binding site [ion binding]; other site 748280006096 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280006097 Heavy-metal-associated domain; Region: HMA; pfam00403 748280006098 metal-binding site [ion binding] 748280006099 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280006100 Soluble P-type ATPase [General function prediction only]; Region: COG4087 748280006101 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280006102 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 748280006103 putative DNA binding site [nucleotide binding]; other site 748280006104 putative Zn2+ binding site [ion binding]; other site 748280006105 AsnC family; Region: AsnC_trans_reg; pfam01037 748280006106 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 748280006107 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 748280006108 active site 748280006109 Zn binding site [ion binding]; other site 748280006110 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280006111 Coenzyme A binding pocket [chemical binding]; other site 748280006112 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280006113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280006114 dimer interface [polypeptide binding]; other site 748280006115 putative CheW interface [polypeptide binding]; other site 748280006116 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280006117 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 748280006118 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 748280006119 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 748280006120 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 748280006121 NAD binding site [chemical binding]; other site 748280006122 Phe binding site; other site 748280006123 glutamate racemase; Provisional; Region: PRK00865 748280006124 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 748280006125 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 748280006126 Cl- selectivity filter; other site 748280006127 Cl- binding residues [ion binding]; other site 748280006128 pore gating glutamate residue; other site 748280006129 dimer interface [polypeptide binding]; other site 748280006130 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 748280006131 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 748280006132 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 748280006133 Sulfatase; Region: Sulfatase; cl17466 748280006134 choline-sulfatase; Region: chol_sulfatase; TIGR03417 748280006135 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 748280006136 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280006137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006138 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 748280006139 dimerization interface [polypeptide binding]; other site 748280006140 substrate binding pocket [chemical binding]; other site 748280006141 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 748280006142 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 748280006143 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 748280006144 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 748280006145 [4Fe-4S] binding site [ion binding]; other site 748280006146 molybdopterin cofactor binding site; other site 748280006147 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 748280006148 molybdopterin cofactor binding site; other site 748280006149 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 748280006150 non-specific DNA binding site [nucleotide binding]; other site 748280006151 Predicted transcriptional regulator [Transcription]; Region: COG2932 748280006152 salt bridge; other site 748280006153 sequence-specific DNA binding site [nucleotide binding]; other site 748280006154 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 748280006155 Catalytic site [active] 748280006156 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 748280006157 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 748280006158 putative transposase OrfB; Reviewed; Region: PHA02517 748280006159 Integrase core domain; Region: rve; pfam00665 748280006160 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 748280006161 AAA domain; Region: AAA_22; pfam13401 748280006162 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 748280006163 non-specific DNA binding site [nucleotide binding]; other site 748280006164 salt bridge; other site 748280006165 sequence-specific DNA binding site [nucleotide binding]; other site 748280006166 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 748280006167 non-specific DNA binding site [nucleotide binding]; other site 748280006168 salt bridge; other site 748280006169 sequence-specific DNA binding site [nucleotide binding]; other site 748280006170 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 748280006171 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 748280006172 IHF dimer interface [polypeptide binding]; other site 748280006173 IHF - DNA interface [nucleotide binding]; other site 748280006174 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 748280006175 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 748280006176 amidase catalytic site [active] 748280006177 Zn binding residues [ion binding]; other site 748280006178 substrate binding site [chemical binding]; other site 748280006179 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 748280006180 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 748280006181 Protein of unknown function (DUF935); Region: DUF935; pfam06074 748280006182 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 748280006183 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 748280006184 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 748280006185 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280006186 AAA domain; Region: AAA_21; pfam13304 748280006187 Walker A/P-loop; other site 748280006188 ATP binding site [chemical binding]; other site 748280006189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 748280006190 ABC transporter signature motif; other site 748280006191 Walker B; other site 748280006192 D-loop; other site 748280006193 H-loop/switch region; other site 748280006194 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 748280006195 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 748280006196 active site 748280006197 DNA binding site [nucleotide binding] 748280006198 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 748280006199 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 748280006200 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 748280006201 Catalytic site [active] 748280006202 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 748280006203 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 748280006204 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 748280006205 Sel1-like repeats; Region: SEL1; smart00671 748280006206 Sel1-like repeats; Region: SEL1; smart00671 748280006207 SEC-C motif; Region: SEC-C; pfam02810 748280006208 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 748280006209 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 748280006210 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 748280006211 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 748280006212 cofactor binding site; other site 748280006213 DNA binding site [nucleotide binding] 748280006214 substrate interaction site [chemical binding]; other site 748280006215 Competence protein CoiA-like family; Region: CoiA; cl11541 748280006216 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 748280006217 tape measure domain; Region: tape_meas_nterm; TIGR02675 748280006218 DNA-specific endonuclease I; Provisional; Region: PRK15137 748280006219 Endonuclease I; Region: Endonuclease_1; pfam04231 748280006220 NACHT domain; Region: NACHT; pfam05729 748280006221 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 748280006222 catalytic loop [active] 748280006223 iron binding site [ion binding]; other site 748280006224 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 748280006225 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 748280006226 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 748280006227 putative dimer interface [polypeptide binding]; other site 748280006228 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 748280006229 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 748280006230 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 748280006231 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 748280006232 putative dimer interface [polypeptide binding]; other site 748280006233 [2Fe-2S] cluster binding site [ion binding]; other site 748280006234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006235 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 748280006236 PBP superfamily domain; Region: PBP_like; pfam12727 748280006237 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 748280006238 amphipathic channel; other site 748280006239 Asn-Pro-Ala signature motifs; other site 748280006240 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 748280006241 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 748280006242 P loop; other site 748280006243 Nucleotide binding site [chemical binding]; other site 748280006244 DTAP/Switch II; other site 748280006245 Switch I; other site 748280006246 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 748280006247 P loop; other site 748280006248 Nucleotide binding site [chemical binding]; other site 748280006249 DTAP/Switch II; other site 748280006250 Switch I; other site 748280006251 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 748280006252 Low molecular weight phosphatase family; Region: LMWPc; cd00115 748280006253 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 748280006254 active site 748280006255 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 748280006256 dimerization interface [polypeptide binding]; other site 748280006257 putative DNA binding site [nucleotide binding]; other site 748280006258 putative Zn2+ binding site [ion binding]; other site 748280006259 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 748280006260 potassium uptake protein; Region: kup; TIGR00794 748280006261 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 748280006262 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 748280006263 active site 748280006264 phosphorylation site [posttranslational modification] 748280006265 intermolecular recognition site; other site 748280006266 dimerization interface [polypeptide binding]; other site 748280006267 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 748280006268 DNA binding site [nucleotide binding] 748280006269 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 748280006270 GAF domain; Region: GAF_3; pfam13492 748280006271 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 748280006272 dimer interface [polypeptide binding]; other site 748280006273 phosphorylation site [posttranslational modification] 748280006274 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 748280006275 ATP binding site [chemical binding]; other site 748280006276 Mg2+ binding site [ion binding]; other site 748280006277 G-X-G motif; other site 748280006278 putative chaperone; Provisional; Region: PRK11678 748280006279 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 748280006280 nucleotide binding site [chemical binding]; other site 748280006281 putative NEF/HSP70 interaction site [polypeptide binding]; other site 748280006282 SBD interface [polypeptide binding]; other site 748280006283 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 748280006284 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 748280006285 substrate binding pocket [chemical binding]; other site 748280006286 membrane-bound complex binding site; other site 748280006287 hinge residues; other site 748280006288 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280006289 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 748280006290 dimer interface [polypeptide binding]; other site 748280006291 conserved gate region; other site 748280006292 putative PBP binding loops; other site 748280006293 ABC-ATPase subunit interface; other site 748280006294 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280006295 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 748280006296 dimer interface [polypeptide binding]; other site 748280006297 conserved gate region; other site 748280006298 putative PBP binding loops; other site 748280006299 ABC-ATPase subunit interface; other site 748280006300 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 748280006301 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 748280006302 Walker A/P-loop; other site 748280006303 ATP binding site [chemical binding]; other site 748280006304 Q-loop/lid; other site 748280006305 ABC transporter signature motif; other site 748280006306 Walker B; other site 748280006307 D-loop; other site 748280006308 H-loop/switch region; other site 748280006309 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280006310 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280006311 conserved cys residue [active] 748280006312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280006313 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 748280006314 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 748280006315 inhibitor-cofactor binding pocket; inhibition site 748280006316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006317 catalytic residue [active] 748280006318 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 748280006319 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 748280006320 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 748280006321 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 748280006322 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 748280006323 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 748280006324 NAD(P) binding site [chemical binding]; other site 748280006325 catalytic residues [active] 748280006326 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 748280006327 CoenzymeA binding site [chemical binding]; other site 748280006328 subunit interaction site [polypeptide binding]; other site 748280006329 PHB binding site; other site 748280006330 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280006331 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280006332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280006333 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280006334 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280006335 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280006336 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280006337 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280006338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006339 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 748280006340 dimerization interface [polypeptide binding]; other site 748280006341 substrate binding pocket [chemical binding]; other site 748280006342 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 748280006343 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 748280006344 heat shock protein HtpX; Provisional; Region: PRK05457 748280006345 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 748280006346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006347 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 748280006348 dimerization interface [polypeptide binding]; other site 748280006349 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 748280006350 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 748280006351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280006352 putative acyl-acceptor binding pocket; other site 748280006353 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 748280006354 dimerization interface [polypeptide binding]; other site 748280006355 putative DNA binding site [nucleotide binding]; other site 748280006356 putative Zn2+ binding site [ion binding]; other site 748280006357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280006358 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 748280006359 active site 748280006360 phosphorylation site [posttranslational modification] 748280006361 intermolecular recognition site; other site 748280006362 dimerization interface [polypeptide binding]; other site 748280006363 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 748280006364 DNA binding site [nucleotide binding] 748280006365 PAS fold; Region: PAS_7; pfam12860 748280006366 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 748280006367 putative active site [active] 748280006368 heme pocket [chemical binding]; other site 748280006369 PAS domain S-box; Region: sensory_box; TIGR00229 748280006370 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 748280006371 putative active site [active] 748280006372 heme pocket [chemical binding]; other site 748280006373 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 748280006374 ATP binding site [chemical binding]; other site 748280006375 G-X-G motif; other site 748280006376 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 748280006377 active site 748280006378 phosphorylation site [posttranslational modification] 748280006379 intermolecular recognition site; other site 748280006380 dimerization interface [polypeptide binding]; other site 748280006381 acyl-CoA synthetase; Validated; Region: PRK08162 748280006382 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 748280006383 acyl-activating enzyme (AAE) consensus motif; other site 748280006384 putative active site [active] 748280006385 AMP binding site [chemical binding]; other site 748280006386 putative CoA binding site [chemical binding]; other site 748280006387 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 748280006388 Ligand binding site [chemical binding]; other site 748280006389 Electron transfer flavoprotein domain; Region: ETF; pfam01012 748280006390 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 748280006391 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 748280006392 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 748280006393 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280006394 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280006395 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280006396 active site 748280006397 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280006398 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280006399 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 748280006400 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 748280006401 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 748280006402 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 748280006403 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280006404 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 748280006405 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 748280006406 substrate binding site [chemical binding]; other site 748280006407 oxyanion hole (OAH) forming residues; other site 748280006408 trimer interface [polypeptide binding]; other site 748280006409 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 748280006410 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 748280006411 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 748280006412 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 748280006413 Walker A/P-loop; other site 748280006414 ATP binding site [chemical binding]; other site 748280006415 Q-loop/lid; other site 748280006416 ABC transporter signature motif; other site 748280006417 Walker B; other site 748280006418 D-loop; other site 748280006419 H-loop/switch region; other site 748280006420 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280006421 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 748280006422 FtsX-like permease family; Region: FtsX; pfam02687 748280006423 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280006424 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280006425 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280006426 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 748280006427 [2Fe-2S] cluster binding site [ion binding]; other site 748280006428 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 748280006429 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 748280006430 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 748280006431 trimerization site [polypeptide binding]; other site 748280006432 active site 748280006433 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 748280006434 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 748280006435 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280006436 catalytic residue [active] 748280006437 FeS assembly protein SufD; Region: sufD; TIGR01981 748280006438 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 748280006439 FeS assembly ATPase SufC; Region: sufC; TIGR01978 748280006440 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 748280006441 Walker A/P-loop; other site 748280006442 ATP binding site [chemical binding]; other site 748280006443 Q-loop/lid; other site 748280006444 ABC transporter signature motif; other site 748280006445 Walker B; other site 748280006446 D-loop; other site 748280006447 H-loop/switch region; other site 748280006448 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 748280006449 putative ABC transporter; Region: ycf24; CHL00085 748280006450 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 748280006451 Transcriptional regulator; Region: Rrf2; pfam02082 748280006452 Transcriptional regulator; Region: Rrf2; cl17282 748280006453 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 748280006454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006456 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 748280006457 putative effector binding pocket; other site 748280006458 dimerization interface [polypeptide binding]; other site 748280006459 Fusaric acid resistance protein family; Region: FUSC; pfam04632 748280006460 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 748280006461 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 748280006462 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 748280006463 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280006464 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280006465 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 748280006466 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 748280006467 GAF domain; Region: GAF; pfam01590 748280006468 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 748280006469 Walker A motif; other site 748280006470 ATP binding site [chemical binding]; other site 748280006471 Walker B motif; other site 748280006472 arginine finger; other site 748280006473 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280006474 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 748280006475 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 748280006476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280006477 Walker A/P-loop; other site 748280006478 ATP binding site [chemical binding]; other site 748280006479 Q-loop/lid; other site 748280006480 ABC transporter signature motif; other site 748280006481 Walker B; other site 748280006482 D-loop; other site 748280006483 H-loop/switch region; other site 748280006484 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 748280006485 active site 748280006486 catalytic residues [active] 748280006487 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 748280006488 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280006489 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280006490 NAD(P) binding site [chemical binding]; other site 748280006491 catalytic residues [active] 748280006492 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 748280006493 Cytochrome c; Region: Cytochrom_C; pfam00034 748280006494 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 748280006495 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 748280006496 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 748280006497 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 748280006498 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 748280006499 FeS/SAM binding site; other site 748280006500 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 748280006501 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 748280006502 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 748280006503 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 748280006504 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280006505 acyl-activating enzyme (AAE) consensus motif; other site 748280006506 AMP binding site [chemical binding]; other site 748280006507 active site 748280006508 CoA binding site [chemical binding]; other site 748280006509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006511 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 748280006512 dimerization interface [polypeptide binding]; other site 748280006513 agmatinase; Region: agmatinase; TIGR01230 748280006514 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 748280006515 oligomer interface [polypeptide binding]; other site 748280006516 active site 748280006517 Mn binding site [ion binding]; other site 748280006518 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280006519 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280006520 NAD(P) binding site [chemical binding]; other site 748280006521 catalytic residues [active] 748280006522 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 748280006523 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 748280006524 Na binding site [ion binding]; other site 748280006525 choline dehydrogenase; Validated; Region: PRK02106 748280006526 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 748280006527 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 748280006528 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 748280006529 G1 box; other site 748280006530 putative GEF interaction site [polypeptide binding]; other site 748280006531 GTP/Mg2+ binding site [chemical binding]; other site 748280006532 Switch I region; other site 748280006533 G2 box; other site 748280006534 G3 box; other site 748280006535 Switch II region; other site 748280006536 G4 box; other site 748280006537 G5 box; other site 748280006538 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 748280006539 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 748280006540 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 748280006541 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 748280006542 selenocysteine synthase; Provisional; Region: PRK04311 748280006543 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 748280006544 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 748280006545 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 748280006546 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 748280006547 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 748280006548 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 748280006549 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 748280006550 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 748280006551 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 748280006552 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 748280006553 [4Fe-4S] binding site [ion binding]; other site 748280006554 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 748280006555 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 748280006556 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 748280006557 molybdopterin cofactor binding site; other site 748280006558 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 748280006559 nudix motif; other site 748280006560 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 748280006561 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280006562 putative substrate translocation pore; other site 748280006563 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 748280006564 MarR family; Region: MarR_2; cl17246 748280006565 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280006566 pyruvate carboxylase; Reviewed; Region: PRK12999 748280006567 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280006568 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 748280006569 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 748280006570 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 748280006571 active site 748280006572 catalytic residues [active] 748280006573 metal binding site [ion binding]; metal-binding site 748280006574 homodimer binding site [polypeptide binding]; other site 748280006575 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 748280006576 carboxyltransferase (CT) interaction site; other site 748280006577 biotinylation site [posttranslational modification]; other site 748280006578 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 748280006579 FAD binding site [chemical binding]; other site 748280006580 lipoyl synthase; Provisional; Region: PRK05481 748280006581 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 748280006582 FeS/SAM binding site; other site 748280006583 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 748280006584 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280006585 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280006586 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 748280006587 dimer interface [polypeptide binding]; other site 748280006588 active site 748280006589 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280006590 folate binding site [chemical binding]; other site 748280006591 glycine dehydrogenase; Provisional; Region: PRK05367 748280006592 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 748280006593 tetramer interface [polypeptide binding]; other site 748280006594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006595 catalytic residue [active] 748280006596 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 748280006597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006598 tetramer interface [polypeptide binding]; other site 748280006599 catalytic residue [active] 748280006600 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 748280006601 lipoyl attachment site [posttranslational modification]; other site 748280006602 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 748280006603 non-specific DNA binding site [nucleotide binding]; other site 748280006604 salt bridge; other site 748280006605 sequence-specific DNA binding site [nucleotide binding]; other site 748280006606 CHASE3 domain; Region: CHASE3; pfam05227 748280006607 PAS fold; Region: PAS; pfam00989 748280006608 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 748280006609 putative active site [active] 748280006610 heme pocket [chemical binding]; other site 748280006611 PAS fold; Region: PAS_4; pfam08448 748280006612 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280006613 GAF domain; Region: GAF; pfam01590 748280006614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280006615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006616 metal binding site [ion binding]; metal-binding site 748280006617 active site 748280006618 I-site; other site 748280006619 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 748280006620 Uncharacterized conserved protein [Function unknown]; Region: COG2135 748280006621 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 748280006622 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280006623 substrate binding pocket [chemical binding]; other site 748280006624 membrane-bound complex binding site; other site 748280006625 hinge residues; other site 748280006626 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280006627 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 748280006628 dimer interface [polypeptide binding]; other site 748280006629 conserved gate region; other site 748280006630 putative PBP binding loops; other site 748280006631 ABC-ATPase subunit interface; other site 748280006632 DNA gyrase subunit A; Validated; Region: PRK05560 748280006633 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 748280006634 CAP-like domain; other site 748280006635 active site 748280006636 primary dimer interface [polypeptide binding]; other site 748280006637 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006638 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006639 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006640 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006641 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006642 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 748280006643 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 748280006644 CoenzymeA binding site [chemical binding]; other site 748280006645 subunit interaction site [polypeptide binding]; other site 748280006646 PHB binding site; other site 748280006647 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 748280006648 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 748280006649 CoenzymeA binding site [chemical binding]; other site 748280006650 subunit interaction site [polypeptide binding]; other site 748280006651 PHB binding site; other site 748280006652 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 748280006653 homodimer interface [polypeptide binding]; other site 748280006654 substrate-cofactor binding pocket; other site 748280006655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006656 catalytic residue [active] 748280006657 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 748280006658 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 748280006659 putative substrate translocation pore; other site 748280006660 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 748280006661 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 748280006662 S-adenosylmethionine binding site [chemical binding]; other site 748280006663 Chorismate mutase type II; Region: CM_2; cl00693 748280006664 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 748280006665 Prephenate dehydratase; Region: PDT; pfam00800 748280006666 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 748280006667 putative L-Phe binding site [chemical binding]; other site 748280006668 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 748280006669 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 748280006670 conserved cys residue [active] 748280006671 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 748280006672 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 748280006673 OsmC-like protein; Region: OsmC; pfam02566 748280006674 Protein of unknown function, DUF484; Region: DUF484; cl17449 748280006675 GAF domain; Region: GAF_2; pfam13185 748280006676 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 748280006677 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 748280006678 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 748280006679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280006680 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280006681 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 748280006682 CoenzymeA binding site [chemical binding]; other site 748280006683 subunit interaction site [polypeptide binding]; other site 748280006684 PHB binding site; other site 748280006685 enoyl-CoA hydratase; Provisional; Region: PRK06142 748280006686 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 748280006687 substrate binding site [chemical binding]; other site 748280006688 oxyanion hole (OAH) forming residues; other site 748280006689 trimer interface [polypeptide binding]; other site 748280006690 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280006691 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 748280006692 dimerization interface [polypeptide binding]; other site 748280006693 ligand binding site [chemical binding]; other site 748280006694 ferrochelatase; Reviewed; Region: hemH; PRK00035 748280006695 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 748280006696 C-terminal domain interface [polypeptide binding]; other site 748280006697 active site 748280006698 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 748280006699 active site 748280006700 N-terminal domain interface [polypeptide binding]; other site 748280006701 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 748280006702 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 748280006703 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 748280006704 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 748280006705 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 748280006706 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280006707 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 748280006708 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 748280006709 active site 748280006710 HIGH motif; other site 748280006711 dimer interface [polypeptide binding]; other site 748280006712 KMSKS motif; other site 748280006713 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 748280006714 RNA binding surface [nucleotide binding]; other site 748280006715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 748280006716 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 748280006717 DHH family; Region: DHH; pfam01368 748280006718 DHHA1 domain; Region: DHHA1; pfam02272 748280006719 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 748280006720 RmuC family; Region: RmuC; pfam02646 748280006721 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 748280006722 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 748280006723 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 748280006724 dimer interface [polypeptide binding]; other site 748280006725 active site residues [active] 748280006726 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 748280006727 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 748280006728 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 748280006729 acetyl-CoA synthetase; Provisional; Region: PRK04319 748280006730 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 748280006731 active site 748280006732 acyl-activating enzyme (AAE) consensus motif; other site 748280006733 putative CoA binding site [chemical binding]; other site 748280006734 AMP binding site [chemical binding]; other site 748280006735 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 748280006736 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 748280006737 tetramer interface [polypeptide binding]; other site 748280006738 TPP-binding site [chemical binding]; other site 748280006739 heterodimer interface [polypeptide binding]; other site 748280006740 phosphorylation loop region [posttranslational modification] 748280006741 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 748280006742 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 748280006743 alpha subunit interface [polypeptide binding]; other site 748280006744 TPP binding site [chemical binding]; other site 748280006745 heterodimer interface [polypeptide binding]; other site 748280006746 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280006747 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 748280006748 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 748280006749 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 748280006750 E3 interaction surface; other site 748280006751 lipoyl attachment site [posttranslational modification]; other site 748280006752 e3 binding domain; Region: E3_binding; pfam02817 748280006753 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 748280006754 Phosphopantetheine attachment site; Region: PP-binding; cl09936 748280006755 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 748280006756 acyl-CoA synthetase; Validated; Region: PRK09192 748280006757 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 748280006758 acyl-activating enzyme (AAE) consensus motif; other site 748280006759 active site 748280006760 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 748280006761 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280006762 putative acyl-acceptor binding pocket; other site 748280006763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280006764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280006765 LysR substrate binding domain; Region: LysR_substrate; pfam03466 748280006766 dimerization interface [polypeptide binding]; other site 748280006767 putative cyanate transporter; Provisional; Region: cynX; PRK09705 748280006768 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 748280006769 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 748280006770 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 748280006771 substrate binding pocket [chemical binding]; other site 748280006772 membrane-bound complex binding site; other site 748280006773 hinge residues; other site 748280006774 cytosine deaminase; Provisional; Region: PRK05985 748280006775 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 748280006776 active site 748280006777 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280006778 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 748280006779 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 748280006780 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 748280006781 Zonular occludens toxin (Zot); Region: Zot; cl17485 748280006782 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280006783 putative replication initiation protein; Region: PHA00330 748280006784 translation initiation factor Sui1; Validated; Region: PRK06824 748280006785 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 748280006786 putative rRNA binding site [nucleotide binding]; other site 748280006787 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 748280006788 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 748280006789 G1 box; other site 748280006790 putative GEF interaction site [polypeptide binding]; other site 748280006791 GTP/Mg2+ binding site [chemical binding]; other site 748280006792 Switch I region; other site 748280006793 G2 box; other site 748280006794 G3 box; other site 748280006795 Switch II region; other site 748280006796 G4 box; other site 748280006797 G5 box; other site 748280006798 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 748280006799 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 748280006800 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 748280006801 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 748280006802 NAD(P) binding site [chemical binding]; other site 748280006803 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 748280006804 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 748280006805 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 748280006806 metal-binding site [ion binding] 748280006807 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280006808 Soluble P-type ATPase [General function prediction only]; Region: COG4087 748280006809 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 748280006810 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 748280006811 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 748280006812 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280006813 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 748280006814 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 748280006815 motif II; other site 748280006816 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 748280006817 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 748280006818 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 748280006819 dimerization interface [polypeptide binding]; other site 748280006820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280006821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006822 metal binding site [ion binding]; metal-binding site 748280006823 active site 748280006824 I-site; other site 748280006825 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 748280006826 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 748280006827 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280006828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280006829 metal binding site [ion binding]; metal-binding site 748280006830 active site 748280006831 I-site; other site 748280006832 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 748280006833 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280006834 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280006835 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 748280006836 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 748280006837 catalytic triad [active] 748280006838 dimer interface [polypeptide binding]; other site 748280006839 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280006840 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 748280006841 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280006842 putative metal binding site [ion binding]; other site 748280006843 lytic murein transglycosylase; Provisional; Region: PRK11619 748280006844 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 748280006845 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280006846 catalytic residue [active] 748280006847 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 748280006848 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280006849 putative NAD(P) binding site [chemical binding]; other site 748280006850 active site 748280006851 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 748280006852 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 748280006853 active site 748280006854 NTP binding site [chemical binding]; other site 748280006855 metal binding triad [ion binding]; metal-binding site 748280006856 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 748280006857 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280006858 Zn2+ binding site [ion binding]; other site 748280006859 Mg2+ binding site [ion binding]; other site 748280006860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 748280006861 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 748280006862 active site 748280006863 catalytic triad [active] 748280006864 oxyanion hole [active] 748280006865 FtsH Extracellular; Region: FtsH_ext; pfam06480 748280006866 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 748280006867 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 748280006868 Walker A motif; other site 748280006869 ATP binding site [chemical binding]; other site 748280006870 Walker B motif; other site 748280006871 arginine finger; other site 748280006872 Peptidase family M41; Region: Peptidase_M41; pfam01434 748280006873 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 748280006874 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 748280006875 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 748280006876 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 748280006877 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 748280006878 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280006879 ligand binding site [chemical binding]; other site 748280006880 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 748280006881 flagellar motor protein MotA; Validated; Region: PRK09110 748280006882 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280006883 putative aminotransferase; Validated; Region: PRK07480 748280006884 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 748280006885 inhibitor-cofactor binding pocket; inhibition site 748280006886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280006887 catalytic residue [active] 748280006888 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280006889 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280006890 Peptidase C26; Region: Peptidase_C26; pfam07722 748280006891 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 748280006892 catalytic triad [active] 748280006893 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 748280006894 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 748280006895 hexamer interface [polypeptide binding]; other site 748280006896 ligand binding site [chemical binding]; other site 748280006897 putative active site [active] 748280006898 NAD(P) binding site [chemical binding]; other site 748280006899 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280006900 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 748280006901 non-specific DNA binding site [nucleotide binding]; other site 748280006902 salt bridge; other site 748280006903 sequence-specific DNA binding site [nucleotide binding]; other site 748280006904 Cupin domain; Region: Cupin_2; pfam07883 748280006905 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 748280006906 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 748280006907 NAD(P) binding site [chemical binding]; other site 748280006908 catalytic residues [active] 748280006909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 748280006910 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 748280006911 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280006912 AAA domain; Region: AAA_11; pfam13086 748280006913 Part of AAA domain; Region: AAA_19; pfam13245 748280006914 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 748280006915 AAA domain; Region: AAA_12; pfam13087 748280006916 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 748280006917 putative active site [active] 748280006918 HD domain; Region: HD_3; pfam13023 748280006919 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 748280006920 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 748280006921 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 748280006922 DNA-binding site [nucleotide binding]; DNA binding site 748280006923 RNA-binding motif; other site 748280006924 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 748280006925 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 748280006926 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 748280006927 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 748280006928 non-specific DNA binding site [nucleotide binding]; other site 748280006929 salt bridge; other site 748280006930 sequence-specific DNA binding site [nucleotide binding]; other site 748280006931 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 748280006932 Ligand Binding Site [chemical binding]; other site 748280006933 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 748280006934 active site 748280006935 tellurium resistance terB-like protein; Region: terB_like; cl11965 748280006936 metal binding site [ion binding]; metal-binding site 748280006937 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 748280006938 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 748280006939 active site 748280006940 DNA binding site [nucleotide binding] 748280006941 Int/Topo IB signature motif; other site 748280006942 Competence-damaged protein; Region: CinA; cl00666 748280006943 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 748280006944 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 748280006945 active site 748280006946 dimer interface [polypeptide binding]; other site 748280006947 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 748280006948 dimer interface [polypeptide binding]; other site 748280006949 active site 748280006950 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 748280006951 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 748280006952 catalytic site [active] 748280006953 putative active site [active] 748280006954 putative substrate binding site [chemical binding]; other site 748280006955 dimer interface [polypeptide binding]; other site 748280006956 Peptidase family M48; Region: Peptidase_M48; cl12018 748280006957 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 748280006958 aromatic arch; other site 748280006959 DCoH dimer interaction site [polypeptide binding]; other site 748280006960 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 748280006961 DCoH tetramer interaction site [polypeptide binding]; other site 748280006962 substrate binding site [chemical binding]; other site 748280006963 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 748280006964 GTPase RsgA; Reviewed; Region: PRK00098 748280006965 RNA binding site [nucleotide binding]; other site 748280006966 homodimer interface [polypeptide binding]; other site 748280006967 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 748280006968 GTPase/Zn-binding domain interface [polypeptide binding]; other site 748280006969 GTP/Mg2+ binding site [chemical binding]; other site 748280006970 G4 box; other site 748280006971 G5 box; other site 748280006972 G1 box; other site 748280006973 Switch I region; other site 748280006974 G2 box; other site 748280006975 G3 box; other site 748280006976 Switch II region; other site 748280006977 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 748280006978 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 748280006979 NAD(P) binding site [chemical binding]; other site 748280006980 homotetramer interface [polypeptide binding]; other site 748280006981 homodimer interface [polypeptide binding]; other site 748280006982 active site 748280006983 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 748280006984 GAF domain; Region: GAF_2; pfam13185 748280006985 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 748280006986 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 748280006987 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 748280006988 active site 748280006989 DNA binding site [nucleotide binding] 748280006990 Int/Topo IB signature motif; other site 748280006991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 748280006992 Transposase; Region: HTH_Tnp_1; pfam01527 748280006993 potential frameshift: common BLAST hit: gi|251791805|ref|YP_003006526.1| Integrase catalytic region 748280006994 HTH-like domain; Region: HTH_21; pfam13276 748280006995 Integrase core domain; Region: rve; pfam00665 748280006996 Integrase core domain; Region: rve; pfam00665 748280006997 Integrase core domain; Region: rve_2; pfam13333 748280006998 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 748280006999 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 748280007000 active site 748280007001 phosphorylation site [posttranslational modification] 748280007002 intermolecular recognition site; other site 748280007003 dimerization interface [polypeptide binding]; other site 748280007004 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 748280007005 DNA binding site [nucleotide binding] 748280007006 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280007007 HAMP domain; Region: HAMP; pfam00672 748280007008 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 748280007009 dimer interface [polypeptide binding]; other site 748280007010 phosphorylation site [posttranslational modification] 748280007011 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 748280007012 ATP binding site [chemical binding]; other site 748280007013 Mg2+ binding site [ion binding]; other site 748280007014 G-X-G motif; other site 748280007015 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280007016 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 748280007017 putative substrate translocation pore; other site 748280007018 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 748280007019 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280007020 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280007021 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280007022 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007023 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007024 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 748280007025 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 748280007026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007027 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 748280007028 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280007029 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280007030 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 748280007031 Protein export membrane protein; Region: SecD_SecF; cl14618 748280007032 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 748280007033 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280007034 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 748280007035 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 748280007036 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 748280007037 active site 748280007038 dimer interface [polypeptide binding]; other site 748280007039 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 748280007040 Ligand Binding Site [chemical binding]; other site 748280007041 Molecular Tunnel; other site 748280007042 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 748280007043 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 748280007044 Ligand binding site; other site 748280007045 Putative Catalytic site; other site 748280007046 DXD motif; other site 748280007047 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 748280007048 Methyltransferase domain; Region: Methyltransf_31; pfam13847 748280007049 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 748280007050 S-adenosylmethionine binding site [chemical binding]; other site 748280007051 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 748280007052 Flp/Fap pilin component; Region: Flp_Fap; cl01585 748280007053 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 748280007054 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 748280007055 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 748280007056 Walker A motif; other site 748280007057 ATP binding site [chemical binding]; other site 748280007058 Walker B motif; other site 748280007059 arginine finger; other site 748280007060 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 748280007061 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 748280007062 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 748280007063 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 748280007064 BON domain; Region: BON; pfam04972 748280007065 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 748280007066 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 748280007067 TadE-like protein; Region: TadE; pfam07811 748280007068 TadE-like protein; Region: TadE; pfam07811 748280007069 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280007070 AAA domain; Region: AAA_31; pfam13614 748280007071 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 748280007072 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 748280007073 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 748280007074 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 748280007075 ATP binding site [chemical binding]; other site 748280007076 Walker A motif; other site 748280007077 hexamer interface [polypeptide binding]; other site 748280007078 Walker B motif; other site 748280007079 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 748280007080 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 748280007081 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 748280007082 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 748280007083 TPR repeat; Region: TPR_11; pfam13414 748280007084 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 748280007085 binding surface 748280007086 TPR motif; other site 748280007087 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 748280007088 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 748280007089 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280007090 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 748280007091 tetramer interfaces [polypeptide binding]; other site 748280007092 binuclear metal-binding site [ion binding]; other site 748280007093 thiamine monophosphate kinase; Provisional; Region: PRK05731 748280007094 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 748280007095 ATP binding site [chemical binding]; other site 748280007096 dimerization interface [polypeptide binding]; other site 748280007097 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 748280007098 putative RNA binding site [nucleotide binding]; other site 748280007099 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 748280007100 homopentamer interface [polypeptide binding]; other site 748280007101 active site 748280007102 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 748280007103 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 748280007104 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 748280007105 dimerization interface [polypeptide binding]; other site 748280007106 active site 748280007107 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 748280007108 Lumazine binding domain; Region: Lum_binding; pfam00677 748280007109 Lumazine binding domain; Region: Lum_binding; pfam00677 748280007110 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 748280007111 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 748280007112 G1 box; other site 748280007113 putative GEF interaction site [polypeptide binding]; other site 748280007114 GTP/Mg2+ binding site [chemical binding]; other site 748280007115 Switch I region; other site 748280007116 G2 box; other site 748280007117 G3 box; other site 748280007118 Switch II region; other site 748280007119 G4 box; other site 748280007120 G5 box; other site 748280007121 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 748280007122 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 748280007123 Mechanosensitive ion channel; Region: MS_channel; pfam00924 748280007124 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007125 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007126 Bacterial transcriptional repressor; Region: TetR; pfam13972 748280007127 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 748280007128 Paraquat-inducible protein A; Region: PqiA; pfam04403 748280007129 Paraquat-inducible protein A; Region: PqiA; pfam04403 748280007130 paraquat-inducible protein B; Provisional; Region: PRK10807 748280007131 mce related protein; Region: MCE; pfam02470 748280007132 mce related protein; Region: MCE; pfam02470 748280007133 mce related protein; Region: MCE; pfam02470 748280007134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 748280007135 Protein of unknown function (DUF330); Region: DUF330; pfam03886 748280007136 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 748280007137 NAD(P) binding site [chemical binding]; other site 748280007138 catalytic residues [active] 748280007139 Tetratricopeptide repeat; Region: TPR_12; pfam13424 748280007140 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 748280007141 binding surface 748280007142 TPR motif; other site 748280007143 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 748280007144 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 748280007145 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 748280007146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280007147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007148 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 748280007149 putative dimerization interface [polypeptide binding]; other site 748280007150 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 748280007151 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 748280007152 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 748280007153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007154 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 748280007155 dimerization interface [polypeptide binding]; other site 748280007156 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 748280007157 Isochorismatase family; Region: Isochorismatase; pfam00857 748280007158 catalytic triad [active] 748280007159 dimer interface [polypeptide binding]; other site 748280007160 conserved cis-peptide bond; other site 748280007161 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 748280007162 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 748280007163 active site 748280007164 XapX domain; Region: XapX; TIGR03510 748280007165 Predicted membrane protein [Function unknown]; Region: COG2259 748280007166 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 748280007167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280007168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007169 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 748280007170 dimerization interface [polypeptide binding]; other site 748280007171 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 748280007172 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 748280007173 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 748280007174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 748280007175 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 748280007176 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 748280007177 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 748280007178 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007179 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 748280007181 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 748280007182 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 748280007183 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 748280007184 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 748280007185 S-adenosylmethionine binding site [chemical binding]; other site 748280007186 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 748280007187 short chain dehydrogenase; Provisional; Region: PRK06101 748280007188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007189 NAD(P) binding site [chemical binding]; other site 748280007190 active site 748280007191 SnoaL-like domain; Region: SnoaL_2; pfam12680 748280007192 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 748280007193 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 748280007194 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 748280007195 HIT family signature motif; other site 748280007196 catalytic residue [active] 748280007197 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 748280007198 phosphatidylcholine-sterol O-acyltransferase; Region: PLN02733 748280007199 PGAP1-like protein; Region: PGAP1; pfam07819 748280007200 CHAT domain; Region: CHAT; cl17868 748280007201 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 748280007202 nucleotide binding site/active site [active] 748280007203 HIT family signature motif; other site 748280007204 catalytic residue [active] 748280007205 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 748280007206 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 748280007207 substrate binding site [chemical binding]; other site 748280007208 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 748280007209 substrate binding site [chemical binding]; other site 748280007210 ligand binding site [chemical binding]; other site 748280007211 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280007212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007213 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 748280007214 dimerization interface [polypeptide binding]; other site 748280007215 substrate binding pocket [chemical binding]; other site 748280007216 aconitate hydratase; Validated; Region: PRK09277 748280007217 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 748280007218 substrate binding site [chemical binding]; other site 748280007219 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 748280007220 ligand binding site [chemical binding]; other site 748280007221 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 748280007222 substrate binding site [chemical binding]; other site 748280007223 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 748280007224 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 748280007225 DctM-like transporters; Region: DctM; pfam06808 748280007226 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 748280007227 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 748280007228 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 748280007229 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 748280007230 putative active site [active] 748280007231 heme pocket [chemical binding]; other site 748280007232 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 748280007233 putative active site [active] 748280007234 heme pocket [chemical binding]; other site 748280007235 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280007236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280007237 metal binding site [ion binding]; metal-binding site 748280007238 active site 748280007239 I-site; other site 748280007240 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 748280007241 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 748280007242 acetylornithine deacetylase; Provisional; Region: PRK07522 748280007243 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 748280007244 metal binding site [ion binding]; metal-binding site 748280007245 putative dimer interface [polypeptide binding]; other site 748280007246 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 748280007247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 748280007248 Predicted permeases [General function prediction only]; Region: COG0679 748280007249 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 748280007250 catalytic core [active] 748280007251 methionine sulfoxide reductase B; Provisional; Region: PRK00222 748280007252 SelR domain; Region: SelR; pfam01641 748280007253 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 748280007254 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 748280007255 HflX GTPase family; Region: HflX; cd01878 748280007256 G1 box; other site 748280007257 GTP/Mg2+ binding site [chemical binding]; other site 748280007258 Switch I region; other site 748280007259 G2 box; other site 748280007260 G3 box; other site 748280007261 Switch II region; other site 748280007262 G4 box; other site 748280007263 G5 box; other site 748280007264 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 748280007265 DEAD-like helicases superfamily; Region: DEXDc; smart00487 748280007266 ATP binding site [chemical binding]; other site 748280007267 Mg++ binding site [ion binding]; other site 748280007268 motif III; other site 748280007269 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 748280007270 nucleotide binding region [chemical binding]; other site 748280007271 ATP-binding site [chemical binding]; other site 748280007272 Amino acid permease; Region: AA_permease_2; pfam13520 748280007273 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 748280007274 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 748280007275 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 748280007276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280007277 active site 748280007278 thymidine phosphorylase; Provisional; Region: PRK04350 748280007279 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 748280007280 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 748280007281 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 748280007282 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 748280007283 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280007284 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 748280007285 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 748280007286 AMP nucleosidase; Provisional; Region: PRK08292 748280007287 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 748280007288 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 748280007289 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 748280007290 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 748280007291 Walker A motif; other site 748280007292 ATP binding site [chemical binding]; other site 748280007293 Walker B motif; other site 748280007294 arginine finger; other site 748280007295 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280007296 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 748280007297 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 748280007298 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 748280007299 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 748280007300 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 748280007301 putative NAD(P) binding site [chemical binding]; other site 748280007302 catalytic Zn binding site [ion binding]; other site 748280007303 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 748280007304 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280007305 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 748280007306 active site 748280007307 metal binding site [ion binding]; metal-binding site 748280007308 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 748280007309 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 748280007310 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 748280007311 E3 interaction surface; other site 748280007312 lipoyl attachment site [posttranslational modification]; other site 748280007313 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 748280007314 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 748280007315 alpha subunit interface [polypeptide binding]; other site 748280007316 TPP binding site [chemical binding]; other site 748280007317 heterodimer interface [polypeptide binding]; other site 748280007318 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280007319 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 748280007320 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 748280007321 tetramer interface [polypeptide binding]; other site 748280007322 TPP-binding site [chemical binding]; other site 748280007323 heterodimer interface [polypeptide binding]; other site 748280007324 phosphorylation loop region [posttranslational modification] 748280007325 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 748280007326 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 748280007327 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 748280007328 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 748280007329 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 748280007330 alpha subunit interaction interface [polypeptide binding]; other site 748280007331 Walker A motif; other site 748280007332 ATP binding site [chemical binding]; other site 748280007333 Walker B motif; other site 748280007334 inhibitor binding site; inhibition site 748280007335 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 748280007336 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 748280007337 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 748280007338 LBP interface [polypeptide binding]; other site 748280007339 epsilon subunit interface [polypeptide binding]; other site 748280007340 gamma subunit interface [polypeptide binding]; other site 748280007341 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 748280007342 ATP synthase A chain; Region: ATP-synt_A; cl00413 748280007343 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 748280007344 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 748280007345 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 748280007346 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 748280007347 Walker A motif; other site 748280007348 ATP binding site [chemical binding]; other site 748280007349 Walker B motif; other site 748280007350 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 748280007351 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 748280007352 epsilon subunit interface [polypeptide binding]; other site 748280007353 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 748280007354 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280007355 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 748280007356 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 748280007357 inhibitor site; inhibition site 748280007358 active site 748280007359 dimer interface [polypeptide binding]; other site 748280007360 catalytic residue [active] 748280007361 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280007362 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 748280007363 NAD(P) binding site [chemical binding]; other site 748280007364 catalytic residues [active] 748280007365 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 748280007366 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 748280007367 Walker A/P-loop; other site 748280007368 ATP binding site [chemical binding]; other site 748280007369 Q-loop/lid; other site 748280007370 ABC transporter signature motif; other site 748280007371 Walker B; other site 748280007372 D-loop; other site 748280007373 H-loop/switch region; other site 748280007374 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 748280007375 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 748280007376 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 748280007377 dimer interface [polypeptide binding]; other site 748280007378 conserved gate region; other site 748280007379 ABC-ATPase subunit interface; other site 748280007380 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 748280007381 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 748280007382 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 748280007383 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 748280007384 dimer interface [polypeptide binding]; other site 748280007385 active site 748280007386 glycine-pyridoxal phosphate binding site [chemical binding]; other site 748280007387 folate binding site [chemical binding]; other site 748280007388 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280007389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007390 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 748280007391 dimerization interface [polypeptide binding]; other site 748280007392 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280007393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007394 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 748280007395 dimerization interface [polypeptide binding]; other site 748280007396 substrate binding pocket [chemical binding]; other site 748280007397 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280007398 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 748280007399 dimerization interface [polypeptide binding]; other site 748280007400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280007401 dimer interface [polypeptide binding]; other site 748280007402 putative CheW interface [polypeptide binding]; other site 748280007403 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 748280007404 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 748280007405 [2Fe-2S] cluster binding site [ion binding]; other site 748280007406 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 748280007407 putative alpha subunit interface [polypeptide binding]; other site 748280007408 putative active site [active] 748280007409 putative substrate binding site [chemical binding]; other site 748280007410 Fe binding site [ion binding]; other site 748280007411 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 748280007412 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 748280007413 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 748280007414 FAD binding pocket [chemical binding]; other site 748280007415 FAD binding motif [chemical binding]; other site 748280007416 phosphate binding motif [ion binding]; other site 748280007417 beta-alpha-beta structure motif; other site 748280007418 NAD binding pocket [chemical binding]; other site 748280007419 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 748280007420 catalytic loop [active] 748280007421 iron binding site [ion binding]; other site 748280007422 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280007423 GAF domain; Region: GAF; pfam01590 748280007424 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280007425 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280007426 metal binding site [ion binding]; metal-binding site 748280007427 active site 748280007428 I-site; other site 748280007429 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 748280007430 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 748280007431 heterodimer interface [polypeptide binding]; other site 748280007432 multimer interface [polypeptide binding]; other site 748280007433 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 748280007434 active site 748280007435 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 748280007436 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 748280007437 heterodimer interface [polypeptide binding]; other site 748280007438 active site 748280007439 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 748280007440 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 748280007441 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007442 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007443 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 748280007444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007445 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 748280007446 dimerization interface [polypeptide binding]; other site 748280007447 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 748280007448 Ligand Binding Site [chemical binding]; other site 748280007449 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 748280007450 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 748280007451 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 748280007452 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 748280007453 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 748280007454 tetramer interface [polypeptide binding]; other site 748280007455 active site 748280007456 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 748280007457 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 748280007458 dimer interface [polypeptide binding]; other site 748280007459 active site 748280007460 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 748280007461 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 748280007462 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 748280007463 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 748280007464 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 748280007465 dimer interface [polypeptide binding]; other site 748280007466 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 748280007467 active site 748280007468 shikimate-5-dehydrogenase, fungal AROM-type; Region: Shik-DH-AROM; TIGR01809 748280007469 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 748280007470 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 748280007471 shikimate binding site; other site 748280007472 NAD(P) binding site [chemical binding]; other site 748280007473 Dehydroquinase class II; Region: DHquinase_II; pfam01220 748280007474 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 748280007475 active site 748280007476 trimer interface [polypeptide binding]; other site 748280007477 dimer interface [polypeptide binding]; other site 748280007478 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 748280007479 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 748280007480 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 748280007481 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 748280007482 NAD binding site [chemical binding]; other site 748280007483 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 748280007484 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 748280007485 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 748280007486 acyl-activating enzyme (AAE) consensus motif; other site 748280007487 AMP binding site [chemical binding]; other site 748280007488 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 748280007489 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 748280007490 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 748280007491 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 748280007492 putative trimer interface [polypeptide binding]; other site 748280007493 putative CoA binding site [chemical binding]; other site 748280007494 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 748280007495 putative trimer interface [polypeptide binding]; other site 748280007496 putative CoA binding site [chemical binding]; other site 748280007497 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 748280007498 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 748280007499 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 748280007500 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 748280007501 dimer interface [polypeptide binding]; other site 748280007502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007503 catalytic residue [active] 748280007504 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 748280007505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007506 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280007507 NAD(P) binding site [chemical binding]; other site 748280007508 active site 748280007509 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 748280007510 Uncharacterized conserved protein [Function unknown]; Region: COG2128 748280007511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280007512 DNA-binding site [nucleotide binding]; DNA binding site 748280007513 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 748280007514 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 748280007515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007516 homodimer interface [polypeptide binding]; other site 748280007517 catalytic residue [active] 748280007518 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 748280007519 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280007520 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 748280007521 dimerization interface [polypeptide binding]; other site 748280007522 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 748280007523 Proline racemase; Region: Pro_racemase; pfam05544 748280007524 ornithine cyclodeaminase; Validated; Region: PRK06141 748280007525 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 748280007526 EamA-like transporter family; Region: EamA; pfam00892 748280007527 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280007528 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 748280007529 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 748280007530 non-specific DNA binding site [nucleotide binding]; other site 748280007531 salt bridge; other site 748280007532 sequence-specific DNA binding site [nucleotide binding]; other site 748280007533 Cupin domain; Region: Cupin_2; cl17218 748280007534 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 748280007535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280007536 Coenzyme A binding pocket [chemical binding]; other site 748280007537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 748280007538 Protein of unknown function, DUF606; Region: DUF606; cl01273 748280007539 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 748280007540 CoenzymeA binding site [chemical binding]; other site 748280007541 subunit interaction site [polypeptide binding]; other site 748280007542 PHB binding site; other site 748280007543 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007544 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007545 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 748280007546 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 748280007547 putative dimer interface [polypeptide binding]; other site 748280007548 putative active site [active] 748280007549 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 748280007550 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 748280007551 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 748280007552 classical (c) SDRs; Region: SDR_c; cd05233 748280007553 NAD(P) binding site [chemical binding]; other site 748280007554 active site 748280007555 Helix-turn-helix domain; Region: HTH_18; pfam12833 748280007556 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280007557 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 748280007558 dimerization interface [polypeptide binding]; other site 748280007559 ligand binding site [chemical binding]; other site 748280007560 major facilitator superfamily transporter; Provisional; Region: PRK05122 748280007561 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 748280007562 putative substrate translocation pore; other site 748280007563 benzoate transport; Region: 2A0115; TIGR00895 748280007564 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 748280007565 putative substrate translocation pore; other site 748280007566 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 748280007567 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 748280007568 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 748280007569 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 748280007570 shikimate binding site; other site 748280007571 NAD(P) binding site [chemical binding]; other site 748280007572 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 748280007573 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 748280007574 trimer interface [polypeptide binding]; other site 748280007575 eyelet of channel; other site 748280007576 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 748280007577 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 748280007578 Bacterial transcriptional regulator; Region: IclR; pfam01614 748280007579 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 748280007580 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 748280007581 dimer interface [polypeptide binding]; other site 748280007582 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 748280007583 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280007584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280007585 DNA-binding site [nucleotide binding]; DNA binding site 748280007586 FCD domain; Region: FCD; pfam07729 748280007587 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 748280007588 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 748280007589 tetramerization interface [polypeptide binding]; other site 748280007590 NAD(P) binding site [chemical binding]; other site 748280007591 catalytic residues [active] 748280007592 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280007593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280007594 Walker A/P-loop; other site 748280007595 ATP binding site [chemical binding]; other site 748280007596 Q-loop/lid; other site 748280007597 ABC transporter signature motif; other site 748280007598 Walker B; other site 748280007599 D-loop; other site 748280007600 H-loop/switch region; other site 748280007601 TOBE domain; Region: TOBE_2; pfam08402 748280007602 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 748280007603 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 748280007604 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 748280007605 ABC-ATPase subunit interface; other site 748280007606 putative PBP binding loops; other site 748280007607 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 748280007608 dimer interface [polypeptide binding]; other site 748280007609 conserved gate region; other site 748280007610 putative PBP binding loops; other site 748280007611 ABC-ATPase subunit interface; other site 748280007612 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 748280007613 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 748280007614 NIPSNAP; Region: NIPSNAP; pfam07978 748280007615 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280007616 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 748280007617 NAD(P) binding site [chemical binding]; other site 748280007618 catalytic residues [active] 748280007619 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 748280007620 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 748280007621 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 748280007622 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 748280007623 nudix motif; other site 748280007624 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 748280007625 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 748280007626 Amino acid synthesis; Region: AA_synth; pfam06684 748280007627 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280007628 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 748280007629 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 748280007630 catalytic loop [active] 748280007631 iron binding site [ion binding]; other site 748280007632 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 748280007633 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 748280007634 dimer interface [polypeptide binding]; other site 748280007635 putative functional site; other site 748280007636 putative MPT binding site; other site 748280007637 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 748280007638 Walker A motif; other site 748280007639 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 748280007640 putative active site [active] 748280007641 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 748280007642 RNA/DNA hybrid binding site [nucleotide binding]; other site 748280007643 active site 748280007644 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 748280007645 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 748280007646 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 748280007647 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 748280007648 active site 748280007649 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 748280007650 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 748280007651 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 748280007652 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 748280007653 trimer interface [polypeptide binding]; other site 748280007654 active site 748280007655 UDP-GlcNAc binding site [chemical binding]; other site 748280007656 lipid binding site [chemical binding]; lipid-binding site 748280007657 periplasmic chaperone; Provisional; Region: PRK10780 748280007658 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 748280007659 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 748280007660 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 748280007661 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 748280007662 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 748280007663 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 748280007664 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 748280007665 Surface antigen; Region: Bac_surface_Ag; pfam01103 748280007666 zinc metallopeptidase RseP; Provisional; Region: PRK10779 748280007667 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 748280007668 active site 748280007669 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 748280007670 protein binding site [polypeptide binding]; other site 748280007671 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 748280007672 protein binding site [polypeptide binding]; other site 748280007673 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 748280007674 putative substrate binding region [chemical binding]; other site 748280007675 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 748280007676 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 748280007677 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 748280007678 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 748280007679 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 748280007680 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 748280007681 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 748280007682 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 748280007683 catalytic residue [active] 748280007684 putative FPP diphosphate binding site; other site 748280007685 putative FPP binding hydrophobic cleft; other site 748280007686 dimer interface [polypeptide binding]; other site 748280007687 putative IPP diphosphate binding site; other site 748280007688 ribosome recycling factor; Reviewed; Region: frr; PRK00083 748280007689 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 748280007690 hinge region; other site 748280007691 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 748280007692 putative nucleotide binding site [chemical binding]; other site 748280007693 uridine monophosphate binding site [chemical binding]; other site 748280007694 homohexameric interface [polypeptide binding]; other site 748280007695 elongation factor Ts; Provisional; Region: tsf; PRK09377 748280007696 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 748280007697 Elongation factor TS; Region: EF_TS; pfam00889 748280007698 Elongation factor TS; Region: EF_TS; pfam00889 748280007699 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 748280007700 rRNA interaction site [nucleotide binding]; other site 748280007701 S8 interaction site; other site 748280007702 putative laminin-1 binding site; other site 748280007703 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 748280007704 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 748280007705 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 748280007706 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 748280007707 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 748280007708 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 748280007709 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 748280007710 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 748280007711 putative NADH binding site [chemical binding]; other site 748280007712 putative active site [active] 748280007713 nudix motif; other site 748280007714 putative metal binding site [ion binding]; other site 748280007715 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 748280007716 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 748280007717 metal binding site [ion binding]; metal-binding site 748280007718 dimer interface [polypeptide binding]; other site 748280007719 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 748280007720 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 748280007721 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 748280007722 Walker A/P-loop; other site 748280007723 ATP binding site [chemical binding]; other site 748280007724 Q-loop/lid; other site 748280007725 ABC transporter signature motif; other site 748280007726 Walker B; other site 748280007727 D-loop; other site 748280007728 H-loop/switch region; other site 748280007729 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 748280007730 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 748280007731 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 748280007732 substrate binding site [chemical binding]; other site 748280007733 hexamer interface [polypeptide binding]; other site 748280007734 metal binding site [ion binding]; metal-binding site 748280007735 short chain dehydrogenase; Provisional; Region: PRK07023 748280007736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280007737 NAD(P) binding site [chemical binding]; other site 748280007738 active site 748280007739 phosphoglycolate phosphatase; Provisional; Region: PRK13222 748280007740 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 748280007741 motif II; other site 748280007742 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 748280007743 anthranilate synthase component I; Provisional; Region: PRK13565 748280007744 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 748280007745 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 748280007746 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 748280007747 argininosuccinate synthase; Provisional; Region: PRK13820 748280007748 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 748280007749 ANP binding site [chemical binding]; other site 748280007750 Substrate Binding Site II [chemical binding]; other site 748280007751 Substrate Binding Site I [chemical binding]; other site 748280007752 ornithine carbamoyltransferase; Provisional; Region: PRK00779 748280007753 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 748280007754 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 748280007755 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 748280007756 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 748280007757 homodimer interface [polypeptide binding]; other site 748280007758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007759 catalytic residue [active] 748280007760 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 748280007761 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 748280007762 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 748280007763 DEAD_2; Region: DEAD_2; pfam06733 748280007764 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 748280007765 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 748280007766 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 748280007767 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 748280007768 eyelet of channel; other site 748280007769 trimer interface [polypeptide binding]; other site 748280007770 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 748280007771 active site 748280007772 nodulation ABC transporter NodI; Provisional; Region: PRK13537 748280007773 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 748280007774 Walker A/P-loop; other site 748280007775 ATP binding site [chemical binding]; other site 748280007776 Q-loop/lid; other site 748280007777 ABC transporter signature motif; other site 748280007778 Walker B; other site 748280007779 D-loop; other site 748280007780 H-loop/switch region; other site 748280007781 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 748280007782 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 748280007783 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 748280007784 dimer interface [polypeptide binding]; other site 748280007785 [2Fe-2S] cluster binding site [ion binding]; other site 748280007786 replicative DNA helicase; Region: DnaB; TIGR00665 748280007787 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 748280007788 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 748280007789 Walker A motif; other site 748280007790 ATP binding site [chemical binding]; other site 748280007791 Walker B motif; other site 748280007792 DNA binding loops [nucleotide binding] 748280007793 Predicted flavoproteins [General function prediction only]; Region: COG2081 748280007794 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 748280007795 superoxide dismutase; Provisional; Region: PRK10543 748280007796 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 748280007797 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 748280007798 SurA N-terminal domain; Region: SurA_N_3; cl07813 748280007799 periplasmic folding chaperone; Provisional; Region: PRK10788 748280007800 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280007801 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 748280007802 IHF - DNA interface [nucleotide binding]; other site 748280007803 IHF dimer interface [polypeptide binding]; other site 748280007804 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 748280007805 Found in ATP-dependent protease La (LON); Region: LON; smart00464 748280007806 Found in ATP-dependent protease La (LON); Region: LON; smart00464 748280007807 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 748280007808 Walker A motif; other site 748280007809 ATP binding site [chemical binding]; other site 748280007810 Walker B motif; other site 748280007811 arginine finger; other site 748280007812 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 748280007813 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 748280007814 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 748280007815 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 748280007816 Walker A motif; other site 748280007817 ATP binding site [chemical binding]; other site 748280007818 Walker B motif; other site 748280007819 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 748280007820 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 748280007821 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 748280007822 oligomer interface [polypeptide binding]; other site 748280007823 active site residues [active] 748280007824 trigger factor; Provisional; Region: tig; PRK01490 748280007825 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 748280007826 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 748280007827 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 748280007828 YccA-like proteins; Region: YccA_like; cd10433 748280007829 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 748280007830 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 748280007831 Ligand Binding Site [chemical binding]; other site 748280007832 TilS substrate binding domain; Region: TilS; pfam09179 748280007833 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 748280007834 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 748280007835 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 748280007836 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 748280007837 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 748280007838 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 748280007839 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 748280007840 endonuclease III; Region: ENDO3c; smart00478 748280007841 minor groove reading motif; other site 748280007842 helix-hairpin-helix signature motif; other site 748280007843 substrate binding pocket [chemical binding]; other site 748280007844 active site 748280007845 peptidase PmbA; Provisional; Region: PRK11040 748280007846 hypothetical protein; Provisional; Region: PRK05255 748280007847 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 748280007848 MPT binding site; other site 748280007849 trimer interface [polypeptide binding]; other site 748280007850 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 748280007851 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 748280007852 active site 748280007853 ribulose/triose binding site [chemical binding]; other site 748280007854 phosphate binding site [ion binding]; other site 748280007855 substrate (anthranilate) binding pocket [chemical binding]; other site 748280007856 product (indole) binding pocket [chemical binding]; other site 748280007857 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 748280007858 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 748280007859 dimer interface [polypeptide binding]; other site 748280007860 active site 748280007861 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 748280007862 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 748280007863 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280007864 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 748280007865 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 748280007866 substrate binding site [chemical binding]; other site 748280007867 oxyanion hole (OAH) forming residues; other site 748280007868 trimer interface [polypeptide binding]; other site 748280007869 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 748280007870 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 748280007871 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 748280007872 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280007873 active site 748280007874 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 748280007875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007877 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 748280007878 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 748280007879 homodimer interface [polypeptide binding]; other site 748280007880 substrate-cofactor binding pocket; other site 748280007881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007882 catalytic residue [active] 748280007883 amidophosphoribosyltransferase; Provisional; Region: PRK09246 748280007884 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 748280007885 active site 748280007886 tetramer interface [polypeptide binding]; other site 748280007887 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280007888 active site 748280007889 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 748280007890 Colicin V production protein; Region: Colicin_V; pfam02674 748280007891 Sporulation related domain; Region: SPOR; pfam05036 748280007892 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 748280007893 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 748280007894 ABC transporter ATPase component; Reviewed; Region: PRK11147 748280007895 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280007896 Walker A/P-loop; other site 748280007897 ATP binding site [chemical binding]; other site 748280007898 Q-loop/lid; other site 748280007899 ABC transporter signature motif; other site 748280007900 Walker B; other site 748280007901 D-loop; other site 748280007902 H-loop/switch region; other site 748280007903 ABC transporter; Region: ABC_tran_2; pfam12848 748280007904 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280007905 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 748280007906 NlpC/P60 family; Region: NLPC_P60; pfam00877 748280007907 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 748280007908 AMP binding site [chemical binding]; other site 748280007909 metal binding site [ion binding]; metal-binding site 748280007910 active site 748280007911 Response regulator receiver domain; Region: Response_reg; pfam00072 748280007912 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 748280007913 active site 748280007914 phosphorylation site [posttranslational modification] 748280007915 intermolecular recognition site; other site 748280007916 dimerization interface [polypeptide binding]; other site 748280007917 Response regulator receiver domain; Region: Response_reg; pfam00072 748280007918 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 748280007919 active site 748280007920 phosphorylation site [posttranslational modification] 748280007921 intermolecular recognition site; other site 748280007922 dimerization interface [polypeptide binding]; other site 748280007923 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 748280007924 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280007925 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 748280007926 helicase 45; Provisional; Region: PTZ00424 748280007927 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 748280007928 ATP binding site [chemical binding]; other site 748280007929 Mg++ binding site [ion binding]; other site 748280007930 motif III; other site 748280007931 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 748280007932 nucleotide binding region [chemical binding]; other site 748280007933 ATP-binding site [chemical binding]; other site 748280007934 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 748280007935 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 748280007936 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 748280007937 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 748280007938 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280007939 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 748280007940 active site 748280007941 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 748280007942 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 748280007943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280007944 homodimer interface [polypeptide binding]; other site 748280007945 catalytic residue [active] 748280007946 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 748280007947 oligomer interface [polypeptide binding]; other site 748280007948 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 748280007949 Phage Tail Collar Domain; Region: Collar; pfam07484 748280007950 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 748280007951 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 748280007952 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 748280007953 active site 748280007954 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 748280007955 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280007956 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280007957 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280007958 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280007959 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280007960 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280007961 Outer membrane efflux protein; Region: OEP; pfam02321 748280007962 Outer membrane efflux protein; Region: OEP; pfam02321 748280007963 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 748280007964 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 748280007965 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 748280007966 Uncharacterized conserved protein [Function unknown]; Region: COG4095 748280007967 Predicted permeases [General function prediction only]; Region: RarD; COG2962 748280007968 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 748280007969 catalytic nucleophile [active] 748280007970 hypothetical protein; Provisional; Region: PRK09256 748280007971 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 748280007972 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 748280007973 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 748280007974 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 748280007975 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280007976 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 748280007977 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 748280007978 oligomer interface [polypeptide binding]; other site 748280007979 metal binding site [ion binding]; metal-binding site 748280007980 metal binding site [ion binding]; metal-binding site 748280007981 putative Cl binding site [ion binding]; other site 748280007982 basic sphincter; other site 748280007983 hydrophobic gate; other site 748280007984 periplasmic entrance; other site 748280007985 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 748280007986 PhnA protein; Region: PhnA; pfam03831 748280007987 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280007988 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 748280007989 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 748280007990 HIGH motif; other site 748280007991 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 748280007992 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 748280007993 active site 748280007994 KMSKS motif; other site 748280007995 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 748280007996 tRNA binding surface [nucleotide binding]; other site 748280007997 anticodon binding site; other site 748280007998 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 748280007999 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 748280008000 active site 748280008001 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 748280008002 phosphorylation site [posttranslational modification] 748280008003 intermolecular recognition site; other site 748280008004 dimerization interface [polypeptide binding]; other site 748280008005 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 748280008006 active site 748280008007 phosphorylation site [posttranslational modification] 748280008008 intermolecular recognition site; other site 748280008009 dimerization interface [polypeptide binding]; other site 748280008010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280008011 metal binding site [ion binding]; metal-binding site 748280008012 active site 748280008013 I-site; other site 748280008014 short chain dehydrogenase; Provisional; Region: PRK05993 748280008015 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 748280008016 NADP binding site [chemical binding]; other site 748280008017 active site 748280008018 steroid binding site; other site 748280008019 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 748280008020 Yip1 domain; Region: Yip1; cl17815 748280008021 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 748280008022 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 748280008023 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 748280008024 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 748280008025 4Fe-4S binding domain; Region: Fer4; cl02805 748280008026 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 748280008027 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 748280008028 [4Fe-4S] binding site [ion binding]; other site 748280008029 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 748280008030 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 748280008031 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 748280008032 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 748280008033 molybdopterin cofactor binding site; other site 748280008034 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 748280008035 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 748280008036 gating phenylalanine in ion channel; other site 748280008037 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 748280008038 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280008039 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 748280008040 homotrimer interaction site [polypeptide binding]; other site 748280008041 putative active site [active] 748280008042 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280008043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008044 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 748280008045 dimerization interface [polypeptide binding]; other site 748280008046 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 748280008047 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 748280008048 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 748280008049 putative active site [active] 748280008050 putative substrate binding site [chemical binding]; other site 748280008051 putative cosubstrate binding site; other site 748280008052 catalytic site [active] 748280008053 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 748280008054 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 748280008055 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 748280008056 homodimer interface [polypeptide binding]; other site 748280008057 NADP binding site [chemical binding]; other site 748280008058 substrate binding site [chemical binding]; other site 748280008059 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 748280008060 putative FMN binding site [chemical binding]; other site 748280008061 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 748280008062 Ligand binding site; other site 748280008063 metal-binding site 748280008064 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 748280008065 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 748280008066 XdhC Rossmann domain; Region: XdhC_C; pfam13478 748280008067 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 748280008068 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280008069 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 748280008070 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280008071 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 748280008072 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 748280008073 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 748280008074 catalytic loop [active] 748280008075 iron binding site [ion binding]; other site 748280008076 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 748280008077 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 748280008078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280008079 Helix-turn-helix domain; Region: HTH_18; pfam12833 748280008080 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280008081 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 748280008082 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 748280008083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008085 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 748280008086 putative effector binding pocket; other site 748280008087 dimerization interface [polypeptide binding]; other site 748280008088 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 748280008089 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 748280008090 PYR/PP interface [polypeptide binding]; other site 748280008091 dimer interface [polypeptide binding]; other site 748280008092 TPP binding site [chemical binding]; other site 748280008093 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280008094 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 748280008095 TPP-binding site [chemical binding]; other site 748280008096 dimer interface [polypeptide binding]; other site 748280008097 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 748280008098 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 748280008099 putative substrate translocation pore; other site 748280008100 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 748280008101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280008102 NAD(P) binding site [chemical binding]; other site 748280008103 active site 748280008104 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280008105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008106 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 748280008107 dimerization interface [polypeptide binding]; other site 748280008108 substrate binding pocket [chemical binding]; other site 748280008109 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 748280008110 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 748280008111 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280008112 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 748280008113 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 748280008114 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280008115 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 748280008116 putative substrate translocation pore; other site 748280008117 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 748280008118 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280008119 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 748280008120 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280008121 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 748280008122 Nonribosomal peptide synthase; Region: NRPS; pfam08415 748280008123 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 748280008124 acyl-activating enzyme (AAE) consensus motif; other site 748280008125 AMP binding site [chemical binding]; other site 748280008126 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 748280008127 hypothetical protein; Provisional; Region: PRK09262 748280008128 Amidohydrolase; Region: Amidohydro_2; pfam04909 748280008129 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 748280008130 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 748280008131 putative active site [active] 748280008132 Fe(II) binding site [ion binding]; other site 748280008133 putative dimer interface [polypeptide binding]; other site 748280008134 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 748280008135 dimer interface [polypeptide binding]; other site 748280008136 tetramer interface [polypeptide binding]; other site 748280008137 benzoate transport; Region: 2A0115; TIGR00895 748280008138 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 748280008139 putative substrate translocation pore; other site 748280008140 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 748280008141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 748280008142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008144 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 748280008145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008146 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 748280008147 dimerization interface [polypeptide binding]; other site 748280008148 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 748280008149 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 748280008150 peptide binding site [polypeptide binding]; other site 748280008151 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280008152 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280008153 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 748280008154 N-terminal domain interface [polypeptide binding]; other site 748280008155 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280008156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008157 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 748280008158 dimerization interface [polypeptide binding]; other site 748280008159 substrate binding pocket [chemical binding]; other site 748280008160 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 748280008161 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280008162 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 748280008163 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 748280008164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008166 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 748280008167 putative dimerization interface [polypeptide binding]; other site 748280008168 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 748280008169 PLD-like domain; Region: PLDc_2; pfam13091 748280008170 putative active site [active] 748280008171 catalytic site [active] 748280008172 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 748280008173 PLD-like domain; Region: PLDc_2; pfam13091 748280008174 putative active site [active] 748280008175 catalytic site [active] 748280008176 hypothetical protein; Provisional; Region: PRK10318 748280008177 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 748280008178 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 748280008179 substrate binding pocket [chemical binding]; other site 748280008180 membrane-bound complex binding site; other site 748280008181 hinge residues; other site 748280008182 tricarballylate utilization protein B; Provisional; Region: PRK15033 748280008183 tricarballylate dehydrogenase; Validated; Region: PRK08274 748280008184 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 748280008185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008186 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 748280008187 putative dimerization interface [polypeptide binding]; other site 748280008188 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 748280008189 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 748280008190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 748280008191 aminotransferase; Validated; Region: PRK07046 748280008192 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 748280008193 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280008194 catalytic residue [active] 748280008195 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 748280008196 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 748280008197 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 748280008198 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280008199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280008200 DNA-binding site [nucleotide binding]; DNA binding site 748280008201 FCD domain; Region: FCD; pfam07729 748280008202 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280008203 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280008204 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 748280008205 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 748280008206 Walker A/P-loop; other site 748280008207 ATP binding site [chemical binding]; other site 748280008208 Q-loop/lid; other site 748280008209 ABC transporter signature motif; other site 748280008210 Walker B; other site 748280008211 D-loop; other site 748280008212 H-loop/switch region; other site 748280008213 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 748280008214 Walker A/P-loop; other site 748280008215 ATP binding site [chemical binding]; other site 748280008216 Q-loop/lid; other site 748280008217 ABC transporter signature motif; other site 748280008218 Walker B; other site 748280008219 D-loop; other site 748280008220 H-loop/switch region; other site 748280008221 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280008222 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 748280008223 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280008224 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 748280008225 Beta-lactamase; Region: Beta-lactamase; pfam00144 748280008226 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 748280008227 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 748280008228 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 748280008229 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 748280008230 putative active site [active] 748280008231 putative metal binding site [ion binding]; other site 748280008232 Uncharacterized conserved protein [Function unknown]; Region: COG3025 748280008233 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 748280008234 putative active site [active] 748280008235 putative metal binding residues [ion binding]; other site 748280008236 signature motif; other site 748280008237 putative triphosphate binding site [ion binding]; other site 748280008238 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 748280008239 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 748280008240 Pirin-related protein [General function prediction only]; Region: COG1741 748280008241 Pirin; Region: Pirin; pfam02678 748280008242 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 748280008243 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 748280008244 Walker A motif; other site 748280008245 ATP binding site [chemical binding]; other site 748280008246 Walker B motif; other site 748280008247 arginine finger; other site 748280008248 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 748280008249 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 748280008250 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 748280008251 putative dimer interface [polypeptide binding]; other site 748280008252 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 748280008253 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 748280008254 ATP binding site [chemical binding]; other site 748280008255 putative Mg++ binding site [ion binding]; other site 748280008256 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 748280008257 nucleotide binding region [chemical binding]; other site 748280008258 ATP-binding site [chemical binding]; other site 748280008259 DEAD/H associated; Region: DEAD_assoc; pfam08494 748280008260 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 748280008261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280008262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280008263 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280008264 EamA-like transporter family; Region: EamA; pfam00892 748280008265 EamA-like transporter family; Region: EamA; pfam00892 748280008266 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 748280008267 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 748280008268 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 748280008269 substrate binding pocket [chemical binding]; other site 748280008270 chain length determination region; other site 748280008271 substrate-Mg2+ binding site; other site 748280008272 catalytic residues [active] 748280008273 aspartate-rich region 1; other site 748280008274 active site lid residues [active] 748280008275 aspartate-rich region 2; other site 748280008276 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 748280008277 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 748280008278 TPP-binding site; other site 748280008279 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 748280008280 PYR/PP interface [polypeptide binding]; other site 748280008281 dimer interface [polypeptide binding]; other site 748280008282 TPP binding site [chemical binding]; other site 748280008283 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280008284 Predicted membrane protein [Function unknown]; Region: COG3174 748280008285 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 748280008286 putative GTP cyclohydrolase; Provisional; Region: PRK13674 748280008287 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 748280008288 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 748280008289 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 748280008290 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 748280008291 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 748280008292 DsbD alpha interface [polypeptide binding]; other site 748280008293 catalytic residues [active] 748280008294 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 748280008295 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 748280008296 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 748280008297 dimer interface [polypeptide binding]; other site 748280008298 active site 748280008299 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 748280008300 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 748280008301 DGC domain; Region: DGC; pfam08859 748280008302 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280008303 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 748280008304 RNA binding surface [nucleotide binding]; other site 748280008305 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 748280008306 active site 748280008307 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 748280008308 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 748280008309 catalytic triad [active] 748280008310 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 748280008311 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 748280008312 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 748280008313 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 748280008314 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 748280008315 probable active site [active] 748280008316 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 748280008317 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 748280008318 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 748280008319 putative active site [active] 748280008320 putative metal binding site [ion binding]; other site 748280008321 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 748280008322 ApbE family; Region: ApbE; pfam02424 748280008323 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 748280008324 Flavodoxin; Region: Flavodoxin_1; pfam00258 748280008325 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 748280008326 FAD binding pocket [chemical binding]; other site 748280008327 FAD binding motif [chemical binding]; other site 748280008328 catalytic residues [active] 748280008329 NAD binding pocket [chemical binding]; other site 748280008330 phosphate binding motif [ion binding]; other site 748280008331 beta-alpha-beta structure motif; other site 748280008332 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 748280008333 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 748280008334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280008335 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 748280008336 active site 748280008337 phosphorylation site [posttranslational modification] 748280008338 intermolecular recognition site; other site 748280008339 dimerization interface [polypeptide binding]; other site 748280008340 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 748280008341 DNA binding site [nucleotide binding] 748280008342 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 748280008343 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 748280008344 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 748280008345 ATP binding site [chemical binding]; other site 748280008346 Mg2+ binding site [ion binding]; other site 748280008347 G-X-G motif; other site 748280008348 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 748280008349 active site 748280008350 catalytic residues [active] 748280008351 DNA binding site [nucleotide binding] 748280008352 Int/Topo IB signature motif; other site 748280008353 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 748280008354 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 748280008355 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 748280008356 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 748280008357 non-specific DNA binding site [nucleotide binding]; other site 748280008358 salt bridge; other site 748280008359 sequence-specific DNA binding site [nucleotide binding]; other site 748280008360 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 748280008361 RNA binding surface [nucleotide binding]; other site 748280008362 YfjP GTPase; Region: YfjP; cd11383 748280008363 G1 box; other site 748280008364 GTP/Mg2+ binding site [chemical binding]; other site 748280008365 Switch I region; other site 748280008366 G2 box; other site 748280008367 Switch II region; other site 748280008368 G3 box; other site 748280008369 G4 box; other site 748280008370 Homeodomain-like domain; Region: HTH_23; pfam13384 748280008371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 748280008372 Integrase core domain; Region: rve; pfam00665 748280008373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 748280008374 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 748280008375 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 748280008376 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 748280008377 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 748280008378 G1 box; other site 748280008379 GTP/Mg2+ binding site [chemical binding]; other site 748280008380 G2 box; other site 748280008381 G3 box; other site 748280008382 Switch II region; other site 748280008383 G4 box; other site 748280008384 G5 box; other site 748280008385 Dynamin family; Region: Dynamin_N; pfam00350 748280008386 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 748280008387 G3 box; other site 748280008388 Switch II region; other site 748280008389 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 748280008390 G1 box; other site 748280008391 GTP/Mg2+ binding site [chemical binding]; other site 748280008392 G2 box; other site 748280008393 G3 box; other site 748280008394 Switch II region; other site 748280008395 G4 box; other site 748280008396 G5 box; other site 748280008397 WYL domain; Region: WYL; pfam13280 748280008398 Nuclease-related domain; Region: NERD; pfam08378 748280008399 DEAD-like helicases superfamily; Region: DEXDc; smart00487 748280008400 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 748280008401 ATP binding site [chemical binding]; other site 748280008402 putative Mg++ binding site [ion binding]; other site 748280008403 Family description; Region: UvrD_C_2; pfam13538 748280008404 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 748280008405 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 748280008406 active site 748280008407 Int/Topo IB signature motif; other site 748280008408 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 748280008409 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 748280008410 CysD dimerization site [polypeptide binding]; other site 748280008411 G1 box; other site 748280008412 putative GEF interaction site [polypeptide binding]; other site 748280008413 GTP/Mg2+ binding site [chemical binding]; other site 748280008414 Switch I region; other site 748280008415 G2 box; other site 748280008416 G3 box; other site 748280008417 Switch II region; other site 748280008418 G4 box; other site 748280008419 G5 box; other site 748280008420 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 748280008421 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 748280008422 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 748280008423 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 748280008424 Active Sites [active] 748280008425 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 748280008426 ATP binding site [chemical binding]; other site 748280008427 HDOD domain; Region: HDOD; pfam08668 748280008428 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280008429 GAF domain; Region: GAF_3; pfam13492 748280008430 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 748280008431 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 748280008432 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 748280008433 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 748280008434 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 748280008435 tetrameric interface [polypeptide binding]; other site 748280008436 NAD binding site [chemical binding]; other site 748280008437 catalytic residues [active] 748280008438 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 748280008439 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 748280008440 substrate binding pocket [chemical binding]; other site 748280008441 FAD binding site [chemical binding]; other site 748280008442 catalytic base [active] 748280008443 enoyl-CoA hydratase; Provisional; Region: PRK09076 748280008444 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 748280008445 substrate binding site [chemical binding]; other site 748280008446 oxyanion hole (OAH) forming residues; other site 748280008447 trimer interface [polypeptide binding]; other site 748280008448 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 748280008449 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 748280008450 substrate binding site [chemical binding]; other site 748280008451 oxyanion hole (OAH) forming residues; other site 748280008452 trimer interface [polypeptide binding]; other site 748280008453 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 748280008454 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280008455 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 748280008456 DNA-specific endonuclease I; Provisional; Region: PRK15137 748280008457 Endonuclease I; Region: Endonuclease_1; pfam04231 748280008458 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 748280008459 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 748280008460 putative MPT binding site; other site 748280008461 Uncharacterized conserved protein [Function unknown]; Region: COG1434 748280008462 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 748280008463 putative active site [active] 748280008464 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 748280008465 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 748280008466 Walker A/P-loop; other site 748280008467 ATP binding site [chemical binding]; other site 748280008468 Q-loop/lid; other site 748280008469 ABC transporter signature motif; other site 748280008470 Walker B; other site 748280008471 D-loop; other site 748280008472 H-loop/switch region; other site 748280008473 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 748280008474 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 748280008475 Walker A/P-loop; other site 748280008476 ATP binding site [chemical binding]; other site 748280008477 Q-loop/lid; other site 748280008478 ABC transporter signature motif; other site 748280008479 Walker B; other site 748280008480 D-loop; other site 748280008481 H-loop/switch region; other site 748280008482 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 748280008483 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 748280008484 TM-ABC transporter signature motif; other site 748280008485 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 748280008486 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 748280008487 TM-ABC transporter signature motif; other site 748280008488 succinylarginine dihydrolase; Provisional; Region: PRK13281 748280008489 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 748280008490 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 748280008491 NAD(P) binding site [chemical binding]; other site 748280008492 catalytic residues [active] 748280008493 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 748280008494 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 748280008495 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 748280008496 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 748280008497 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 748280008498 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 748280008499 inhibitor-cofactor binding pocket; inhibition site 748280008500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280008501 catalytic residue [active] 748280008502 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280008503 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 748280008504 ligand binding site [chemical binding]; other site 748280008505 flexible hinge region; other site 748280008506 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 748280008507 putative switch regulator; other site 748280008508 non-specific DNA interactions [nucleotide binding]; other site 748280008509 DNA binding site [nucleotide binding] 748280008510 sequence specific DNA binding site [nucleotide binding]; other site 748280008511 putative cAMP binding site [chemical binding]; other site 748280008512 NnrS protein; Region: NnrS; pfam05940 748280008513 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 748280008514 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 748280008515 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 748280008516 RNase E interface [polypeptide binding]; other site 748280008517 trimer interface [polypeptide binding]; other site 748280008518 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 748280008519 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 748280008520 RNase E interface [polypeptide binding]; other site 748280008521 trimer interface [polypeptide binding]; other site 748280008522 active site 748280008523 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 748280008524 putative nucleic acid binding region [nucleotide binding]; other site 748280008525 G-X-X-G motif; other site 748280008526 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 748280008527 RNA binding site [nucleotide binding]; other site 748280008528 domain interface; other site 748280008529 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 748280008530 16S/18S rRNA binding site [nucleotide binding]; other site 748280008531 S13e-L30e interaction site [polypeptide binding]; other site 748280008532 25S rRNA binding site [nucleotide binding]; other site 748280008533 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 748280008534 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 748280008535 RNA binding site [nucleotide binding]; other site 748280008536 active site 748280008537 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 748280008538 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 748280008539 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 748280008540 translation initiation factor IF-2; Region: IF-2; TIGR00487 748280008541 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 748280008542 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 748280008543 G1 box; other site 748280008544 putative GEF interaction site [polypeptide binding]; other site 748280008545 GTP/Mg2+ binding site [chemical binding]; other site 748280008546 Switch I region; other site 748280008547 G2 box; other site 748280008548 G3 box; other site 748280008549 Switch II region; other site 748280008550 G4 box; other site 748280008551 G5 box; other site 748280008552 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 748280008553 Translation-initiation factor 2; Region: IF-2; pfam11987 748280008554 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 748280008555 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 748280008556 NusA N-terminal domain; Region: NusA_N; pfam08529 748280008557 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 748280008558 RNA binding site [nucleotide binding]; other site 748280008559 homodimer interface [polypeptide binding]; other site 748280008560 NusA-like KH domain; Region: KH_5; pfam13184 748280008561 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 748280008562 G-X-X-G motif; other site 748280008563 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 748280008564 ribosome maturation protein RimP; Reviewed; Region: PRK00092 748280008565 Sm and related proteins; Region: Sm_like; cl00259 748280008566 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 748280008567 putative oligomer interface [polypeptide binding]; other site 748280008568 putative RNA binding site [nucleotide binding]; other site 748280008569 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 748280008570 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 748280008571 acyl-activating enzyme (AAE) consensus motif; other site 748280008572 putative AMP binding site [chemical binding]; other site 748280008573 putative active site [active] 748280008574 putative CoA binding site [chemical binding]; other site 748280008575 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 748280008576 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 748280008577 Walker A motif; other site 748280008578 ATP binding site [chemical binding]; other site 748280008579 Walker B motif; other site 748280008580 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 748280008581 ArsC family; Region: ArsC; pfam03960 748280008582 putative catalytic residues [active] 748280008583 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 748280008584 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 748280008585 metal binding site [ion binding]; metal-binding site 748280008586 dimer interface [polypeptide binding]; other site 748280008587 MarC family integral membrane protein; Region: MarC; cl00919 748280008588 recombination protein RecR; Reviewed; Region: recR; PRK00076 748280008589 RecR protein; Region: RecR; pfam02132 748280008590 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 748280008591 putative active site [active] 748280008592 putative metal-binding site [ion binding]; other site 748280008593 tetramer interface [polypeptide binding]; other site 748280008594 hypothetical protein; Validated; Region: PRK00153 748280008595 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 748280008596 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 748280008597 Walker A motif; other site 748280008598 ATP binding site [chemical binding]; other site 748280008599 Walker B motif; other site 748280008600 arginine finger; other site 748280008601 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 748280008602 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 748280008603 Transglycosylase SLT domain; Region: SLT_2; pfam13406 748280008604 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 748280008605 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280008606 catalytic residue [active] 748280008607 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 748280008608 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 748280008609 recombinase A; Provisional; Region: recA; PRK09354 748280008610 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 748280008611 hexamer interface [polypeptide binding]; other site 748280008612 Walker A motif; other site 748280008613 ATP binding site [chemical binding]; other site 748280008614 Walker B motif; other site 748280008615 RecX family; Region: RecX; pfam02631 748280008616 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 748280008617 putative hydrophobic ligand binding site [chemical binding]; other site 748280008618 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 748280008619 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 748280008620 motif 1; other site 748280008621 active site 748280008622 motif 2; other site 748280008623 motif 3; other site 748280008624 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 748280008625 DHHA1 domain; Region: DHHA1; pfam02272 748280008626 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 748280008627 EamA-like transporter family; Region: EamA; pfam00892 748280008628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008630 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 748280008631 dimerization interface [polypeptide binding]; other site 748280008632 chromosome condensation membrane protein; Provisional; Region: PRK14196 748280008633 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 748280008634 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280008635 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 748280008636 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 748280008637 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280008638 Rod binding protein; Region: Rod-binding; cl01626 748280008639 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 748280008640 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 748280008641 Flagellar L-ring protein; Region: FlgH; pfam02107 748280008642 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 748280008643 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 748280008644 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280008645 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 748280008646 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 748280008647 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 748280008648 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 748280008649 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 748280008650 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 748280008651 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280008652 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 748280008653 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 748280008654 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 748280008655 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 748280008656 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 748280008657 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 748280008658 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 748280008659 SAF-like; Region: SAF_2; pfam13144 748280008660 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 748280008661 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 748280008662 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 748280008663 FlgN protein; Region: FlgN; pfam05130 748280008664 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 748280008665 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280008666 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 748280008667 ligand binding site [chemical binding]; other site 748280008668 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 748280008669 putative switch regulator; other site 748280008670 non-specific DNA interactions [nucleotide binding]; other site 748280008671 DNA binding site [nucleotide binding] 748280008672 sequence specific DNA binding site [nucleotide binding]; other site 748280008673 putative cAMP binding site [chemical binding]; other site 748280008674 hypothetical protein; Validated; Region: PRK06778 748280008675 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 748280008676 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280008677 ligand binding site [chemical binding]; other site 748280008678 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 748280008679 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 748280008680 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 748280008681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280008682 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 748280008683 DNA binding residues [nucleotide binding] 748280008684 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 748280008685 Flagellar protein FliS; Region: FliS; cl00654 748280008686 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 748280008687 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 748280008688 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 748280008689 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07196 748280008690 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 748280008691 Walker A motif; other site 748280008692 ATP binding site [chemical binding]; other site 748280008693 Walker B motif; other site 748280008694 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 748280008695 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 748280008696 Flagellar assembly protein FliH; Region: FliH; pfam02108 748280008697 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 748280008698 FliG C-terminal domain; Region: FliG_C; pfam01706 748280008699 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 748280008700 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 748280008701 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 748280008702 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 748280008703 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 748280008704 flagellar motor switch protein FliN; Region: fliN; TIGR02480 748280008705 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 748280008706 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 748280008707 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 748280008708 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 748280008709 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 748280008710 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 748280008711 FHIPEP family; Region: FHIPEP; pfam00771 748280008712 flagellin; Provisional; Region: PRK12802 748280008713 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 748280008714 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 748280008715 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 748280008716 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 748280008717 homodimer interface [polypeptide binding]; other site 748280008718 oligonucleotide binding site [chemical binding]; other site 748280008719 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 748280008720 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 748280008721 RNA binding surface [nucleotide binding]; other site 748280008722 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 748280008723 active site 748280008724 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 748280008725 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 748280008726 motif II; other site 748280008727 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 748280008728 iron-sulfur cluster [ion binding]; other site 748280008729 [2Fe-2S] cluster binding site [ion binding]; other site 748280008730 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 748280008731 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 748280008732 tandem repeat interface [polypeptide binding]; other site 748280008733 oligomer interface [polypeptide binding]; other site 748280008734 active site residues [active] 748280008735 flagellar motor protein MotD; Reviewed; Region: PRK09038 748280008736 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 748280008737 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280008738 ligand binding site [chemical binding]; other site 748280008739 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 748280008740 putative FMN binding site [chemical binding]; other site 748280008741 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 748280008742 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 748280008743 quinone interaction residues [chemical binding]; other site 748280008744 active site 748280008745 catalytic residues [active] 748280008746 FMN binding site [chemical binding]; other site 748280008747 substrate binding site [chemical binding]; other site 748280008748 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 748280008749 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 748280008750 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 748280008751 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 748280008752 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 748280008753 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 748280008754 metal binding site 2 [ion binding]; metal-binding site 748280008755 putative DNA binding helix; other site 748280008756 metal binding site 1 [ion binding]; metal-binding site 748280008757 dimer interface [polypeptide binding]; other site 748280008758 structural Zn2+ binding site [ion binding]; other site 748280008759 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 748280008760 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 748280008761 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 748280008762 dihydrodipicolinate reductase; Provisional; Region: PRK00048 748280008763 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 748280008764 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 748280008765 SpoVR family protein; Provisional; Region: PRK11767 748280008766 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 748280008767 hypothetical protein; Provisional; Region: PRK05325 748280008768 PrkA family serine protein kinase; Provisional; Region: PRK15455 748280008769 AAA ATPase domain; Region: AAA_16; pfam13191 748280008770 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 748280008771 PilZ domain; Region: PilZ; pfam07238 748280008772 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 748280008773 dimer interface [polypeptide binding]; other site 748280008774 ADP-ribose binding site [chemical binding]; other site 748280008775 active site 748280008776 nudix motif; other site 748280008777 metal binding site [ion binding]; metal-binding site 748280008778 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 748280008779 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280008780 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280008781 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280008782 active site 748280008783 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280008784 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 748280008785 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 748280008786 SEC-C motif; Region: SEC-C; pfam02810 748280008787 AMP-binding domain protein; Validated; Region: PRK08315 748280008788 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 748280008789 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 748280008790 acyl-activating enzyme (AAE) consensus motif; other site 748280008791 putative AMP binding site [chemical binding]; other site 748280008792 putative active site [active] 748280008793 putative CoA binding site [chemical binding]; other site 748280008794 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 748280008795 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 748280008796 DNA binding residues [nucleotide binding] 748280008797 putative dimer interface [polypeptide binding]; other site 748280008798 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 748280008799 isovaleryl-CoA dehydrogenase; Region: PLN02519 748280008800 substrate binding site [chemical binding]; other site 748280008801 FAD binding site [chemical binding]; other site 748280008802 catalytic base [active] 748280008803 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 748280008804 enoyl-CoA hydratase; Provisional; Region: PRK05995 748280008805 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 748280008806 substrate binding site [chemical binding]; other site 748280008807 oxyanion hole (OAH) forming residues; other site 748280008808 trimer interface [polypeptide binding]; other site 748280008809 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 748280008810 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280008811 ATP-grasp domain; Region: ATP-grasp_4; cl17255 748280008812 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 748280008813 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 748280008814 lipoyl-biotinyl attachment site [posttranslational modification]; other site 748280008815 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 748280008816 carboxyltransferase (CT) interaction site; other site 748280008817 biotinylation site [posttranslational modification]; other site 748280008818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 748280008819 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 748280008820 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 748280008821 active site 748280008822 catalytic residues [active] 748280008823 metal binding site [ion binding]; metal-binding site 748280008824 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 748280008825 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 748280008826 acyl-activating enzyme (AAE) consensus motif; other site 748280008827 putative AMP binding site [chemical binding]; other site 748280008828 putative active site [active] 748280008829 putative CoA binding site [chemical binding]; other site 748280008830 Iron permease FTR1 family; Region: FTR1; cl00475 748280008831 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 748280008832 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 748280008833 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 748280008834 active site 748280008835 HIGH motif; other site 748280008836 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 748280008837 KMSKS motif; other site 748280008838 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 748280008839 tRNA binding surface [nucleotide binding]; other site 748280008840 anticodon binding site; other site 748280008841 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 748280008842 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 748280008843 Cytochrome c; Region: Cytochrom_C; cl11414 748280008844 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 748280008845 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280008846 active site 748280008847 HIGH motif; other site 748280008848 nucleotide binding site [chemical binding]; other site 748280008849 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 748280008850 KMSKS motif; other site 748280008851 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 748280008852 hypothetical protein; Provisional; Region: PRK01254 748280008853 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 748280008854 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 748280008855 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 748280008856 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 748280008857 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 748280008858 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280008859 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280008860 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 748280008861 putative C-terminal domain interface [polypeptide binding]; other site 748280008862 putative GSH binding site (G-site) [chemical binding]; other site 748280008863 putative dimer interface [polypeptide binding]; other site 748280008864 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 748280008865 putative N-terminal domain interface [polypeptide binding]; other site 748280008866 putative dimer interface [polypeptide binding]; other site 748280008867 putative substrate binding pocket (H-site) [chemical binding]; other site 748280008868 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 748280008869 active site 748280008870 homodimer interface [polypeptide binding]; other site 748280008871 homotetramer interface [polypeptide binding]; other site 748280008872 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280008873 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 748280008874 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 748280008875 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 748280008876 putative ligand binding site [chemical binding]; other site 748280008877 NAD binding site [chemical binding]; other site 748280008878 dimerization interface [polypeptide binding]; other site 748280008879 catalytic site [active] 748280008880 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 748280008881 putative substrate translocation pore; other site 748280008882 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280008883 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 748280008884 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008885 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 748280008886 dimerization interface [polypeptide binding]; other site 748280008887 substrate binding pocket [chemical binding]; other site 748280008888 Transcriptional regulator; Region: Rrf2; cl17282 748280008889 Rrf2 family protein; Region: rrf2_super; TIGR00738 748280008890 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 748280008891 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 748280008892 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 748280008893 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 748280008894 iron binding site [ion binding]; other site 748280008895 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 748280008896 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280008897 Uncharacterized conserved protein [Function unknown]; Region: COG1284 748280008898 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 748280008899 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 748280008900 Sulfate transporter family; Region: Sulfate_transp; pfam00916 748280008901 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 748280008902 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 748280008903 dimerization interface [polypeptide binding]; other site 748280008904 putative DNA binding site [nucleotide binding]; other site 748280008905 putative Zn2+ binding site [ion binding]; other site 748280008906 Cation efflux family; Region: Cation_efflux; cl00316 748280008907 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 748280008908 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 748280008909 transmembrane helices; other site 748280008910 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 748280008911 substrate binding site [chemical binding]; other site 748280008912 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 748280008913 substrate binding site [chemical binding]; other site 748280008914 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 748280008915 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 748280008916 putative active site [active] 748280008917 putative metal binding site [ion binding]; other site 748280008918 L-lactate permease; Region: Lactate_perm; cl00701 748280008919 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 748280008920 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008922 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 748280008923 putative dimerization interface [polypeptide binding]; other site 748280008924 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 748280008925 Coenzyme A transferase; Region: CoA_trans; cl17247 748280008926 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 748280008927 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 748280008928 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 748280008929 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 748280008930 Malonate transporter MadL subunit; Region: MadL; cl04273 748280008931 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 748280008932 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 748280008933 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 748280008934 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 748280008935 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 748280008936 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280008937 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280008938 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280008939 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 748280008940 Walker A/P-loop; other site 748280008941 ATP binding site [chemical binding]; other site 748280008942 Q-loop/lid; other site 748280008943 ABC transporter signature motif; other site 748280008944 Walker B; other site 748280008945 D-loop; other site 748280008946 H-loop/switch region; other site 748280008947 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 748280008948 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 748280008949 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280008950 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 748280008951 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 748280008952 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 748280008953 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 748280008954 putative active site [active] 748280008955 putative metal binding site [ion binding]; other site 748280008956 Uncharacterized conserved protein [Function unknown]; Region: COG0397 748280008957 hypothetical protein; Validated; Region: PRK00029 748280008958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280008959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280008960 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 748280008961 dimerization interface [polypeptide binding]; other site 748280008962 Protein of unknown function, DUF485; Region: DUF485; pfam04341 748280008963 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 748280008964 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 748280008965 Na binding site [ion binding]; other site 748280008966 acetyl-CoA synthetase; Provisional; Region: PRK00174 748280008967 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 748280008968 active site 748280008969 CoA binding site [chemical binding]; other site 748280008970 acyl-activating enzyme (AAE) consensus motif; other site 748280008971 AMP binding site [chemical binding]; other site 748280008972 acetate binding site [chemical binding]; other site 748280008973 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 748280008974 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 748280008975 putative DNA binding site [nucleotide binding]; other site 748280008976 putative Zn2+ binding site [ion binding]; other site 748280008977 AsnC family; Region: AsnC_trans_reg; pfam01037 748280008978 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 748280008979 Amidinotransferase; Region: Amidinotransf; pfam02274 748280008980 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 748280008981 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 748280008982 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 748280008983 N-terminal plug; other site 748280008984 ligand-binding site [chemical binding]; other site 748280008985 ferredoxin; Provisional; Region: PRK08764 748280008986 Putative Fe-S cluster; Region: FeS; pfam04060 748280008987 4Fe-4S binding domain; Region: Fer4; pfam00037 748280008988 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 748280008989 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 748280008990 minor groove reading motif; other site 748280008991 helix-hairpin-helix signature motif; other site 748280008992 substrate binding pocket [chemical binding]; other site 748280008993 active site 748280008994 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 748280008995 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 748280008996 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 748280008997 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 748280008998 protein binding site [polypeptide binding]; other site 748280008999 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 748280009000 protein binding site [polypeptide binding]; other site 748280009001 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 748280009002 Uncharacterized conserved protein [Function unknown]; Region: COG3791 748280009003 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 748280009004 tetramerization interface [polypeptide binding]; other site 748280009005 active site 748280009006 pantoate--beta-alanine ligase; Region: panC; TIGR00018 748280009007 Pantoate-beta-alanine ligase; Region: PanC; cd00560 748280009008 active site 748280009009 ATP-binding site [chemical binding]; other site 748280009010 pantoate-binding site; other site 748280009011 HXXH motif; other site 748280009012 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 748280009013 oligomerization interface [polypeptide binding]; other site 748280009014 active site 748280009015 metal binding site [ion binding]; metal-binding site 748280009016 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 748280009017 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 748280009018 Substrate-binding site [chemical binding]; other site 748280009019 Substrate specificity [chemical binding]; other site 748280009020 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 748280009021 catalytic center binding site [active] 748280009022 ATP binding site [chemical binding]; other site 748280009023 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 748280009024 active site 748280009025 NTP binding site [chemical binding]; other site 748280009026 metal binding triad [ion binding]; metal-binding site 748280009027 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 748280009028 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 748280009029 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 748280009030 active site 748280009031 catalytic site [active] 748280009032 substrate binding site [chemical binding]; other site 748280009033 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 748280009034 multidrug efflux protein; Reviewed; Region: PRK01766 748280009035 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 748280009036 cation binding site [ion binding]; other site 748280009037 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 748280009038 FAD binding domain; Region: FAD_binding_4; pfam01565 748280009039 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 748280009040 ABC-2 type transporter; Region: ABC2_membrane; cl17235 748280009041 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280009042 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 748280009043 Predicted membrane protein [Function unknown]; Region: COG3235 748280009044 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 748280009045 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 748280009046 dimerization interface [polypeptide binding]; other site 748280009047 active site 748280009048 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 748280009049 putative active site [active] 748280009050 putative CoA binding site [chemical binding]; other site 748280009051 nudix motif; other site 748280009052 metal binding site [ion binding]; metal-binding site 748280009053 Predicted membrane protein [Function unknown]; Region: COG2860 748280009054 UPF0126 domain; Region: UPF0126; pfam03458 748280009055 transcription termination factor Rho; Provisional; Region: rho; PRK09376 748280009056 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 748280009057 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 748280009058 RNA binding site [nucleotide binding]; other site 748280009059 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 748280009060 multimer interface [polypeptide binding]; other site 748280009061 Walker A motif; other site 748280009062 ATP binding site [chemical binding]; other site 748280009063 Walker B motif; other site 748280009064 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 748280009065 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 748280009066 catalytic residues [active] 748280009067 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 748280009068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 748280009069 Walker A/P-loop; other site 748280009070 ATP binding site [chemical binding]; other site 748280009071 Q-loop/lid; other site 748280009072 ABC transporter signature motif; other site 748280009073 Walker B; other site 748280009074 D-loop; other site 748280009075 H-loop/switch region; other site 748280009076 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 748280009077 Walker A/P-loop; other site 748280009078 ATP binding site [chemical binding]; other site 748280009079 Q-loop/lid; other site 748280009080 ABC transporter signature motif; other site 748280009081 Walker B; other site 748280009082 D-loop; other site 748280009083 H-loop/switch region; other site 748280009084 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 748280009085 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 748280009086 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 748280009087 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 748280009088 dimer interface [polypeptide binding]; other site 748280009089 conserved gate region; other site 748280009090 putative PBP binding loops; other site 748280009091 ABC-ATPase subunit interface; other site 748280009092 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 748280009093 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 748280009094 dimer interface [polypeptide binding]; other site 748280009095 conserved gate region; other site 748280009096 putative PBP binding loops; other site 748280009097 ABC-ATPase subunit interface; other site 748280009098 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 748280009099 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 748280009100 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08690 748280009101 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 748280009102 NAD binding site [chemical binding]; other site 748280009103 homotetramer interface [polypeptide binding]; other site 748280009104 homodimer interface [polypeptide binding]; other site 748280009105 substrate binding site [chemical binding]; other site 748280009106 active site 748280009107 Nitrate and nitrite sensing; Region: NIT; pfam08376 748280009108 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280009109 HAMP domain; Region: HAMP; pfam00672 748280009110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280009111 dimer interface [polypeptide binding]; other site 748280009112 putative CheW interface [polypeptide binding]; other site 748280009113 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 748280009114 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 748280009115 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 748280009116 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 748280009117 motif II; other site 748280009118 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 748280009119 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 748280009120 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 748280009121 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 748280009122 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 748280009123 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 748280009124 Isochorismatase family; Region: Isochorismatase; pfam00857 748280009125 catalytic triad [active] 748280009126 conserved cis-peptide bond; other site 748280009127 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 748280009128 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 748280009129 active site 748280009130 purine riboside binding site [chemical binding]; other site 748280009131 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280009132 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 748280009133 dimerization interface [polypeptide binding]; other site 748280009134 ligand binding site [chemical binding]; other site 748280009135 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 748280009136 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 748280009137 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 748280009138 Glutamate binding site [chemical binding]; other site 748280009139 NAD binding site [chemical binding]; other site 748280009140 catalytic residues [active] 748280009141 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280009142 NAD(P) binding site [chemical binding]; other site 748280009143 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 748280009144 L-aspartate oxidase; Provisional; Region: PRK09077 748280009145 L-aspartate oxidase; Provisional; Region: PRK06175 748280009146 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 748280009147 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 748280009148 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 748280009149 putative active site [active] 748280009150 heme pocket [chemical binding]; other site 748280009151 PAS domain; Region: PAS_8; pfam13188 748280009152 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 748280009153 dimer interface [polypeptide binding]; other site 748280009154 phosphorylation site [posttranslational modification] 748280009155 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 748280009156 ATP binding site [chemical binding]; other site 748280009157 Mg2+ binding site [ion binding]; other site 748280009158 G-X-G motif; other site 748280009159 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 748280009160 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 748280009161 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 748280009162 DctM-like transporters; Region: DctM; pfam06808 748280009163 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 748280009164 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 748280009165 Malic enzyme, N-terminal domain; Region: malic; pfam00390 748280009166 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 748280009167 putative NAD(P) binding site [chemical binding]; other site 748280009168 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 748280009169 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 748280009170 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 748280009171 putative active site [active] 748280009172 putative PHP Thumb interface [polypeptide binding]; other site 748280009173 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 748280009174 generic binding surface II; other site 748280009175 generic binding surface I; other site 748280009176 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 748280009177 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 748280009178 substrate binding site [chemical binding]; other site 748280009179 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009180 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009181 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009182 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009183 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009184 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009185 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280009186 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 748280009187 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; cl17257 748280009188 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 748280009189 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 748280009190 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 748280009191 dimer interface [polypeptide binding]; other site 748280009192 conserved gate region; other site 748280009193 ABC-ATPase subunit interface; other site 748280009194 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 748280009195 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 748280009196 Walker A/P-loop; other site 748280009197 ATP binding site [chemical binding]; other site 748280009198 Q-loop/lid; other site 748280009199 ABC transporter signature motif; other site 748280009200 Walker B; other site 748280009201 D-loop; other site 748280009202 H-loop/switch region; other site 748280009203 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 748280009204 putative catalytic site [active] 748280009205 putative metal binding site [ion binding]; other site 748280009206 putative phosphate binding site [ion binding]; other site 748280009207 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 748280009208 nudix motif; other site 748280009209 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 748280009210 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 748280009211 active site 748280009212 phosphorylation site [posttranslational modification] 748280009213 intermolecular recognition site; other site 748280009214 dimerization interface [polypeptide binding]; other site 748280009215 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 748280009216 DNA binding residues [nucleotide binding] 748280009217 dimerization interface [polypeptide binding]; other site 748280009218 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 748280009219 Mechanosensitive ion channel; Region: MS_channel; pfam00924 748280009220 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 748280009221 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 748280009222 Walker A/P-loop; other site 748280009223 ATP binding site [chemical binding]; other site 748280009224 Q-loop/lid; other site 748280009225 ABC transporter signature motif; other site 748280009226 Walker B; other site 748280009227 D-loop; other site 748280009228 H-loop/switch region; other site 748280009229 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 748280009230 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280009231 FtsX-like permease family; Region: FtsX; pfam02687 748280009232 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 748280009233 NlpC/P60 family; Region: NLPC_P60; pfam00877 748280009234 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 748280009235 ABC1 family; Region: ABC1; cl17513 748280009236 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 748280009237 Putative zinc-finger; Region: zf-HC2; pfam13490 748280009238 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 748280009239 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280009240 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 748280009241 DNA repair protein RadA; Provisional; Region: PRK11823 748280009242 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 748280009243 Walker A motif/ATP binding site; other site 748280009244 ATP binding site [chemical binding]; other site 748280009245 Walker B motif; other site 748280009246 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 748280009247 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 748280009248 short chain dehydrogenase; Provisional; Region: PRK08703 748280009249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280009250 NAD(P) binding site [chemical binding]; other site 748280009251 active site 748280009252 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 748280009253 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 748280009254 active site lid residues [active] 748280009255 substrate binding pocket [chemical binding]; other site 748280009256 catalytic residues [active] 748280009257 substrate-Mg2+ binding site; other site 748280009258 aspartate-rich region 1; other site 748280009259 aspartate-rich region 2; other site 748280009260 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 748280009261 active site lid residues [active] 748280009262 substrate binding pocket [chemical binding]; other site 748280009263 catalytic residues [active] 748280009264 substrate-Mg2+ binding site; other site 748280009265 aspartate-rich region 1; other site 748280009266 aspartate-rich region 2; other site 748280009267 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280009268 active site 748280009269 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 748280009270 dimerization interface [polypeptide binding]; other site 748280009271 active site 748280009272 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 748280009273 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 748280009274 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 748280009275 dimerization interface [polypeptide binding]; other site 748280009276 domain crossover interface; other site 748280009277 redox-dependent activation switch; other site 748280009278 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 748280009279 active site 748280009280 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 748280009281 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 748280009282 putative active site [active] 748280009283 putative dimer interface [polypeptide binding]; other site 748280009284 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 748280009285 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 748280009286 ligand binding site [chemical binding]; other site 748280009287 flexible hinge region; other site 748280009288 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 748280009289 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 748280009290 metal binding triad; other site 748280009291 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 748280009292 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280009293 active site 748280009294 substrate binding site [chemical binding]; other site 748280009295 catalytic site [active] 748280009296 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 748280009297 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 748280009298 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 748280009299 EF-hand domain pair; Region: EF_hand_5; pfam13499 748280009300 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 748280009301 Ca2+ binding site [ion binding]; other site 748280009302 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 748280009303 EF-hand domain pair; Region: EF_hand_5; pfam13499 748280009304 Ca2+ binding site [ion binding]; other site 748280009305 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 748280009306 EF-hand domain pair; Region: EF_hand_5; pfam13499 748280009307 Ca2+ binding site [ion binding]; other site 748280009308 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 748280009309 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 748280009310 active site 748280009311 phosphorylation site [posttranslational modification] 748280009312 intermolecular recognition site; other site 748280009313 dimerization interface [polypeptide binding]; other site 748280009314 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 748280009315 DNA binding site [nucleotide binding] 748280009316 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 748280009317 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 748280009318 dimerization interface [polypeptide binding]; other site 748280009319 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 748280009320 dimer interface [polypeptide binding]; other site 748280009321 phosphorylation site [posttranslational modification] 748280009322 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 748280009323 ATP binding site [chemical binding]; other site 748280009324 Mg2+ binding site [ion binding]; other site 748280009325 G-X-G motif; other site 748280009326 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280009327 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 748280009328 substrate binding site [chemical binding]; other site 748280009329 dimer interface [polypeptide binding]; other site 748280009330 ATP binding site [chemical binding]; other site 748280009331 hypothetical protein; Reviewed; Region: PRK00024 748280009332 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 748280009333 MPN+ (JAMM) motif; other site 748280009334 Zinc-binding site [ion binding]; other site 748280009335 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 748280009336 Flavoprotein; Region: Flavoprotein; pfam02441 748280009337 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 748280009338 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 748280009339 trimer interface [polypeptide binding]; other site 748280009340 active site 748280009341 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 748280009342 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 748280009343 dimer interface [polypeptide binding]; other site 748280009344 conserved gate region; other site 748280009345 putative PBP binding loops; other site 748280009346 ABC-ATPase subunit interface; other site 748280009347 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 748280009348 dimer interface [polypeptide binding]; other site 748280009349 conserved gate region; other site 748280009350 putative PBP binding loops; other site 748280009351 ABC-ATPase subunit interface; other site 748280009352 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 748280009353 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 748280009354 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280009355 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 748280009356 Walker A/P-loop; other site 748280009357 ATP binding site [chemical binding]; other site 748280009358 Q-loop/lid; other site 748280009359 ABC transporter signature motif; other site 748280009360 Walker B; other site 748280009361 D-loop; other site 748280009362 H-loop/switch region; other site 748280009363 TOBE domain; Region: TOBE_2; pfam08402 748280009364 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 748280009365 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280009366 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 748280009367 substrate binding pocket [chemical binding]; other site 748280009368 membrane-bound complex binding site; other site 748280009369 hinge residues; other site 748280009370 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280009371 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 748280009372 substrate binding pocket [chemical binding]; other site 748280009373 membrane-bound complex binding site; other site 748280009374 hinge residues; other site 748280009375 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280009376 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 748280009377 dimer interface [polypeptide binding]; other site 748280009378 conserved gate region; other site 748280009379 putative PBP binding loops; other site 748280009380 ABC-ATPase subunit interface; other site 748280009381 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 748280009382 dimer interface [polypeptide binding]; other site 748280009383 conserved gate region; other site 748280009384 putative PBP binding loops; other site 748280009385 ABC-ATPase subunit interface; other site 748280009386 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 748280009387 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 748280009388 Walker A/P-loop; other site 748280009389 ATP binding site [chemical binding]; other site 748280009390 Q-loop/lid; other site 748280009391 ABC transporter signature motif; other site 748280009392 Walker B; other site 748280009393 D-loop; other site 748280009394 H-loop/switch region; other site 748280009395 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 748280009396 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 748280009397 conserved cys residue [active] 748280009398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280009399 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 748280009400 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 748280009401 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 748280009402 dimer interface [polypeptide binding]; other site 748280009403 phosphorylation site [posttranslational modification] 748280009404 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 748280009405 ATP binding site [chemical binding]; other site 748280009406 Mg2+ binding site [ion binding]; other site 748280009407 G-X-G motif; other site 748280009408 ribonuclease R; Region: RNase_R; TIGR02063 748280009409 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 748280009410 RNB domain; Region: RNB; pfam00773 748280009411 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 748280009412 RNA binding site [nucleotide binding]; other site 748280009413 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 748280009414 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 748280009415 Walker A motif; other site 748280009416 ATP binding site [chemical binding]; other site 748280009417 Walker B motif; other site 748280009418 arginine finger; other site 748280009419 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 748280009420 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 748280009421 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 748280009422 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280009423 catalytic residue [active] 748280009424 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 748280009425 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 748280009426 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 748280009427 dimerization domain [polypeptide binding]; other site 748280009428 dimer interface [polypeptide binding]; other site 748280009429 catalytic residues [active] 748280009430 Gametolysin peptidase M11; Region: Peptidase_M11; pfam05548 748280009431 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 748280009432 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 748280009433 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280009434 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 748280009435 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280009436 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 748280009437 Tetratricopeptide repeat; Region: TPR_16; pfam13432 748280009438 TPR motif; other site 748280009439 binding surface 748280009440 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 748280009441 Secretin and TonB N terminus short domain; Region: STN; smart00965 748280009442 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 748280009443 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 748280009444 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 748280009445 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 748280009446 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 748280009447 Walker A motif; other site 748280009448 ATP binding site [chemical binding]; other site 748280009449 Walker B motif; other site 748280009450 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 748280009451 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 748280009452 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 748280009453 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 748280009454 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 748280009455 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 748280009456 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 748280009457 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 748280009458 GDP-binding site [chemical binding]; other site 748280009459 ACT binding site; other site 748280009460 IMP binding site; other site 748280009461 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 748280009462 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 748280009463 dimer interface [polypeptide binding]; other site 748280009464 motif 1; other site 748280009465 active site 748280009466 motif 2; other site 748280009467 motif 3; other site 748280009468 HflC protein; Region: hflC; TIGR01932 748280009469 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 748280009470 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 748280009471 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 748280009472 HflK protein; Region: hflK; TIGR01933 748280009473 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 748280009474 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 748280009475 HflX GTPase family; Region: HflX; cd01878 748280009476 G1 box; other site 748280009477 GTP/Mg2+ binding site [chemical binding]; other site 748280009478 Switch I region; other site 748280009479 G2 box; other site 748280009480 G3 box; other site 748280009481 Switch II region; other site 748280009482 G4 box; other site 748280009483 G5 box; other site 748280009484 bacterial Hfq-like; Region: Hfq; cd01716 748280009485 hexamer interface [polypeptide binding]; other site 748280009486 Sm1 motif; other site 748280009487 RNA binding site [nucleotide binding]; other site 748280009488 Sm2 motif; other site 748280009489 GTP-binding protein Der; Reviewed; Region: PRK00093 748280009490 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 748280009491 G1 box; other site 748280009492 GTP/Mg2+ binding site [chemical binding]; other site 748280009493 Switch I region; other site 748280009494 G2 box; other site 748280009495 Switch II region; other site 748280009496 G3 box; other site 748280009497 G4 box; other site 748280009498 G5 box; other site 748280009499 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 748280009500 G1 box; other site 748280009501 GTP/Mg2+ binding site [chemical binding]; other site 748280009502 Switch I region; other site 748280009503 G2 box; other site 748280009504 G3 box; other site 748280009505 Switch II region; other site 748280009506 G4 box; other site 748280009507 G5 box; other site 748280009508 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 748280009509 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 748280009510 Trp docking motif [polypeptide binding]; other site 748280009511 active site 748280009512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 748280009513 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 748280009514 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 748280009515 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 748280009516 dimer interface [polypeptide binding]; other site 748280009517 motif 1; other site 748280009518 active site 748280009519 motif 2; other site 748280009520 motif 3; other site 748280009521 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 748280009522 anticodon binding site; other site 748280009523 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 748280009524 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 748280009525 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 748280009526 Helix-turn-helix domain; Region: HTH_25; pfam13413 748280009527 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 748280009528 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 748280009529 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 748280009530 TPR motif; other site 748280009531 binding surface 748280009532 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 748280009533 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 748280009534 FeS/SAM binding site; other site 748280009535 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 748280009536 active site 748280009537 multimer interface [polypeptide binding]; other site 748280009538 Sporulation related domain; Region: SPOR; pfam05036 748280009539 Putative exonuclease, RdgC; Region: RdgC; pfam04381 748280009540 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 748280009541 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 748280009542 heme binding site [chemical binding]; other site 748280009543 ferroxidase pore; other site 748280009544 ferroxidase diiron center [ion binding]; other site 748280009545 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 748280009546 trimer interface [polypeptide binding]; other site 748280009547 active site 748280009548 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 748280009549 catalytic residues [active] 748280009550 dimer interface [polypeptide binding]; other site 748280009551 hypothetical protein; Provisional; Region: PRK01842 748280009552 SEC-C motif; Region: SEC-C; pfam02810 748280009553 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 748280009554 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 748280009555 dimer interface [polypeptide binding]; other site 748280009556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009557 catalytic residue [active] 748280009558 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 748280009559 putative ADP-ribose binding site [chemical binding]; other site 748280009560 putative active site [active] 748280009561 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 748280009562 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 748280009563 potential protein location (hypothetical protein NH8B_3179 [Pseudogulbenkiania sp. NH8B]) that overlaps RNA (tRNA-L) 748280009564 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 748280009565 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 748280009566 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 748280009567 GIY-YIG motif/motif A; other site 748280009568 active site 748280009569 catalytic site [active] 748280009570 putative DNA binding site [nucleotide binding]; other site 748280009571 metal binding site [ion binding]; metal-binding site 748280009572 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 748280009573 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 748280009574 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 748280009575 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 748280009576 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 748280009577 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 748280009578 active site 748280009579 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 748280009580 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 748280009581 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 748280009582 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 748280009583 dimerization interface [polypeptide binding]; other site 748280009584 ligand binding site [chemical binding]; other site 748280009585 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 748280009586 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 748280009587 Walker A/P-loop; other site 748280009588 ATP binding site [chemical binding]; other site 748280009589 Q-loop/lid; other site 748280009590 ABC transporter signature motif; other site 748280009591 Walker B; other site 748280009592 D-loop; other site 748280009593 H-loop/switch region; other site 748280009594 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 748280009595 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 748280009596 dimer interface [polypeptide binding]; other site 748280009597 conserved gate region; other site 748280009598 ABC-ATPase subunit interface; other site 748280009599 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 748280009600 dimer interface [polypeptide binding]; other site 748280009601 ABC-ATPase subunit interface; other site 748280009602 putative PBP binding loops; other site 748280009603 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 748280009604 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 748280009605 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 748280009606 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 748280009607 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280009608 catalytic residue [active] 748280009609 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 748280009610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280009611 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 748280009612 dimerization interface [polypeptide binding]; other site 748280009613 substrate binding pocket [chemical binding]; other site 748280009614 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 748280009615 FMN binding site [chemical binding]; other site 748280009616 substrate binding site [chemical binding]; other site 748280009617 putative catalytic residue [active] 748280009618 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 748280009619 putative substrate translocation pore; other site 748280009620 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280009621 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 748280009622 B12 binding site [chemical binding]; other site 748280009623 Radical SAM superfamily; Region: Radical_SAM; pfam04055 748280009624 Predicted integral membrane protein [Function unknown]; Region: COG5615 748280009625 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 748280009626 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 748280009627 putative ligand binding site [chemical binding]; other site 748280009628 LysE type translocator; Region: LysE; cl00565 748280009629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280009630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280009631 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 748280009632 dimerization interface [polypeptide binding]; other site 748280009633 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 748280009634 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 748280009635 active site 748280009636 dimer interface [polypeptide binding]; other site 748280009637 effector binding site; other site 748280009638 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 748280009639 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 748280009640 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 748280009641 Response regulator receiver domain; Region: Response_reg; pfam00072 748280009642 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 748280009643 active site 748280009644 phosphorylation site [posttranslational modification] 748280009645 intermolecular recognition site; other site 748280009646 dimerization interface [polypeptide binding]; other site 748280009647 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280009648 GAF domain; Region: GAF; pfam01590 748280009649 PAS fold; Region: PAS; pfam00989 748280009650 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 748280009651 PAS domain; Region: PAS_9; pfam13426 748280009652 putative active site [active] 748280009653 heme pocket [chemical binding]; other site 748280009654 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280009655 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280009656 metal binding site [ion binding]; metal-binding site 748280009657 active site 748280009658 I-site; other site 748280009659 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 748280009660 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 748280009661 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 748280009662 active site 748280009663 phosphorylation site [posttranslational modification] 748280009664 intermolecular recognition site; other site 748280009665 dimerization interface [polypeptide binding]; other site 748280009666 CheB methylesterase; Region: CheB_methylest; pfam01339 748280009667 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 748280009668 putative binding surface; other site 748280009669 active site 748280009670 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 748280009671 ATP binding site [chemical binding]; other site 748280009672 Mg2+ binding site [ion binding]; other site 748280009673 G-X-G motif; other site 748280009674 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 748280009675 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280009676 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 748280009677 active site 748280009678 phosphorylation site [posttranslational modification] 748280009679 intermolecular recognition site; other site 748280009680 dimerization interface [polypeptide binding]; other site 748280009681 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 748280009682 dimerization interface [polypeptide binding]; other site 748280009683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280009684 dimer interface [polypeptide binding]; other site 748280009685 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280009686 putative CheW interface [polypeptide binding]; other site 748280009687 CheW-like domain; Region: CheW; pfam01584 748280009688 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 748280009689 CheW-like domain; Region: CheW; pfam01584 748280009690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 748280009691 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 748280009692 elongation factor P; Validated; Region: PRK00529 748280009693 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 748280009694 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 748280009695 RNA binding site [nucleotide binding]; other site 748280009696 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 748280009697 RNA binding site [nucleotide binding]; other site 748280009698 Predicted ATPase [General function prediction only]; Region: COG1485 748280009699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280009700 Walker B; other site 748280009701 D-loop; other site 748280009702 H-loop/switch region; other site 748280009703 cysteine synthase B; Region: cysM; TIGR01138 748280009704 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 748280009705 dimer interface [polypeptide binding]; other site 748280009706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009707 catalytic residue [active] 748280009708 BON domain; Region: BON; pfam04972 748280009709 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 748280009710 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 748280009711 NADP binding site [chemical binding]; other site 748280009712 homopentamer interface [polypeptide binding]; other site 748280009713 substrate binding site [chemical binding]; other site 748280009714 active site 748280009715 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 748280009716 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 748280009717 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280009718 putative ribose interaction site [chemical binding]; other site 748280009719 putative ADP binding site [chemical binding]; other site 748280009720 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 748280009721 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 748280009722 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 748280009723 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 748280009724 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 748280009725 active site 748280009726 dimer interface [polypeptide binding]; other site 748280009727 tetratricopeptide repeat protein; Provisional; Region: PRK11788 748280009728 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 748280009729 binding surface 748280009730 TPR motif; other site 748280009731 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 748280009732 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 748280009733 IHF dimer interface [polypeptide binding]; other site 748280009734 IHF - DNA interface [nucleotide binding]; other site 748280009735 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 748280009736 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 748280009737 RNA binding site [nucleotide binding]; other site 748280009738 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 748280009739 RNA binding site [nucleotide binding]; other site 748280009740 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 748280009741 RNA binding site [nucleotide binding]; other site 748280009742 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 748280009743 RNA binding site [nucleotide binding]; other site 748280009744 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 748280009745 RNA binding site [nucleotide binding]; other site 748280009746 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 748280009747 RNA binding site [nucleotide binding]; other site 748280009748 cytidylate kinase; Provisional; Region: cmk; PRK00023 748280009749 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 748280009750 CMP-binding site; other site 748280009751 The sites determining sugar specificity; other site 748280009752 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 748280009753 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 748280009754 hinge; other site 748280009755 active site 748280009756 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 748280009757 metal binding site [ion binding]; metal-binding site 748280009758 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 748280009759 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 748280009760 prephenate dehydrogenase; Validated; Region: PRK08507 748280009761 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 748280009762 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 748280009763 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 748280009764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009765 catalytic residue [active] 748280009766 hypothetical protein; Validated; Region: PRK09070 748280009767 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 748280009768 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 748280009769 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 748280009770 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 748280009771 dimer interface [polypeptide binding]; other site 748280009772 active site 748280009773 acyl carrier protein; Provisional; Region: acpP; PRK00982 748280009774 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 748280009775 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 748280009776 NAD(P) binding site [chemical binding]; other site 748280009777 homotetramer interface [polypeptide binding]; other site 748280009778 homodimer interface [polypeptide binding]; other site 748280009779 active site 748280009780 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 748280009781 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 748280009782 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 748280009783 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 748280009784 dimer interface [polypeptide binding]; other site 748280009785 active site 748280009786 CoA binding pocket [chemical binding]; other site 748280009787 putative phosphate acyltransferase; Provisional; Region: PRK05331 748280009788 Interleukin 4; Region: IL4; cl11518 748280009789 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 748280009790 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 748280009791 Maf-like protein; Region: Maf; pfam02545 748280009792 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 748280009793 active site 748280009794 dimer interface [polypeptide binding]; other site 748280009795 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 748280009796 putative SAM binding site [chemical binding]; other site 748280009797 homodimer interface [polypeptide binding]; other site 748280009798 Rossmann-like domain; Region: Rossmann-like; pfam10727 748280009799 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 748280009800 LemA family; Region: LemA; cl00742 748280009801 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280009802 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 748280009803 FtsX-like permease family; Region: FtsX; pfam02687 748280009804 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 748280009805 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 748280009806 Walker A/P-loop; other site 748280009807 ATP binding site [chemical binding]; other site 748280009808 Q-loop/lid; other site 748280009809 ABC transporter signature motif; other site 748280009810 Walker B; other site 748280009811 D-loop; other site 748280009812 H-loop/switch region; other site 748280009813 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280009814 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280009815 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280009816 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280009817 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 748280009818 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280009819 active site 748280009820 glycine dehydrogenase; Provisional; Region: PRK05367 748280009821 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 748280009822 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280009823 catalytic residue [active] 748280009824 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 748280009825 tetramer interface [polypeptide binding]; other site 748280009826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009827 catalytic residue [active] 748280009828 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 748280009829 lipoyl attachment site [posttranslational modification]; other site 748280009830 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 748280009831 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 748280009832 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 748280009833 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 748280009834 active site 748280009835 HIGH motif; other site 748280009836 nucleotide binding site [chemical binding]; other site 748280009837 KMSKS motif; other site 748280009838 Ferredoxin [Energy production and conversion]; Region: COG1146 748280009839 4Fe-4S binding domain; Region: Fer4; cl02805 748280009840 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 748280009841 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 748280009842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280009843 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 748280009844 phosphorylation site [posttranslational modification] 748280009845 dimer interface [polypeptide binding]; other site 748280009846 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 748280009847 ATP binding site [chemical binding]; other site 748280009848 Mg2+ binding site [ion binding]; other site 748280009849 G-X-G motif; other site 748280009850 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 748280009851 Response regulator receiver domain; Region: Response_reg; pfam00072 748280009852 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 748280009853 active site 748280009854 phosphorylation site [posttranslational modification] 748280009855 intermolecular recognition site; other site 748280009856 dimerization interface [polypeptide binding]; other site 748280009857 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 748280009858 Response regulator receiver domain; Region: Response_reg; pfam00072 748280009859 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 748280009860 active site 748280009861 phosphorylation site [posttranslational modification] 748280009862 intermolecular recognition site; other site 748280009863 dimerization interface [polypeptide binding]; other site 748280009864 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 748280009865 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 748280009866 active site 748280009867 phosphorylation site [posttranslational modification] 748280009868 intermolecular recognition site; other site 748280009869 dimerization interface [polypeptide binding]; other site 748280009870 chemotaxis regulator CheZ; Provisional; Region: PRK11166 748280009871 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 748280009872 putative binding surface; other site 748280009873 active site 748280009874 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 748280009875 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 748280009876 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 748280009877 ATP binding site [chemical binding]; other site 748280009878 Mg2+ binding site [ion binding]; other site 748280009879 G-X-G motif; other site 748280009880 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 748280009881 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280009882 EAL domain; Region: EAL; pfam00563 748280009883 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 748280009884 Glycoprotease family; Region: Peptidase_M22; pfam00814 748280009885 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 748280009886 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 748280009887 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 748280009888 Fe-S cluster binding site [ion binding]; other site 748280009889 active site 748280009890 Transcriptional regulators [Transcription]; Region: GntR; COG1802 748280009891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280009892 DNA-binding site [nucleotide binding]; DNA binding site 748280009893 FCD domain; Region: FCD; pfam07729 748280009894 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 748280009895 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 748280009896 folate binding site [chemical binding]; other site 748280009897 NADP+ binding site [chemical binding]; other site 748280009898 thymidylate synthase; Reviewed; Region: thyA; PRK01827 748280009899 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 748280009900 dimerization interface [polypeptide binding]; other site 748280009901 active site 748280009902 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 748280009903 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 748280009904 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 748280009905 FHIPEP family; Region: FHIPEP; pfam00771 748280009906 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 748280009907 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 748280009908 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 748280009909 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 748280009910 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 748280009911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280009912 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 748280009913 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 748280009914 DNA binding residues [nucleotide binding] 748280009915 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 748280009916 flagellar motor protein; Reviewed; Region: motC; PRK09109 748280009917 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280009918 active site 748280009919 catalytic site [active] 748280009920 substrate binding site [chemical binding]; other site 748280009921 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 748280009922 active site 748280009923 catalytic site [active] 748280009924 metal binding site [ion binding]; metal-binding site 748280009925 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 748280009926 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 748280009927 active site 748280009928 DNA binding site [nucleotide binding] 748280009929 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 748280009930 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 748280009931 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; cl17221 748280009932 transmembrane helices; other site 748280009933 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 748280009934 diiron binding motif [ion binding]; other site 748280009935 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 748280009936 dimer interface [polypeptide binding]; other site 748280009937 substrate binding site [chemical binding]; other site 748280009938 metal binding sites [ion binding]; metal-binding site 748280009939 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 748280009940 Phasin protein; Region: Phasin_2; pfam09361 748280009941 septum formation inhibitor; Reviewed; Region: minC; PRK04516 748280009942 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 748280009943 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 748280009944 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 748280009945 Switch I; other site 748280009946 Switch II; other site 748280009947 cell division topological specificity factor MinE; Provisional; Region: PRK13989 748280009948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280009949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280009950 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 748280009951 dimerization interface [polypeptide binding]; other site 748280009952 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 748280009953 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 748280009954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280009955 homodimer interface [polypeptide binding]; other site 748280009956 catalytic residue [active] 748280009957 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280009958 MarR family; Region: MarR_2; pfam12802 748280009959 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 748280009960 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 748280009961 Dihaem cytochrome c; Region: DHC; pfam09626 748280009962 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 748280009963 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 748280009964 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 748280009965 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 748280009966 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 748280009967 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 748280009968 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 748280009969 RNA binding surface [nucleotide binding]; other site 748280009970 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 748280009971 probable active site [active] 748280009972 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 748280009973 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 748280009974 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 748280009975 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 748280009976 active site 748280009977 HIGH motif; other site 748280009978 dimer interface [polypeptide binding]; other site 748280009979 KMSKS motif; other site 748280009980 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280009981 active site 748280009982 KMSKS motif; other site 748280009983 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 748280009984 Peptidase family M50; Region: Peptidase_M50; pfam02163 748280009985 active site 748280009986 putative substrate binding region [chemical binding]; other site 748280009987 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 748280009988 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 748280009989 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 748280009990 active site 748280009991 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 748280009992 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 748280009993 S4 domain; Region: S4_2; pfam13275 748280009994 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 748280009995 AAA domain; Region: AAA_28; pfam13521 748280009996 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 748280009997 active site 748280009998 homodimer interface [polypeptide binding]; other site 748280009999 elongation factor G; Reviewed; Region: PRK00007 748280010000 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 748280010001 G1 box; other site 748280010002 putative GEF interaction site [polypeptide binding]; other site 748280010003 GTP/Mg2+ binding site [chemical binding]; other site 748280010004 Switch I region; other site 748280010005 G2 box; other site 748280010006 G3 box; other site 748280010007 Switch II region; other site 748280010008 G4 box; other site 748280010009 G5 box; other site 748280010010 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 748280010011 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 748280010012 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 748280010013 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 748280010014 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 748280010015 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 748280010016 ABC-ATPase subunit interface; other site 748280010017 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 748280010018 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 748280010019 Walker A/P-loop; other site 748280010020 ATP binding site [chemical binding]; other site 748280010021 Q-loop/lid; other site 748280010022 ABC transporter signature motif; other site 748280010023 Walker B; other site 748280010024 D-loop; other site 748280010025 H-loop/switch region; other site 748280010026 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 748280010027 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 748280010028 putative PBP binding loops; other site 748280010029 dimer interface [polypeptide binding]; other site 748280010030 ABC-ATPase subunit interface; other site 748280010031 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 748280010032 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 748280010033 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 748280010034 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 748280010035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280010036 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 748280010037 putative dimerization interface [polypeptide binding]; other site 748280010038 putative substrate binding pocket [chemical binding]; other site 748280010039 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 748280010040 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 748280010041 ligand binding site [chemical binding]; other site 748280010042 flexible hinge region; other site 748280010043 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 748280010044 putative switch regulator; other site 748280010045 non-specific DNA interactions [nucleotide binding]; other site 748280010046 DNA binding site [nucleotide binding] 748280010047 sequence specific DNA binding site [nucleotide binding]; other site 748280010048 putative cAMP binding site [chemical binding]; other site 748280010049 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 748280010050 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 748280010051 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 748280010052 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 748280010053 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 748280010054 TrkA-N domain; Region: TrkA_N; pfam02254 748280010055 TrkA-C domain; Region: TrkA_C; pfam02080 748280010056 KpsF/GutQ family protein; Region: kpsF; TIGR00393 748280010057 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 748280010058 putative active site [active] 748280010059 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 748280010060 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 748280010061 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 748280010062 active site 748280010063 motif I; other site 748280010064 motif II; other site 748280010065 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 748280010066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 748280010067 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 748280010068 OstA-like protein; Region: OstA; pfam03968 748280010069 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 748280010070 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 748280010071 Walker A/P-loop; other site 748280010072 ATP binding site [chemical binding]; other site 748280010073 Q-loop/lid; other site 748280010074 ABC transporter signature motif; other site 748280010075 Walker B; other site 748280010076 D-loop; other site 748280010077 H-loop/switch region; other site 748280010078 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 748280010079 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 748280010080 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 748280010081 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 748280010082 30S subunit binding site; other site 748280010083 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 748280010084 active site 748280010085 phosphorylation site [posttranslational modification] 748280010086 HPr kinase/phosphorylase; Provisional; Region: PRK05428 748280010087 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 748280010088 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 748280010089 Hpr binding site; other site 748280010090 active site 748280010091 homohexamer subunit interaction site [polypeptide binding]; other site 748280010092 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 748280010093 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 748280010094 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 748280010095 aromatic acid decarboxylase; Validated; Region: PRK05920 748280010096 Flavoprotein; Region: Flavoprotein; pfam02441 748280010097 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 748280010098 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 748280010099 putative substrate binding site [chemical binding]; other site 748280010100 putative ATP binding site [chemical binding]; other site 748280010101 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280010102 EamA-like transporter family; Region: EamA; pfam00892 748280010103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280010104 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 748280010105 ATP binding site [chemical binding]; other site 748280010106 Mg2+ binding site [ion binding]; other site 748280010107 G-X-G motif; other site 748280010108 adenylate kinase; Reviewed; Region: adk; PRK00279 748280010109 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 748280010110 AMP-binding site [chemical binding]; other site 748280010111 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 748280010112 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 748280010113 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 748280010114 Ligand binding site; other site 748280010115 oligomer interface; other site 748280010116 Uncharacterized conserved protein [Function unknown]; Region: COG2835 748280010117 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 748280010118 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 748280010119 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 748280010120 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 748280010121 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 748280010122 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 748280010123 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 748280010124 generic binding surface II; other site 748280010125 generic binding surface I; other site 748280010126 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 748280010127 dimerization interface [polypeptide binding]; other site 748280010128 putative DNA binding site [nucleotide binding]; other site 748280010129 putative Zn2+ binding site [ion binding]; other site 748280010130 phosphoglyceromutase; Provisional; Region: PRK05434 748280010131 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 748280010132 Peptidase family M23; Region: Peptidase_M23; pfam01551 748280010133 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 748280010134 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 748280010135 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 748280010136 protein binding site [polypeptide binding]; other site 748280010137 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 748280010138 Catalytic dyad [active] 748280010139 N-acetylglutamate synthase; Validated; Region: PRK05279 748280010140 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 748280010141 putative feedback inhibition sensing region; other site 748280010142 putative nucleotide binding site [chemical binding]; other site 748280010143 putative substrate binding site [chemical binding]; other site 748280010144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280010145 Coenzyme A binding pocket [chemical binding]; other site 748280010146 oxidative damage protection protein; Provisional; Region: PRK05408 748280010147 polyphosphate kinase; Provisional; Region: PRK05443 748280010148 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 748280010149 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 748280010150 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 748280010151 putative domain interface [polypeptide binding]; other site 748280010152 putative active site [active] 748280010153 catalytic site [active] 748280010154 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 748280010155 putative domain interface [polypeptide binding]; other site 748280010156 putative active site [active] 748280010157 catalytic site [active] 748280010158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 748280010159 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 748280010160 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280010161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280010162 ABC transporter; Region: ABC_tran_2; pfam12848 748280010163 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 748280010164 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 748280010165 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280010166 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 748280010167 substrate binding pocket [chemical binding]; other site 748280010168 membrane-bound complex binding site; other site 748280010169 hinge residues; other site 748280010170 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 748280010171 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 748280010172 active site 748280010173 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280010174 substrate binding site [chemical binding]; other site 748280010175 catalytic residues [active] 748280010176 dimer interface [polypeptide binding]; other site 748280010177 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280010178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280010179 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 748280010180 dimerization interface [polypeptide binding]; other site 748280010181 substrate binding pocket [chemical binding]; other site 748280010182 Methyltransferase domain; Region: Methyltransf_32; pfam13679 748280010183 Methyltransferase domain; Region: Methyltransf_31; pfam13847 748280010184 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 748280010185 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 748280010186 aspartate kinase; Reviewed; Region: PRK06635 748280010187 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 748280010188 putative nucleotide binding site [chemical binding]; other site 748280010189 putative catalytic residues [active] 748280010190 putative Mg ion binding site [ion binding]; other site 748280010191 putative aspartate binding site [chemical binding]; other site 748280010192 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 748280010193 putative allosteric regulatory site; other site 748280010194 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 748280010195 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 748280010196 Cysteine-rich domain; Region: CCG; pfam02754 748280010197 Cysteine-rich domain; Region: CCG; pfam02754 748280010198 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 748280010199 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 748280010200 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 748280010201 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 748280010202 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 748280010203 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 748280010204 ATP binding site [chemical binding]; other site 748280010205 Mg++ binding site [ion binding]; other site 748280010206 motif III; other site 748280010207 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 748280010208 nucleotide binding region [chemical binding]; other site 748280010209 ATP-binding site [chemical binding]; other site 748280010210 CobD/CbiB family protein; Provisional; Region: PRK07630 748280010211 FlgN protein; Region: FlgN; pfam05130 748280010212 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 748280010213 SAF-like; Region: SAF_2; pfam13144 748280010214 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 748280010215 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 748280010216 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; Region: Thr-synth_2; cd01560 748280010217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010218 catalytic residue [active] 748280010219 homoserine dehydrogenase; Provisional; Region: PRK06349 748280010220 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 748280010221 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 748280010222 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 748280010223 aminotransferase AlaT; Validated; Region: PRK09265 748280010224 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 748280010225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010226 homodimer interface [polypeptide binding]; other site 748280010227 catalytic residue [active] 748280010228 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 748280010229 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 748280010230 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 748280010231 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 748280010232 SCP-2 sterol transfer family; Region: SCP2; pfam02036 748280010233 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280010234 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 748280010235 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 748280010236 S-adenosylmethionine binding site [chemical binding]; other site 748280010237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 748280010238 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 748280010239 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 748280010240 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 748280010241 Dehydroquinase class II; Region: DHquinase_II; pfam01220 748280010242 trimer interface [polypeptide binding]; other site 748280010243 active site 748280010244 dimer interface [polypeptide binding]; other site 748280010245 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 748280010246 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 748280010247 carboxyltransferase (CT) interaction site; other site 748280010248 biotinylation site [posttranslational modification]; other site 748280010249 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 748280010250 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280010251 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 748280010252 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 748280010253 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 748280010254 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 748280010255 S-adenosylmethionine binding site [chemical binding]; other site 748280010256 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 748280010257 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 748280010258 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280010259 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 748280010260 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 748280010261 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 748280010262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 748280010263 preprotein translocase subunit SecB; Validated; Region: PRK05751 748280010264 SecA binding site; other site 748280010265 Preprotein binding site; other site 748280010266 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 748280010267 GSH binding site [chemical binding]; other site 748280010268 catalytic residues [active] 748280010269 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 748280010270 primosome assembly protein PriA; Validated; Region: PRK05580 748280010271 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 748280010272 ATP binding site [chemical binding]; other site 748280010273 putative Mg++ binding site [ion binding]; other site 748280010274 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 748280010275 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 748280010276 substrate binding site [chemical binding]; other site 748280010277 active site 748280010278 Chromate transporter; Region: Chromate_transp; pfam02417 748280010279 Chromate transporter; Region: Chromate_transp; pfam02417 748280010280 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280010281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280010282 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 748280010283 dimerization interface [polypeptide binding]; other site 748280010284 substrate binding pocket [chemical binding]; other site 748280010285 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 748280010286 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 748280010287 ATP binding site [chemical binding]; other site 748280010288 Mg2+ binding site [ion binding]; other site 748280010289 G-X-G motif; other site 748280010290 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 748280010291 anchoring element; other site 748280010292 dimer interface [polypeptide binding]; other site 748280010293 ATP binding site [chemical binding]; other site 748280010294 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 748280010295 active site 748280010296 metal binding site [ion binding]; metal-binding site 748280010297 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 748280010298 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 748280010299 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 748280010300 putative active site [active] 748280010301 Ap4A binding site [chemical binding]; other site 748280010302 nudix motif; other site 748280010303 putative metal binding site [ion binding]; other site 748280010304 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 748280010305 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 748280010306 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 748280010307 S-adenosylmethionine binding site [chemical binding]; other site 748280010308 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 748280010309 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 748280010310 active site 748280010311 (T/H)XGH motif; other site 748280010312 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 748280010313 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 748280010314 Walker A/P-loop; other site 748280010315 ATP binding site [chemical binding]; other site 748280010316 Q-loop/lid; other site 748280010317 ABC transporter signature motif; other site 748280010318 Walker B; other site 748280010319 D-loop; other site 748280010320 H-loop/switch region; other site 748280010321 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 748280010322 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 748280010323 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 748280010324 Walker A/P-loop; other site 748280010325 ATP binding site [chemical binding]; other site 748280010326 Q-loop/lid; other site 748280010327 ABC transporter signature motif; other site 748280010328 Walker B; other site 748280010329 D-loop; other site 748280010330 H-loop/switch region; other site 748280010331 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 748280010332 dipeptide transporter; Provisional; Region: PRK10913 748280010333 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 748280010334 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 748280010335 dimer interface [polypeptide binding]; other site 748280010336 conserved gate region; other site 748280010337 putative PBP binding loops; other site 748280010338 ABC-ATPase subunit interface; other site 748280010339 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 748280010340 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 748280010341 dimer interface [polypeptide binding]; other site 748280010342 conserved gate region; other site 748280010343 putative PBP binding loops; other site 748280010344 ABC-ATPase subunit interface; other site 748280010345 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 748280010346 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 748280010347 peptide binding site [polypeptide binding]; other site 748280010348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280010349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280010350 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 748280010351 dimerization interface [polypeptide binding]; other site 748280010352 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 748280010353 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 748280010354 dimer interface [polypeptide binding]; other site 748280010355 active site 748280010356 CoA binding pocket [chemical binding]; other site 748280010357 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 748280010358 Rrf2 family protein; Region: rrf2_super; TIGR00738 748280010359 cysteine desulfurase; Provisional; Region: PRK14012 748280010360 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 748280010361 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280010362 catalytic residue [active] 748280010363 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 748280010364 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 748280010365 trimerization site [polypeptide binding]; other site 748280010366 active site 748280010367 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 748280010368 co-chaperone HscB; Provisional; Region: hscB; PRK03578 748280010369 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 748280010370 HSP70 interaction site [polypeptide binding]; other site 748280010371 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 748280010372 chaperone protein HscA; Provisional; Region: hscA; PRK05183 748280010373 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 748280010374 nucleotide binding site [chemical binding]; other site 748280010375 putative NEF/HSP70 interaction site [polypeptide binding]; other site 748280010376 SBD interface [polypeptide binding]; other site 748280010377 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 748280010378 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 748280010379 catalytic loop [active] 748280010380 iron binding site [ion binding]; other site 748280010381 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 748280010382 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 748280010383 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280010384 putative C-terminal domain interface [polypeptide binding]; other site 748280010385 putative GSH binding site (G-site) [chemical binding]; other site 748280010386 putative dimer interface [polypeptide binding]; other site 748280010387 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 748280010388 putative N-terminal domain interface [polypeptide binding]; other site 748280010389 putative dimer interface [polypeptide binding]; other site 748280010390 putative substrate binding pocket (H-site) [chemical binding]; other site 748280010391 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 748280010392 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 748280010393 Sugar specificity; other site 748280010394 Pyrimidine base specificity; other site 748280010395 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 748280010396 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280010397 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 748280010398 putative DNA binding site [nucleotide binding]; other site 748280010399 putative Zn2+ binding site [ion binding]; other site 748280010400 AsnC family; Region: AsnC_trans_reg; pfam01037 748280010401 LysE type translocator; Region: LysE; cl00565 748280010402 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 748280010403 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 748280010404 Serine hydrolase; Region: Ser_hydrolase; pfam06821 748280010405 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 748280010406 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 748280010407 TPR repeat; Region: TPR_11; pfam13414 748280010408 binding surface 748280010409 TPR motif; other site 748280010410 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 748280010411 binding surface 748280010412 TPR motif; other site 748280010413 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 748280010414 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 748280010415 binding surface 748280010416 TPR motif; other site 748280010417 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 748280010418 binding surface 748280010419 TPR motif; other site 748280010420 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 748280010421 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 748280010422 Protein export membrane protein; Region: SecD_SecF; cl14618 748280010423 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280010424 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280010425 MltA specific insert domain; Region: MltA; smart00925 748280010426 3D domain; Region: 3D; pfam06725 748280010427 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 748280010428 PAS domain; Region: PAS_9; pfam13426 748280010429 putative active site [active] 748280010430 heme pocket [chemical binding]; other site 748280010431 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280010432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280010433 dimer interface [polypeptide binding]; other site 748280010434 putative CheW interface [polypeptide binding]; other site 748280010435 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280010436 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 748280010437 active site 748280010438 phosphorylation site [posttranslational modification] 748280010439 intermolecular recognition site; other site 748280010440 dimerization interface [polypeptide binding]; other site 748280010441 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 748280010442 DNA binding residues [nucleotide binding] 748280010443 dimerization interface [polypeptide binding]; other site 748280010444 Cytochrome c; Region: Cytochrom_C; cl11414 748280010445 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 748280010446 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 748280010447 dimer interface [polypeptide binding]; other site 748280010448 Trp docking motif [polypeptide binding]; other site 748280010449 active site 748280010450 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 748280010451 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 748280010452 ligand binding site [chemical binding]; other site 748280010453 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 748280010454 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280010455 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280010456 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280010457 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 748280010458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280010459 Walker A/P-loop; other site 748280010460 ATP binding site [chemical binding]; other site 748280010461 Q-loop/lid; other site 748280010462 ABC transporter signature motif; other site 748280010463 Walker B; other site 748280010464 D-loop; other site 748280010465 H-loop/switch region; other site 748280010466 ABC-2 type transporter; Region: ABC2_membrane; cl17235 748280010467 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 748280010468 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 748280010469 active site residue [active] 748280010470 Uncharacterized conserved protein [Function unknown]; Region: COG3287 748280010471 FIST N domain; Region: FIST; pfam08495 748280010472 FIST C domain; Region: FIST_C; pfam10442 748280010473 PAS fold; Region: PAS_7; pfam12860 748280010474 PAS fold; Region: PAS_7; pfam12860 748280010475 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 748280010476 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 748280010477 putative active site [active] 748280010478 heme pocket [chemical binding]; other site 748280010479 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 748280010480 dimer interface [polypeptide binding]; other site 748280010481 phosphorylation site [posttranslational modification] 748280010482 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 748280010483 ATP binding site [chemical binding]; other site 748280010484 Mg2+ binding site [ion binding]; other site 748280010485 G-X-G motif; other site 748280010486 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280010487 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 748280010488 active site 748280010489 phosphorylation site [posttranslational modification] 748280010490 intermolecular recognition site; other site 748280010491 dimerization interface [polypeptide binding]; other site 748280010492 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 748280010493 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280010494 NAD(P) binding site [chemical binding]; other site 748280010495 catalytic residues [active] 748280010496 Protein of unknown function (DUF779); Region: DUF779; pfam05610 748280010497 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 748280010498 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 748280010499 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280010500 substrate binding pocket [chemical binding]; other site 748280010501 membrane-bound complex binding site; other site 748280010502 hinge residues; other site 748280010503 Predicted secreted protein [Function unknown]; Region: COG5501 748280010504 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 748280010505 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 748280010506 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 748280010507 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 748280010508 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 748280010509 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 748280010510 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 748280010511 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 748280010512 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 748280010513 FeS/SAM binding site; other site 748280010514 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 748280010515 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 748280010516 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 748280010517 active site 748280010518 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 748280010519 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 748280010520 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 748280010521 ligand binding site [chemical binding]; other site 748280010522 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 748280010523 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 748280010524 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 748280010525 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 748280010526 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 748280010527 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 748280010528 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 748280010529 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 748280010530 DNA binding residues [nucleotide binding] 748280010531 DNA primase; Validated; Region: dnaG; PRK05667 748280010532 CHC2 zinc finger; Region: zf-CHC2; pfam01807 748280010533 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 748280010534 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 748280010535 active site 748280010536 metal binding site [ion binding]; metal-binding site 748280010537 interdomain interaction site; other site 748280010538 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 748280010539 Yqey-like protein; Region: YqeY; pfam09424 748280010540 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 748280010541 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 748280010542 ThiS interaction site; other site 748280010543 putative active site [active] 748280010544 tetramer interface [polypeptide binding]; other site 748280010545 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 748280010546 thiS-thiF/thiG interaction site; other site 748280010547 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 748280010548 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280010549 Zn2+ binding site [ion binding]; other site 748280010550 Mg2+ binding site [ion binding]; other site 748280010551 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 748280010552 synthetase active site [active] 748280010553 NTP binding site [chemical binding]; other site 748280010554 metal binding site [ion binding]; metal-binding site 748280010555 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 748280010556 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 748280010557 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 748280010558 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 748280010559 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 748280010560 catalytic site [active] 748280010561 G-X2-G-X-G-K; other site 748280010562 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 748280010563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280010564 active site 748280010565 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 748280010566 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 748280010567 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 748280010568 catalytic loop [active] 748280010569 iron binding site [ion binding]; other site 748280010570 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 748280010571 FAD binding pocket [chemical binding]; other site 748280010572 FAD binding motif [chemical binding]; other site 748280010573 phosphate binding motif [ion binding]; other site 748280010574 beta-alpha-beta structure motif; other site 748280010575 NAD binding pocket [chemical binding]; other site 748280010576 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 748280010577 NADH(P)-binding; Region: NAD_binding_10; pfam13460 748280010578 putative NAD(P) binding site [chemical binding]; other site 748280010579 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 748280010580 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 748280010581 catalytic residues [active] 748280010582 dimer interface [polypeptide binding]; other site 748280010583 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 748280010584 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 748280010585 glycerate dehydrogenase; Provisional; Region: PRK06487 748280010586 putative ligand binding site [chemical binding]; other site 748280010587 putative NAD binding site [chemical binding]; other site 748280010588 catalytic site [active] 748280010589 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 748280010590 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 748280010591 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 748280010592 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 748280010593 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 748280010594 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 748280010595 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 748280010596 active site 748280010597 substrate binding site [chemical binding]; other site 748280010598 metal binding site [ion binding]; metal-binding site 748280010599 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 748280010600 dihydropteroate synthase; Region: DHPS; TIGR01496 748280010601 substrate binding pocket [chemical binding]; other site 748280010602 dimer interface [polypeptide binding]; other site 748280010603 inhibitor binding site; inhibition site 748280010604 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 748280010605 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 748280010606 Walker A motif; other site 748280010607 ATP binding site [chemical binding]; other site 748280010608 Walker B motif; other site 748280010609 arginine finger; other site 748280010610 Peptidase family M41; Region: Peptidase_M41; pfam01434 748280010611 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 748280010612 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 748280010613 S-adenosylmethionine binding site [chemical binding]; other site 748280010614 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 748280010615 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 748280010616 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 748280010617 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 748280010618 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 748280010619 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 748280010620 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280010621 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 748280010622 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 748280010623 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280010624 ATP-grasp domain; Region: ATP-grasp_4; cl17255 748280010625 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 748280010626 IMP binding site; other site 748280010627 dimer interface [polypeptide binding]; other site 748280010628 interdomain contacts; other site 748280010629 partial ornithine binding site; other site 748280010630 leucine export protein LeuE; Provisional; Region: PRK10958 748280010631 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 748280010632 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 748280010633 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 748280010634 catalytic site [active] 748280010635 subunit interface [polypeptide binding]; other site 748280010636 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 748280010637 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 748280010638 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 748280010639 active site 748280010640 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 748280010641 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 748280010642 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 748280010643 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 748280010644 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 748280010645 Ligand binding site [chemical binding]; other site 748280010646 Electron transfer flavoprotein domain; Region: ETF; pfam01012 748280010647 (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 748280010648 dimer interaction site [polypeptide binding]; other site 748280010649 substrate-binding tunnel; other site 748280010650 active site 748280010651 catalytic site [active] 748280010652 substrate binding site [chemical binding]; other site 748280010653 glutamate racemase; Provisional; Region: PRK00865 748280010654 epoxyqueuosine reductase; Region: TIGR00276 748280010655 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 748280010656 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 748280010657 AMIN domain; Region: AMIN; pfam11741 748280010658 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 748280010659 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 748280010660 active site 748280010661 metal binding site [ion binding]; metal-binding site 748280010662 Domain of unknown function (DUF329); Region: DUF329; pfam03884 748280010663 hypothetical protein; Provisional; Region: PRK05287 748280010664 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 748280010665 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 748280010666 CoA-binding site [chemical binding]; other site 748280010667 ATP-binding [chemical binding]; other site 748280010668 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 748280010669 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 748280010670 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 748280010671 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 748280010672 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 748280010673 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 748280010674 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 748280010675 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 748280010676 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 748280010677 Walker A motif; other site 748280010678 ATP binding site [chemical binding]; other site 748280010679 Walker B motif; other site 748280010680 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 748280010681 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 748280010682 trimer interface [polypeptide binding]; other site 748280010683 eyelet of channel; other site 748280010684 DNA photolyase; Region: DNA_photolyase; pfam00875 748280010685 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 748280010686 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 748280010687 Helix-hairpin-helix motif; Region: HHH; pfam00633 748280010688 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 748280010689 signal recognition particle protein; Provisional; Region: PRK10867 748280010690 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 748280010691 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 748280010692 P loop; other site 748280010693 GTP binding site [chemical binding]; other site 748280010694 Signal peptide binding domain; Region: SRP_SPB; pfam02978 748280010695 ATP-grasp domain; Region: ATP-grasp_4; cl17255 748280010696 adenylosuccinate lyase; Provisional; Region: PRK09285 748280010697 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 748280010698 tetramer interface [polypeptide binding]; other site 748280010699 active site 748280010700 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 748280010701 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 748280010702 catalytic residues [active] 748280010703 hinge region; other site 748280010704 alpha helical domain; other site 748280010705 Sporulation related domain; Region: SPOR; pfam05036 748280010706 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 748280010707 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 748280010708 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 748280010709 Walker A motif; other site 748280010710 ATP binding site [chemical binding]; other site 748280010711 Walker B motif; other site 748280010712 arginine finger; other site 748280010713 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 748280010714 Membrane fusogenic activity; Region: BMFP; pfam04380 748280010715 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 748280010716 Nitrogen regulatory protein P-II; Region: P-II; smart00938 748280010717 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 748280010718 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 748280010719 stringent starvation protein A; Provisional; Region: sspA; PRK09481 748280010720 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 748280010721 C-terminal domain interface [polypeptide binding]; other site 748280010722 putative GSH binding site (G-site) [chemical binding]; other site 748280010723 dimer interface [polypeptide binding]; other site 748280010724 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 748280010725 N-terminal domain interface [polypeptide binding]; other site 748280010726 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 748280010727 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 748280010728 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 748280010729 Qi binding site; other site 748280010730 intrachain domain interface; other site 748280010731 interchain domain interface [polypeptide binding]; other site 748280010732 heme bH binding site [chemical binding]; other site 748280010733 heme bL binding site [chemical binding]; other site 748280010734 Qo binding site; other site 748280010735 interchain domain interface [polypeptide binding]; other site 748280010736 intrachain domain interface; other site 748280010737 Qi binding site; other site 748280010738 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 748280010739 Qo binding site; other site 748280010740 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 748280010741 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 748280010742 [2Fe-2S] cluster binding site [ion binding]; other site 748280010743 Uncharacterized conserved protein [Function unknown]; Region: COG0327 748280010744 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 748280010745 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 748280010746 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 748280010747 ring oligomerisation interface [polypeptide binding]; other site 748280010748 ATP/Mg binding site [chemical binding]; other site 748280010749 stacking interactions; other site 748280010750 hinge regions; other site 748280010751 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 748280010752 oligomerisation interface [polypeptide binding]; other site 748280010753 mobile loop; other site 748280010754 roof hairpin; other site 748280010755 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 748280010756 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 748280010757 Mg++ binding site [ion binding]; other site 748280010758 putative catalytic motif [active] 748280010759 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 748280010760 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 748280010761 NAD binding site [chemical binding]; other site 748280010762 substrate binding site [chemical binding]; other site 748280010763 homodimer interface [polypeptide binding]; other site 748280010764 active site 748280010765 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 748280010766 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 748280010767 NADP binding site [chemical binding]; other site 748280010768 active site 748280010769 putative substrate binding site [chemical binding]; other site 748280010770 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 748280010771 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 748280010772 substrate binding site; other site 748280010773 tetramer interface; other site 748280010774 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 748280010775 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 748280010776 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 748280010777 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 748280010778 NAD(P) binding site [chemical binding]; other site 748280010779 homodimer interface [polypeptide binding]; other site 748280010780 substrate binding site [chemical binding]; other site 748280010781 active site 748280010782 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 748280010783 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 748280010784 inhibitor-cofactor binding pocket; inhibition site 748280010785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010786 catalytic residue [active] 748280010787 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 748280010788 ligand binding site; other site 748280010789 tetramer interface; other site 748280010790 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 748280010791 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 748280010792 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 748280010793 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 748280010794 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 748280010795 pseudaminic acid synthase; Region: PseI; TIGR03586 748280010796 NeuB family; Region: NeuB; pfam03102 748280010797 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 748280010798 NeuB binding interface [polypeptide binding]; other site 748280010799 putative substrate binding site [chemical binding]; other site 748280010800 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 748280010801 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 748280010802 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 748280010803 Walker A/P-loop; other site 748280010804 ATP binding site [chemical binding]; other site 748280010805 Q-loop/lid; other site 748280010806 ABC transporter signature motif; other site 748280010807 Walker B; other site 748280010808 D-loop; other site 748280010809 H-loop/switch region; other site 748280010810 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 748280010811 active site 748280010812 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 748280010813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 748280010814 NAD(P) binding site [chemical binding]; other site 748280010815 active site 748280010816 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 748280010817 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 748280010818 inhibitor-cofactor binding pocket; inhibition site 748280010819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010820 catalytic residue [active] 748280010821 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 748280010822 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 748280010823 NADP-binding site; other site 748280010824 homotetramer interface [polypeptide binding]; other site 748280010825 substrate binding site [chemical binding]; other site 748280010826 homodimer interface [polypeptide binding]; other site 748280010827 active site 748280010828 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 748280010829 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 748280010830 NADP binding site [chemical binding]; other site 748280010831 active site 748280010832 putative substrate binding site [chemical binding]; other site 748280010833 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 748280010834 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 748280010835 metal-binding site 748280010836 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 748280010837 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 748280010838 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 748280010839 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 748280010840 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 748280010841 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 748280010842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280010843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280010844 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 748280010845 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 748280010846 active site 748280010847 dimer interface [polypeptide binding]; other site 748280010848 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 748280010849 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 748280010850 active site 748280010851 FMN binding site [chemical binding]; other site 748280010852 substrate binding site [chemical binding]; other site 748280010853 3Fe-4S cluster binding site [ion binding]; other site 748280010854 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 748280010855 domain interface; other site 748280010856 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 748280010857 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 748280010858 putative active site [active] 748280010859 catalytic site [active] 748280010860 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 748280010861 putative active site [active] 748280010862 catalytic site [active] 748280010863 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 748280010864 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 748280010865 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 748280010866 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280010867 catalytic residue [active] 748280010868 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 748280010869 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 748280010870 ferredoxin-NADP reductase; Provisional; Region: PRK10926 748280010871 FAD binding pocket [chemical binding]; other site 748280010872 FAD binding motif [chemical binding]; other site 748280010873 phosphate binding motif [ion binding]; other site 748280010874 beta-alpha-beta structure motif; other site 748280010875 NAD binding pocket [chemical binding]; other site 748280010876 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 748280010877 active site 748280010878 motif I; other site 748280010879 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 748280010880 motif II; other site 748280010881 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 748280010882 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 748280010883 homodimer interface [polypeptide binding]; other site 748280010884 substrate-cofactor binding pocket; other site 748280010885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280010886 catalytic residue [active] 748280010887 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280010888 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 748280010889 dimer interface [polypeptide binding]; other site 748280010890 conserved gate region; other site 748280010891 putative PBP binding loops; other site 748280010892 ABC-ATPase subunit interface; other site 748280010893 cystine transporter subunit; Provisional; Region: PRK11260 748280010894 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 748280010895 substrate binding pocket [chemical binding]; other site 748280010896 membrane-bound complex binding site; other site 748280010897 hinge residues; other site 748280010898 GTP-binding protein YchF; Reviewed; Region: PRK09601 748280010899 YchF GTPase; Region: YchF; cd01900 748280010900 G1 box; other site 748280010901 GTP/Mg2+ binding site [chemical binding]; other site 748280010902 Switch I region; other site 748280010903 G2 box; other site 748280010904 Switch II region; other site 748280010905 G3 box; other site 748280010906 G4 box; other site 748280010907 G5 box; other site 748280010908 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 748280010909 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 748280010910 putative active site [active] 748280010911 catalytic residue [active] 748280010912 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 748280010913 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 748280010914 5S rRNA interface [nucleotide binding]; other site 748280010915 CTC domain interface [polypeptide binding]; other site 748280010916 L16 interface [polypeptide binding]; other site 748280010917 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 748280010918 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 748280010919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280010920 active site 748280010921 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 748280010922 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 748280010923 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 748280010924 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 748280010925 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 748280010926 TPR repeat; Region: TPR_11; pfam13414 748280010927 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 748280010928 binding surface 748280010929 TPR motif; other site 748280010930 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 748280010931 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 748280010932 DNA binding site [nucleotide binding] 748280010933 catalytic residue [active] 748280010934 H2TH interface [polypeptide binding]; other site 748280010935 putative catalytic residues [active] 748280010936 turnover-facilitating residue; other site 748280010937 intercalation triad [nucleotide binding]; other site 748280010938 8OG recognition residue [nucleotide binding]; other site 748280010939 putative reading head residues; other site 748280010940 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 748280010941 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 748280010942 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 748280010943 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 748280010944 putative acyl-acceptor binding pocket; other site 748280010945 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 748280010946 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 748280010947 active site 748280010948 metal binding site [ion binding]; metal-binding site 748280010949 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 748280010950 Part of AAA domain; Region: AAA_19; pfam13245 748280010951 Family description; Region: UvrD_C_2; pfam13538 748280010952 Protein required for attachment to host cells; Region: Host_attach; pfam10116 748280010953 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 748280010954 Uncharacterized conserved protein [Function unknown]; Region: COG1656 748280010955 Protein of unknown function DUF82; Region: DUF82; pfam01927 748280010956 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 748280010957 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280010958 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 748280010959 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280010960 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 748280010961 dimerization interface [polypeptide binding]; other site 748280010962 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 748280010963 dimer interface [polypeptide binding]; other site 748280010964 phosphorylation site [posttranslational modification] 748280010965 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 748280010966 ATP binding site [chemical binding]; other site 748280010967 Mg2+ binding site [ion binding]; other site 748280010968 G-X-G motif; other site 748280010969 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280010970 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 748280010971 active site 748280010972 phosphorylation site [posttranslational modification] 748280010973 intermolecular recognition site; other site 748280010974 dimerization interface [polypeptide binding]; other site 748280010975 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 748280010976 DNA binding site [nucleotide binding] 748280010977 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 748280010978 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280010979 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280010980 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 748280010981 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 748280010982 Walker A/P-loop; other site 748280010983 ATP binding site [chemical binding]; other site 748280010984 Q-loop/lid; other site 748280010985 ABC transporter signature motif; other site 748280010986 Walker B; other site 748280010987 D-loop; other site 748280010988 H-loop/switch region; other site 748280010989 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 748280010990 FtsX-like permease family; Region: FtsX; pfam02687 748280010991 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280010992 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 748280010993 Flagellar L-ring protein; Region: FlgH; pfam02107 748280010994 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280010995 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 748280010996 active site 748280010997 phosphorylation site [posttranslational modification] 748280010998 intermolecular recognition site; other site 748280010999 dimerization interface [polypeptide binding]; other site 748280011000 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 748280011001 DNA binding site [nucleotide binding] 748280011002 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 748280011003 PAS fold; Region: PAS_3; pfam08447 748280011004 putative active site [active] 748280011005 heme pocket [chemical binding]; other site 748280011006 PAS fold; Region: PAS_4; pfam08448 748280011007 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 748280011008 putative active site [active] 748280011009 heme pocket [chemical binding]; other site 748280011010 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280011011 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011012 metal binding site [ion binding]; metal-binding site 748280011013 active site 748280011014 I-site; other site 748280011015 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 748280011016 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 748280011017 nudix motif; other site 748280011018 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 748280011019 AAA domain; Region: AAA_30; pfam13604 748280011020 Family description; Region: UvrD_C_2; pfam13538 748280011021 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 748280011022 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 748280011023 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 748280011024 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 748280011025 Family description; Region: UvrD_C_2; pfam13538 748280011026 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 748280011027 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 748280011028 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 748280011029 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 748280011030 Peptidase family U32; Region: Peptidase_U32; pfam01136 748280011031 putative protease; Provisional; Region: PRK15447 748280011032 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 748280011033 SCP-2 sterol transfer family; Region: SCP2; cl01225 748280011034 CHASE domain; Region: CHASE; pfam03924 748280011035 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 748280011036 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 748280011037 putative active site [active] 748280011038 heme pocket [chemical binding]; other site 748280011039 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 748280011040 dimer interface [polypeptide binding]; other site 748280011041 phosphorylation site [posttranslational modification] 748280011042 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 748280011043 ATP binding site [chemical binding]; other site 748280011044 Mg2+ binding site [ion binding]; other site 748280011045 G-X-G motif; other site 748280011046 Response regulator receiver domain; Region: Response_reg; pfam00072 748280011047 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 748280011048 active site 748280011049 phosphorylation site [posttranslational modification] 748280011050 intermolecular recognition site; other site 748280011051 dimerization interface [polypeptide binding]; other site 748280011052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280011053 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 748280011054 active site 748280011055 phosphorylation site [posttranslational modification] 748280011056 intermolecular recognition site; other site 748280011057 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 748280011058 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 748280011059 active site 748280011060 phosphorylation site [posttranslational modification] 748280011061 intermolecular recognition site; other site 748280011062 dimerization interface [polypeptide binding]; other site 748280011063 Response regulator receiver domain; Region: Response_reg; pfam00072 748280011064 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 748280011065 active site 748280011066 phosphorylation site [posttranslational modification] 748280011067 intermolecular recognition site; other site 748280011068 dimerization interface [polypeptide binding]; other site 748280011069 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 748280011070 PAS domain; Region: PAS_9; pfam13426 748280011071 putative active site [active] 748280011072 heme pocket [chemical binding]; other site 748280011073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280011074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011075 metal binding site [ion binding]; metal-binding site 748280011076 active site 748280011077 I-site; other site 748280011078 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 748280011079 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 748280011080 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280011081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280011082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280011083 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 748280011084 putative effector binding pocket; other site 748280011085 dimerization interface [polypeptide binding]; other site 748280011086 Protein of unknown function, DUF; Region: DUF411; cl01142 748280011087 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 748280011088 Class III ribonucleotide reductase; Region: RNR_III; cd01675 748280011089 effector binding site; other site 748280011090 active site 748280011091 Zn binding site [ion binding]; other site 748280011092 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 748280011093 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 748280011094 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 748280011095 FeS/SAM binding site; other site 748280011096 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 748280011097 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 748280011098 FMN binding site [chemical binding]; other site 748280011099 substrate binding site [chemical binding]; other site 748280011100 putative catalytic residue [active] 748280011101 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280011102 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 748280011103 NAD(P) binding site [chemical binding]; other site 748280011104 catalytic residues [active] 748280011105 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 748280011106 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 748280011107 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 748280011108 N-terminal domain interface [polypeptide binding]; other site 748280011109 dimer interface [polypeptide binding]; other site 748280011110 substrate binding pocket (H-site) [chemical binding]; other site 748280011111 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 748280011112 FAD binding domain; Region: FAD_binding_4; pfam01565 748280011113 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280011114 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 748280011115 substrate binding pocket [chemical binding]; other site 748280011116 membrane-bound complex binding site; other site 748280011117 hinge residues; other site 748280011118 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 748280011119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 748280011120 active site 748280011121 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 748280011122 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 748280011123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280011124 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 748280011125 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 748280011126 DNA binding site [nucleotide binding] 748280011127 active site 748280011128 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 748280011129 LysE type translocator; Region: LysE; cl00565 748280011130 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 748280011131 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 748280011132 active site 748280011133 phosphorylation site [posttranslational modification] 748280011134 intermolecular recognition site; other site 748280011135 dimerization interface [polypeptide binding]; other site 748280011136 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280011137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280011138 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 748280011139 ATP binding site [chemical binding]; other site 748280011140 Mg2+ binding site [ion binding]; other site 748280011141 G-X-G motif; other site 748280011142 ABC-2 type transporter; Region: ABC2_membrane; cl17235 748280011143 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 748280011144 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280011145 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280011146 Walker A/P-loop; other site 748280011147 ATP binding site [chemical binding]; other site 748280011148 Q-loop/lid; other site 748280011149 ABC transporter signature motif; other site 748280011150 Walker B; other site 748280011151 D-loop; other site 748280011152 H-loop/switch region; other site 748280011153 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 748280011154 ApbE family; Region: ApbE; pfam02424 748280011155 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 748280011156 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 748280011157 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280011158 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280011159 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 748280011160 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 748280011161 NosL; Region: NosL; cl01769 748280011162 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 748280011163 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280011164 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 748280011165 Walker A/P-loop; other site 748280011166 ATP binding site [chemical binding]; other site 748280011167 Q-loop/lid; other site 748280011168 ABC transporter signature motif; other site 748280011169 Walker B; other site 748280011170 D-loop; other site 748280011171 H-loop/switch region; other site 748280011172 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 748280011173 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 748280011174 nitrous-oxide reductase; Validated; Region: PRK02888 748280011175 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 748280011176 nitrous-oxide reductase; Validated; Region: PRK02888 748280011177 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 748280011178 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 748280011179 active site residue [active] 748280011180 sensor protein QseC; Provisional; Region: PRK10337 748280011181 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 748280011182 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 748280011183 dimer interface [polypeptide binding]; other site 748280011184 phosphorylation site [posttranslational modification] 748280011185 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 748280011186 ATP binding site [chemical binding]; other site 748280011187 Mg2+ binding site [ion binding]; other site 748280011188 G-X-G motif; other site 748280011189 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 748280011190 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 748280011191 active site 748280011192 phosphorylation site [posttranslational modification] 748280011193 intermolecular recognition site; other site 748280011194 dimerization interface [polypeptide binding]; other site 748280011195 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 748280011196 DNA binding site [nucleotide binding] 748280011197 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 748280011198 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 748280011199 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 748280011200 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 748280011201 putative active site [active] 748280011202 putative metal binding site [ion binding]; other site 748280011203 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280011204 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 748280011205 Pirin-related protein [General function prediction only]; Region: COG1741 748280011206 Pirin; Region: Pirin; pfam02678 748280011207 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 748280011208 Pirin-related protein [General function prediction only]; Region: COG1741 748280011209 Pirin; Region: Pirin; pfam02678 748280011210 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 748280011211 Predicted membrane protein [Function unknown]; Region: COG2259 748280011212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280011213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280011214 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 748280011215 dimerization interface [polypeptide binding]; other site 748280011216 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 748280011217 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 748280011218 FAD binding pocket [chemical binding]; other site 748280011219 FAD binding motif [chemical binding]; other site 748280011220 phosphate binding motif [ion binding]; other site 748280011221 beta-alpha-beta structure motif; other site 748280011222 NAD binding pocket [chemical binding]; other site 748280011223 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 748280011224 elongation factor G; Reviewed; Region: PRK12740 748280011225 G1 box; other site 748280011226 putative GEF interaction site [polypeptide binding]; other site 748280011227 GTP/Mg2+ binding site [chemical binding]; other site 748280011228 Switch I region; other site 748280011229 G2 box; other site 748280011230 G3 box; other site 748280011231 Switch II region; other site 748280011232 G4 box; other site 748280011233 G5 box; other site 748280011234 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 748280011235 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 748280011236 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 748280011237 Predicted transcriptional regulator [Transcription]; Region: COG2378 748280011238 HTH domain; Region: HTH_11; pfam08279 748280011239 WYL domain; Region: WYL; pfam13280 748280011240 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 748280011241 putative dimer interface [polypeptide binding]; other site 748280011242 hypothetical protein; Provisional; Region: PRK02268 748280011243 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 748280011244 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 748280011245 tetramer interface [polypeptide binding]; other site 748280011246 active site 748280011247 Mg2+/Mn2+ binding site [ion binding]; other site 748280011248 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 748280011249 putative catalytic site [active] 748280011250 putative phosphate binding site [ion binding]; other site 748280011251 active site 748280011252 metal binding site A [ion binding]; metal-binding site 748280011253 DNA binding site [nucleotide binding] 748280011254 putative AP binding site [nucleotide binding]; other site 748280011255 putative metal binding site B [ion binding]; other site 748280011256 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 748280011257 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 748280011258 Sulfatase; Region: Sulfatase; pfam00884 748280011259 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 748280011260 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 748280011261 active site 748280011262 Zn binding site [ion binding]; other site 748280011263 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 748280011264 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 748280011265 trimer interface [polypeptide binding]; other site 748280011266 putative metal binding site [ion binding]; other site 748280011267 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 748280011268 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280011269 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280011270 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280011271 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 748280011272 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 748280011273 dimerization interface [polypeptide binding]; other site 748280011274 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280011275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280011276 dimer interface [polypeptide binding]; other site 748280011277 putative CheW interface [polypeptide binding]; other site 748280011278 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 748280011279 dimer interface [polypeptide binding]; other site 748280011280 catalytic triad [active] 748280011281 peroxidatic and resolving cysteines [active] 748280011282 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 748280011283 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 748280011284 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280011285 EamA-like transporter family; Region: EamA; pfam00892 748280011286 EamA-like transporter family; Region: EamA; pfam00892 748280011287 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 748280011288 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 748280011289 AAA domain; Region: AAA_23; pfam13476 748280011290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280011291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 748280011292 ABC transporter signature motif; other site 748280011293 Walker B; other site 748280011294 D-loop; other site 748280011295 H-loop/switch region; other site 748280011296 GTPase CgtA; Reviewed; Region: obgE; PRK12299 748280011297 GTP1/OBG; Region: GTP1_OBG; pfam01018 748280011298 Obg GTPase; Region: Obg; cd01898 748280011299 G1 box; other site 748280011300 GTP/Mg2+ binding site [chemical binding]; other site 748280011301 Switch I region; other site 748280011302 G2 box; other site 748280011303 G3 box; other site 748280011304 Switch II region; other site 748280011305 G4 box; other site 748280011306 G5 box; other site 748280011307 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 748280011308 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 748280011309 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 748280011310 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 748280011311 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 748280011312 substrate binding pocket [chemical binding]; other site 748280011313 chain length determination region; other site 748280011314 substrate-Mg2+ binding site; other site 748280011315 catalytic residues [active] 748280011316 aspartate-rich region 1; other site 748280011317 active site lid residues [active] 748280011318 aspartate-rich region 2; other site 748280011319 Flagellin N-methylase; Region: FliB; pfam03692 748280011320 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 748280011321 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 748280011322 Transglycosylase; Region: Transgly; pfam00912 748280011323 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 748280011324 Competence protein A; Region: Competence_A; pfam11104 748280011325 Cell division protein FtsA; Region: FtsA; cl17206 748280011326 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 748280011327 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 748280011328 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 748280011329 Pilus assembly protein, PilO; Region: PilO; pfam04350 748280011330 Pilus assembly protein, PilP; Region: PilP; pfam04351 748280011331 AMIN domain; Region: AMIN; pfam11741 748280011332 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 748280011333 Secretin and TonB N terminus short domain; Region: STN; smart00965 748280011334 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 748280011335 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 748280011336 shikimate kinase; Reviewed; Region: aroK; PRK00131 748280011337 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 748280011338 ADP binding site [chemical binding]; other site 748280011339 magnesium binding site [ion binding]; other site 748280011340 putative shikimate binding site; other site 748280011341 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 748280011342 active site 748280011343 dimer interface [polypeptide binding]; other site 748280011344 metal binding site [ion binding]; metal-binding site 748280011345 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 748280011346 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 748280011347 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 748280011348 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 748280011349 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280011350 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 748280011351 putative active site [active] 748280011352 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 748280011353 O-Antigen ligase; Region: Wzy_C; pfam04932 748280011354 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280011355 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 748280011356 putative active site [active] 748280011357 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280011358 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 748280011359 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 748280011360 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280011361 putative active site [active] 748280011362 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 748280011363 putative active site [active] 748280011364 putative metal binding site [ion binding]; other site 748280011365 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 748280011366 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 748280011367 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 748280011368 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 748280011369 Walker A/P-loop; other site 748280011370 ATP binding site [chemical binding]; other site 748280011371 Q-loop/lid; other site 748280011372 ABC transporter signature motif; other site 748280011373 Walker B; other site 748280011374 D-loop; other site 748280011375 H-loop/switch region; other site 748280011376 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 748280011377 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 748280011378 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 748280011379 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 748280011380 putative active site [active] 748280011381 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 748280011382 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 748280011383 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 748280011384 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 748280011385 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 748280011386 dimerization domain swap beta strand [polypeptide binding]; other site 748280011387 regulatory protein interface [polypeptide binding]; other site 748280011388 active site 748280011389 regulatory phosphorylation site [posttranslational modification]; other site 748280011390 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 748280011391 active pocket/dimerization site; other site 748280011392 active site 748280011393 phosphorylation site [posttranslational modification] 748280011394 siroheme synthase; Provisional; Region: cysG; PRK10637 748280011395 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 748280011396 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 748280011397 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 748280011398 active site 748280011399 SAM binding site [chemical binding]; other site 748280011400 homodimer interface [polypeptide binding]; other site 748280011401 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 748280011402 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 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; cd00130 748280011404 putative active site [active] 748280011405 heme pocket [chemical binding]; other site 748280011406 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 748280011407 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 748280011408 GAF domain; Region: GAF; pfam01590 748280011409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280011410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011411 metal binding site [ion binding]; metal-binding site 748280011412 active site 748280011413 I-site; other site 748280011414 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 748280011415 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 748280011416 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 748280011417 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 748280011418 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 748280011419 muropeptide transporter; Reviewed; Region: ampG; PRK11902 748280011420 AmpG-like permease; Region: 2A0125; TIGR00901 748280011421 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 748280011422 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 748280011423 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 748280011424 radical SAM protein, TIGR01212 family; Region: TIGR01212 748280011425 TMAO/DMSO reductase; Reviewed; Region: PRK05363 748280011426 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 748280011427 Moco binding site; other site 748280011428 metal coordination site [ion binding]; other site 748280011429 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 748280011430 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 748280011431 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 748280011432 putative dimer interface [polypeptide binding]; other site 748280011433 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 748280011434 putative deacylase active site [active] 748280011435 Cytochrome c553 [Energy production and conversion]; Region: COG2863 748280011436 Cytochrome c; Region: Cytochrom_C; cl11414 748280011437 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 748280011438 4Fe-4S binding domain; Region: Fer4_5; pfam12801 748280011439 Iron permease FTR1 family; Region: FTR1; cl00475 748280011440 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 748280011441 Fe2+ transport protein; Region: Iron_transport; pfam10634 748280011442 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 748280011443 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 748280011444 putative substrate translocation pore; other site 748280011445 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 748280011446 ArsC family; Region: ArsC; pfam03960 748280011447 catalytic residues [active] 748280011448 MarR family; Region: MarR_2; cl17246 748280011449 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 748280011450 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 748280011451 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 748280011452 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 748280011453 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280011454 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 748280011455 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 748280011456 putative substrate translocation pore; other site 748280011457 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 748280011458 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 748280011459 von Willebrand factor type A domain; Region: VWA_2; pfam13519 748280011460 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 748280011461 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 748280011462 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 748280011463 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 748280011464 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 748280011465 Type II transport protein GspH; Region: GspH; pfam12019 748280011466 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 748280011467 DNA polymerase I; Provisional; Region: PRK05755 748280011468 active site 748280011469 putative 5' ssDNA interaction site; other site 748280011470 metal binding site 3; metal-binding site 748280011471 metal binding site 1 [ion binding]; metal-binding site 748280011472 metal binding site 2 [ion binding]; metal-binding site 748280011473 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 748280011474 putative DNA binding site [nucleotide binding]; other site 748280011475 putative metal binding site [ion binding]; other site 748280011476 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 748280011477 active site 748280011478 catalytic site [active] 748280011479 substrate binding site [chemical binding]; other site 748280011480 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 748280011481 active site 748280011482 DNA binding site [nucleotide binding] 748280011483 catalytic site [active] 748280011484 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 748280011485 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 748280011486 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 748280011487 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 748280011488 putative active site [active] 748280011489 putative substrate binding site [chemical binding]; other site 748280011490 ATP binding site [chemical binding]; other site 748280011491 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011492 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 748280011493 putative DNA binding site [nucleotide binding]; other site 748280011494 putative Zn2+ binding site [ion binding]; other site 748280011495 AsnC family; Region: AsnC_trans_reg; pfam01037 748280011496 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011497 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 748280011498 putative DNA binding site [nucleotide binding]; other site 748280011499 putative Zn2+ binding site [ion binding]; other site 748280011500 AsnC family; Region: AsnC_trans_reg; pfam01037 748280011501 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 748280011502 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 748280011503 homodimer interface [polypeptide binding]; other site 748280011504 substrate-cofactor binding pocket; other site 748280011505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011506 catalytic residue [active] 748280011507 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 748280011508 dimer interface [polypeptide binding]; other site 748280011509 conserved gate region; other site 748280011510 putative PBP binding loops; other site 748280011511 ABC-ATPase subunit interface; other site 748280011512 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280011513 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 748280011514 dimer interface [polypeptide binding]; other site 748280011515 conserved gate region; other site 748280011516 putative PBP binding loops; other site 748280011517 ABC-ATPase subunit interface; other site 748280011518 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 748280011519 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 748280011520 substrate binding pocket [chemical binding]; other site 748280011521 membrane-bound complex binding site; other site 748280011522 hinge residues; other site 748280011523 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 748280011524 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 748280011525 Walker A/P-loop; other site 748280011526 ATP binding site [chemical binding]; other site 748280011527 Q-loop/lid; other site 748280011528 ABC transporter signature motif; other site 748280011529 Walker B; other site 748280011530 D-loop; other site 748280011531 H-loop/switch region; other site 748280011532 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 748280011533 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 748280011534 NAD(P) binding site [chemical binding]; other site 748280011535 catalytic residues [active] 748280011536 homoserine dehydrogenase; Provisional; Region: PRK06270 748280011537 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 748280011538 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 748280011539 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 748280011540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280011541 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 748280011542 putative dimerization interface [polypeptide binding]; other site 748280011543 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 748280011544 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 748280011545 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 748280011546 C-terminal domain interface [polypeptide binding]; other site 748280011547 GSH binding site (G-site) [chemical binding]; other site 748280011548 dimer interface [polypeptide binding]; other site 748280011549 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 748280011550 N-terminal domain interface [polypeptide binding]; other site 748280011551 putative dimer interface [polypeptide binding]; other site 748280011552 active site 748280011553 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 748280011554 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 748280011555 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011556 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 748280011557 putative Zn2+ binding site [ion binding]; other site 748280011558 putative DNA binding site [nucleotide binding]; other site 748280011559 dimerization interface [polypeptide binding]; other site 748280011560 AsnC family; Region: AsnC_trans_reg; pfam01037 748280011561 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 748280011562 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 748280011563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011564 homodimer interface [polypeptide binding]; other site 748280011565 catalytic residue [active] 748280011566 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 748280011567 azoreductase; Reviewed; Region: PRK00170 748280011568 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 748280011569 LysR family transcriptional regulator; Provisional; Region: PRK14997 748280011570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280011571 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 748280011572 putative effector binding pocket; other site 748280011573 putative dimerization interface [polypeptide binding]; other site 748280011574 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 748280011575 EamA-like transporter family; Region: EamA; pfam00892 748280011576 Cupin domain; Region: Cupin_2; cl17218 748280011577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280011578 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 748280011579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 748280011580 N-formylglutamate amidohydrolase; Region: FGase; cl01522 748280011581 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 748280011582 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 748280011583 active site 748280011584 HutD; Region: HutD; pfam05962 748280011585 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 748280011586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280011587 DNA-binding site [nucleotide binding]; DNA binding site 748280011588 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 748280011589 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 748280011590 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 748280011591 putative substrate translocation pore; other site 748280011592 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 748280011593 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 748280011594 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 748280011595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 748280011596 putative substrate translocation pore; other site 748280011597 Transcriptional regulator [Transcription]; Region: LysR; COG0583 748280011598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280011599 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 748280011600 dimerization interface [polypeptide binding]; other site 748280011601 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 748280011602 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 748280011603 putative substrate translocation pore; other site 748280011604 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 748280011605 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 748280011606 active site 748280011607 catalytic tetrad [active] 748280011608 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 748280011609 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 748280011610 non-specific DNA binding site [nucleotide binding]; other site 748280011611 salt bridge; other site 748280011612 sequence-specific DNA binding site [nucleotide binding]; other site 748280011613 Cupin domain; Region: Cupin_2; pfam07883 748280011614 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 748280011615 B3/4 domain; Region: B3_4; pfam03483 748280011616 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280011617 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 748280011618 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 748280011619 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 748280011620 glutaminase active site [active] 748280011621 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 748280011622 dimer interface [polypeptide binding]; other site 748280011623 active site 748280011624 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 748280011625 dimer interface [polypeptide binding]; other site 748280011626 active site 748280011627 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 748280011628 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 748280011629 Substrate binding site; other site 748280011630 Mg++ binding site; other site 748280011631 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 748280011632 active site 748280011633 substrate binding site [chemical binding]; other site 748280011634 CoA binding site [chemical binding]; other site 748280011635 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 748280011636 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 748280011637 gamma subunit interface [polypeptide binding]; other site 748280011638 epsilon subunit interface [polypeptide binding]; other site 748280011639 LBP interface [polypeptide binding]; other site 748280011640 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 748280011641 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 748280011642 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 748280011643 alpha subunit interaction interface [polypeptide binding]; other site 748280011644 Walker A motif; other site 748280011645 ATP binding site [chemical binding]; other site 748280011646 Walker B motif; other site 748280011647 inhibitor binding site; inhibition site 748280011648 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 748280011649 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 748280011650 core domain interface [polypeptide binding]; other site 748280011651 delta subunit interface [polypeptide binding]; other site 748280011652 epsilon subunit interface [polypeptide binding]; other site 748280011653 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 748280011654 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 748280011655 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 748280011656 beta subunit interaction interface [polypeptide binding]; other site 748280011657 Walker A motif; other site 748280011658 ATP binding site [chemical binding]; other site 748280011659 Walker B motif; other site 748280011660 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 748280011661 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 748280011662 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 748280011663 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 748280011664 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 748280011665 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 748280011666 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 748280011667 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 748280011668 ATP synthase I chain; Region: ATP_synt_I; cl09170 748280011669 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 748280011670 ParB-like nuclease domain; Region: ParBc; pfam02195 748280011671 KorB domain; Region: KorB; pfam08535 748280011672 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 748280011673 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 748280011674 P-loop; other site 748280011675 Magnesium ion binding site [ion binding]; other site 748280011676 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 748280011677 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 748280011678 Magnesium ion binding site [ion binding]; other site 748280011679 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 748280011680 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 748280011681 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 748280011682 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 748280011683 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 748280011684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 748280011685 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 748280011686 homodimer interaction site [polypeptide binding]; other site 748280011687 cofactor binding site; other site 748280011688 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 748280011689 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 748280011690 BON domain; Region: BON; pfam04972 748280011691 BON domain; Region: BON; pfam04972 748280011692 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 748280011693 dimer interface [polypeptide binding]; other site 748280011694 active site 748280011695 hypothetical protein; Reviewed; Region: PRK12497 748280011696 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 748280011697 putative ligand binding site [chemical binding]; other site 748280011698 Predicted methyltransferases [General function prediction only]; Region: COG0313 748280011699 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 748280011700 putative SAM binding site [chemical binding]; other site 748280011701 putative homodimer interface [polypeptide binding]; other site 748280011702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 748280011703 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 748280011704 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 748280011705 dimer interface [polypeptide binding]; other site 748280011706 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 748280011707 MgtC family; Region: MgtC; pfam02308 748280011708 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 748280011709 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 748280011710 active site 748280011711 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 748280011712 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 748280011713 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280011714 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011715 metal binding site [ion binding]; metal-binding site 748280011716 active site 748280011717 I-site; other site 748280011718 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 748280011719 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011720 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011721 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011722 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011723 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011724 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011725 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011726 VCBS repeat; Region: VCBS_repeat; TIGR01965 748280011727 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 748280011728 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280011729 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 748280011730 DNA binding residues [nucleotide binding] 748280011731 dimerization interface [polypeptide binding]; other site 748280011732 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 748280011733 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 748280011734 HlyD family secretion protein; Region: HlyD_3; pfam13437 748280011735 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 748280011736 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 748280011737 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 748280011738 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 748280011739 Walker A/P-loop; other site 748280011740 ATP binding site [chemical binding]; other site 748280011741 Q-loop/lid; other site 748280011742 ABC transporter signature motif; other site 748280011743 Walker B; other site 748280011744 D-loop; other site 748280011745 H-loop/switch region; other site 748280011746 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 748280011747 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 748280011748 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 748280011749 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 748280011750 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 748280011751 nucleotide binding site/active site [active] 748280011752 HIT family signature motif; other site 748280011753 catalytic residue [active] 748280011754 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 748280011755 metal binding site [ion binding]; metal-binding site 748280011756 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 748280011757 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 748280011758 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 748280011759 substrate binding site [chemical binding]; other site 748280011760 glutamase interaction surface [polypeptide binding]; other site 748280011761 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 748280011762 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 748280011763 catalytic residues [active] 748280011764 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 748280011765 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 748280011766 putative active site [active] 748280011767 oxyanion strand; other site 748280011768 catalytic triad [active] 748280011769 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 748280011770 putative active site pocket [active] 748280011771 4-fold oligomerization interface [polypeptide binding]; other site 748280011772 metal binding residues [ion binding]; metal-binding site 748280011773 3-fold/trimer interface [polypeptide binding]; other site 748280011774 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 748280011775 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 748280011776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280011777 homodimer interface [polypeptide binding]; other site 748280011778 catalytic residue [active] 748280011779 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 748280011780 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 748280011781 NAD binding site [chemical binding]; other site 748280011782 dimerization interface [polypeptide binding]; other site 748280011783 product binding site; other site 748280011784 substrate binding site [chemical binding]; other site 748280011785 zinc binding site [ion binding]; other site 748280011786 catalytic residues [active] 748280011787 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 748280011788 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 748280011789 Flagellar regulator YcgR; Region: YcgR; pfam07317 748280011790 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 748280011791 PilZ domain; Region: PilZ; pfam07238 748280011792 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 748280011793 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 748280011794 Cu(I) binding site [ion binding]; other site 748280011795 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 748280011796 UbiA prenyltransferase family; Region: UbiA; pfam01040 748280011797 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 748280011798 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 748280011799 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 748280011800 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 748280011801 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 748280011802 Subunit III/VIIa interface [polypeptide binding]; other site 748280011803 Phospholipid binding site [chemical binding]; other site 748280011804 Subunit I/III interface [polypeptide binding]; other site 748280011805 Subunit III/VIb interface [polypeptide binding]; other site 748280011806 Subunit III/VIa interface; other site 748280011807 Subunit III/Vb interface [polypeptide binding]; other site 748280011808 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 748280011809 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 748280011810 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 748280011811 Subunit I/III interface [polypeptide binding]; other site 748280011812 D-pathway; other site 748280011813 Subunit I/VIIc interface [polypeptide binding]; other site 748280011814 Subunit I/IV interface [polypeptide binding]; other site 748280011815 Subunit I/II interface [polypeptide binding]; other site 748280011816 Low-spin heme (heme a) binding site [chemical binding]; other site 748280011817 Subunit I/VIIa interface [polypeptide binding]; other site 748280011818 Subunit I/VIa interface [polypeptide binding]; other site 748280011819 Dimer interface; other site 748280011820 Putative water exit pathway; other site 748280011821 Binuclear center (heme a3/CuB) [ion binding]; other site 748280011822 K-pathway; other site 748280011823 Subunit I/Vb interface [polypeptide binding]; other site 748280011824 Putative proton exit pathway; other site 748280011825 Subunit I/VIb interface; other site 748280011826 Subunit I/VIc interface [polypeptide binding]; other site 748280011827 Electron transfer pathway; other site 748280011828 Subunit I/VIIIb interface [polypeptide binding]; other site 748280011829 Subunit I/VIIb interface [polypeptide binding]; other site 748280011830 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 748280011831 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 748280011832 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 748280011833 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 748280011834 Cytochrome c; Region: Cytochrom_C; pfam00034 748280011835 AAA domain; Region: AAA_26; pfam13500 748280011836 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 748280011837 2-isopropylmalate synthase; Validated; Region: PRK00915 748280011838 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 748280011839 active site 748280011840 catalytic residues [active] 748280011841 metal binding site [ion binding]; metal-binding site 748280011842 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 748280011843 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 748280011844 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 748280011845 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 748280011846 ketol-acid reductoisomerase; Provisional; Region: PRK05479 748280011847 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 748280011848 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 748280011849 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 748280011850 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 748280011851 putative valine binding site [chemical binding]; other site 748280011852 dimer interface [polypeptide binding]; other site 748280011853 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 748280011854 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 748280011855 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 748280011856 PYR/PP interface [polypeptide binding]; other site 748280011857 dimer interface [polypeptide binding]; other site 748280011858 TPP binding site [chemical binding]; other site 748280011859 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 748280011860 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 748280011861 TPP-binding site [chemical binding]; other site 748280011862 dimer interface [polypeptide binding]; other site 748280011863 RDD family; Region: RDD; pfam06271 748280011864 guanine deaminase; Provisional; Region: PRK09228 748280011865 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 748280011866 active site 748280011867 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 748280011868 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 748280011869 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280011870 catalytic residue [active] 748280011871 prolyl-tRNA synthetase; Provisional; Region: PRK09194 748280011872 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 748280011873 dimer interface [polypeptide binding]; other site 748280011874 motif 1; other site 748280011875 active site 748280011876 motif 2; other site 748280011877 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 748280011878 putative deacylase active site [active] 748280011879 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 748280011880 active site 748280011881 motif 3; other site 748280011882 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 748280011883 anticodon binding site; other site 748280011884 K+ potassium transporter; Region: K_trans; cl15781 748280011885 potassium uptake protein; Region: kup; TIGR00794 748280011886 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 748280011887 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280011888 Coenzyme A binding pocket [chemical binding]; other site 748280011889 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 748280011890 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 748280011891 substrate binding site [chemical binding]; other site 748280011892 amidase catalytic site [active] 748280011893 Zn binding residues [ion binding]; other site 748280011894 Hemerythrin-like domain; Region: Hr-like; cd12108 748280011895 Fe binding site [ion binding]; other site 748280011896 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 748280011897 putative active site [active] 748280011898 transaldolase; Provisional; Region: PRK03903 748280011899 catalytic residue [active] 748280011900 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 748280011901 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 748280011902 putative active site [active] 748280011903 heme pocket [chemical binding]; other site 748280011904 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 748280011905 dimer interface [polypeptide binding]; other site 748280011906 phosphorylation site [posttranslational modification] 748280011907 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 748280011908 ATP binding site [chemical binding]; other site 748280011909 Mg2+ binding site [ion binding]; other site 748280011910 G-X-G motif; other site 748280011911 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 748280011912 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 748280011913 active site 748280011914 phosphorylation site [posttranslational modification] 748280011915 intermolecular recognition site; other site 748280011916 dimerization interface [polypeptide binding]; other site 748280011917 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 748280011918 DNA binding site [nucleotide binding] 748280011919 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 748280011920 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 748280011921 putative DNA binding site [nucleotide binding]; other site 748280011922 putative Zn2+ binding site [ion binding]; other site 748280011923 AsnC family; Region: AsnC_trans_reg; pfam01037 748280011924 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 748280011925 EamA-like transporter family; Region: EamA; pfam00892 748280011926 EamA-like transporter family; Region: EamA; pfam00892 748280011927 TolQ protein; Region: tolQ; TIGR02796 748280011928 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 748280011929 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 748280011930 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 748280011931 substrate binding pocket [chemical binding]; other site 748280011932 membrane-bound complex binding site; other site 748280011933 hinge residues; other site 748280011934 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 748280011935 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 748280011936 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 748280011937 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 748280011938 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 748280011939 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 748280011940 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 748280011941 purine monophosphate binding site [chemical binding]; other site 748280011942 dimer interface [polypeptide binding]; other site 748280011943 putative catalytic residues [active] 748280011944 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 748280011945 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 748280011946 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 748280011947 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 748280011948 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 748280011949 FMN binding site [chemical binding]; other site 748280011950 active site 748280011951 catalytic residues [active] 748280011952 substrate binding site [chemical binding]; other site 748280011953 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 748280011954 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 748280011955 PAS domain; Region: PAS_9; pfam13426 748280011956 putative active site [active] 748280011957 heme pocket [chemical binding]; other site 748280011958 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280011959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280011960 metal binding site [ion binding]; metal-binding site 748280011961 active site 748280011962 I-site; other site 748280011963 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 748280011964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 748280011965 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 748280011966 Family of unknown function (DUF490); Region: DUF490; pfam04357 748280011967 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 748280011968 Surface antigen; Region: Bac_surface_Ag; pfam01103 748280011969 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 748280011970 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 748280011971 E3 interaction surface; other site 748280011972 lipoyl attachment site [posttranslational modification]; other site 748280011973 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 748280011974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 748280011975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 748280011976 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 748280011977 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 748280011978 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 748280011979 E3 interaction surface; other site 748280011980 lipoyl attachment site [posttranslational modification]; other site 748280011981 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 748280011982 E3 interaction surface; other site 748280011983 lipoyl attachment site [posttranslational modification]; other site 748280011984 e3 binding domain; Region: E3_binding; pfam02817 748280011985 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 748280011986 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 748280011987 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 748280011988 dimer interface [polypeptide binding]; other site 748280011989 TPP-binding site [chemical binding]; other site 748280011990 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 748280011991 Peptidase family M48; Region: Peptidase_M48; cl12018 748280011992 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 748280011993 Sulfate transporter family; Region: Sulfate_transp; pfam00916 748280011994 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 748280011995 Predicted transporter component [General function prediction only]; Region: COG2391 748280011996 Sulphur transport; Region: Sulf_transp; pfam04143 748280011997 Predicted transporter component [General function prediction only]; Region: COG2391 748280011998 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 748280011999 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 748280012000 dimerization interface [polypeptide binding]; other site 748280012001 putative DNA binding site [nucleotide binding]; other site 748280012002 putative Zn2+ binding site [ion binding]; other site 748280012003 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 748280012004 MarR family; Region: MarR_2; cl17246 748280012005 Transcriptional regulators [Transcription]; Region: MarR; COG1846 748280012006 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 748280012007 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 748280012008 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 748280012009 LamB/YcsF family protein; Provisional; Region: PRK05406 748280012010 hypothetical protein; Provisional; Region: PRK05463 748280012011 benzoate transport; Region: 2A0115; TIGR00895 748280012012 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 748280012013 putative substrate translocation pore; other site 748280012014 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 748280012015 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 748280012016 carboxyltransferase (CT) interaction site; other site 748280012017 biotinylation site [posttranslational modification]; other site 748280012018 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 748280012019 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 748280012020 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 748280012021 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 748280012022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 748280012023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280012024 Coenzyme A binding pocket [chemical binding]; other site 748280012025 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 748280012026 active site clefts [active] 748280012027 zinc binding site [ion binding]; other site 748280012028 dimer interface [polypeptide binding]; other site 748280012029 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 748280012030 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 748280012031 active site 748280012032 (T/H)XGH motif; other site 748280012033 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 748280012034 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 748280012035 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 748280012036 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 748280012037 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 748280012038 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 748280012039 N-acetyl-D-glucosamine binding site [chemical binding]; other site 748280012040 catalytic residue [active] 748280012041 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 748280012042 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 748280012043 Lipopolysaccharide-assembly; Region: LptE; cl01125 748280012044 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 748280012045 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 748280012046 HIGH motif; other site 748280012047 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 748280012048 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280012049 active site 748280012050 KMSKS motif; other site 748280012051 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 748280012052 tRNA binding surface [nucleotide binding]; other site 748280012053 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 748280012054 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 748280012055 TAP-like protein; Region: Abhydrolase_4; pfam08386 748280012056 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280012057 EVE domain; Region: EVE; cl00728 748280012058 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 748280012059 Cell division protein ZapA; Region: ZapA; pfam05164 748280012060 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 748280012061 homotrimer interface [polypeptide binding]; other site 748280012062 Walker A motif; other site 748280012063 GTP binding site [chemical binding]; other site 748280012064 Walker B motif; other site 748280012065 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 748280012066 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 748280012067 putative dimer interface [polypeptide binding]; other site 748280012068 active site pocket [active] 748280012069 putative cataytic base [active] 748280012070 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 748280012071 catalytic core [active] 748280012072 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 748280012073 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 748280012074 agmatinase; Region: agmatinase; TIGR01230 748280012075 oligomer interface [polypeptide binding]; other site 748280012076 putative active site [active] 748280012077 Mn binding site [ion binding]; other site 748280012078 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 748280012079 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 748280012080 Sporulation related domain; Region: SPOR; cl10051 748280012081 Type III pantothenate kinase; Region: Pan_kinase; cl17198 748280012082 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 748280012083 Biotin operon repressor [Transcription]; Region: BirA; COG1654 748280012084 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 748280012085 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 748280012086 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 748280012087 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 748280012088 active site 748280012089 HIGH motif; other site 748280012090 nucleotide binding site [chemical binding]; other site 748280012091 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 748280012092 heterotetramer interface [polypeptide binding]; other site 748280012093 active site pocket [active] 748280012094 cleavage site 748280012095 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 748280012096 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 748280012097 ATP binding site [chemical binding]; other site 748280012098 putative Mg++ binding site [ion binding]; other site 748280012099 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 748280012100 nucleotide binding region [chemical binding]; other site 748280012101 ATP-binding site [chemical binding]; other site 748280012102 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 748280012103 HRDC domain; Region: HRDC; pfam00570 748280012104 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 748280012105 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 748280012106 P-loop; other site 748280012107 Magnesium ion binding site [ion binding]; other site 748280012108 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 748280012109 Magnesium ion binding site [ion binding]; other site 748280012110 PAS domain S-box; Region: sensory_box; TIGR00229 748280012111 PAS domain; Region: PAS_9; pfam13426 748280012112 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 748280012113 putative active site [active] 748280012114 heme pocket [chemical binding]; other site 748280012115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 748280012116 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 748280012117 dimer interface [polypeptide binding]; other site 748280012118 phosphorylation site [posttranslational modification] 748280012119 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 748280012120 ATP binding site [chemical binding]; other site 748280012121 Mg2+ binding site [ion binding]; other site 748280012122 G-X-G motif; other site 748280012123 Response regulator receiver domain; Region: Response_reg; pfam00072 748280012124 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 748280012125 active site 748280012126 phosphorylation site [posttranslational modification] 748280012127 intermolecular recognition site; other site 748280012128 dimerization interface [polypeptide binding]; other site 748280012129 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 748280012130 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 748280012131 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 748280012132 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 748280012133 Competence protein; Region: Competence; pfam03772 748280012134 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 748280012135 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 748280012136 S-adenosylmethionine binding site [chemical binding]; other site 748280012137 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 748280012138 active site 748280012139 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 748280012140 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 748280012141 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 748280012142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280012143 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 748280012144 substrate binding pocket [chemical binding]; other site 748280012145 dimerization interface [polypeptide binding]; other site 748280012146 SlyX; Region: SlyX; pfam04102 748280012147 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 748280012148 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 748280012149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280012150 homodimer interface [polypeptide binding]; other site 748280012151 catalytic residue [active] 748280012152 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 748280012153 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 748280012154 trimer interface [polypeptide binding]; other site 748280012155 active site 748280012156 substrate binding site [chemical binding]; other site 748280012157 CoA binding site [chemical binding]; other site 748280012158 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 748280012159 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 748280012160 Walker A/P-loop; other site 748280012161 ATP binding site [chemical binding]; other site 748280012162 Q-loop/lid; other site 748280012163 ABC transporter signature motif; other site 748280012164 Walker B; other site 748280012165 D-loop; other site 748280012166 H-loop/switch region; other site 748280012167 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 748280012168 Permease; Region: Permease; pfam02405 748280012169 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 748280012170 mce related protein; Region: MCE; pfam02470 748280012171 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 748280012172 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 748280012173 anti sigma factor interaction site; other site 748280012174 regulatory phosphorylation site [posttranslational modification]; other site 748280012175 VacJ like lipoprotein; Region: VacJ; cl01073 748280012176 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 748280012177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 748280012178 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 748280012179 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 748280012180 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 748280012181 Walker A/P-loop; other site 748280012182 ATP binding site [chemical binding]; other site 748280012183 Q-loop/lid; other site 748280012184 ABC transporter signature motif; other site 748280012185 Walker B; other site 748280012186 D-loop; other site 748280012187 H-loop/switch region; other site 748280012188 ABC-2 type transporter; Region: ABC2_membrane; cl17235 748280012189 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 748280012190 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 748280012191 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 748280012192 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 748280012193 hinge; other site 748280012194 active site 748280012195 potential protein location (hypothetical protein NH8B_3958 [Pseudogulbenkiania sp. NH8B]) that overlaps RNA (5S ribosomal RNA) 748280012196 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 748280012197 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 748280012198 Walker A motif; other site 748280012199 ATP binding site [chemical binding]; other site 748280012200 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 748280012201 Walker B motif; other site 748280012202 arginine finger; other site 748280012203 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 748280012204 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 748280012205 active site 748280012206 HslU subunit interaction site [polypeptide binding]; other site 748280012207 Protein of unknown function (DUF465); Region: DUF465; cl01070 748280012208 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 748280012209 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 748280012210 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 748280012211 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 748280012212 TolR protein; Region: tolR; TIGR02801 748280012213 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 748280012214 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 748280012215 N-terminal plug; other site 748280012216 ligand-binding site [chemical binding]; other site 748280012217 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 748280012218 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 748280012219 PAS domain; Region: PAS_9; pfam13426 748280012220 putative active site [active] 748280012221 heme pocket [chemical binding]; other site 748280012222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280012223 dimer interface [polypeptide binding]; other site 748280012224 putative CheW interface [polypeptide binding]; other site 748280012225 Cache domain; Region: Cache_2; cl07034 748280012226 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280012227 dimer interface [polypeptide binding]; other site 748280012228 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 748280012229 putative CheW interface [polypeptide binding]; other site 748280012230 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 748280012231 PAS domain; Region: PAS_9; pfam13426 748280012232 putative active site [active] 748280012233 heme pocket [chemical binding]; other site 748280012234 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 748280012235 PAS domain; Region: PAS_9; pfam13426 748280012236 putative active site [active] 748280012237 heme pocket [chemical binding]; other site 748280012238 PAS fold; Region: PAS_7; pfam12860 748280012239 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 748280012240 dimer interface [polypeptide binding]; other site 748280012241 phosphorylation site [posttranslational modification] 748280012242 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 748280012243 ATP binding site [chemical binding]; other site 748280012244 Mg2+ binding site [ion binding]; other site 748280012245 G-X-G motif; other site 748280012246 Response regulator receiver domain; Region: Response_reg; pfam00072 748280012247 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 748280012248 active site 748280012249 phosphorylation site [posttranslational modification] 748280012250 intermolecular recognition site; other site 748280012251 dimerization interface [polypeptide binding]; other site 748280012252 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 748280012253 putative binding surface; other site 748280012254 active site 748280012255 Response regulator receiver domain; Region: Response_reg; pfam00072 748280012256 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 748280012257 active site 748280012258 phosphorylation site [posttranslational modification] 748280012259 intermolecular recognition site; other site 748280012260 dimerization interface [polypeptide binding]; other site 748280012261 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 748280012262 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 748280012263 active site 748280012264 phosphorylation site [posttranslational modification] 748280012265 intermolecular recognition site; other site 748280012266 dimerization interface [polypeptide binding]; other site 748280012267 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 748280012268 Walker A motif; other site 748280012269 ATP binding site [chemical binding]; other site 748280012270 Walker B motif; other site 748280012271 arginine finger; other site 748280012272 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 748280012273 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 748280012274 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 748280012275 dimer interface [polypeptide binding]; other site 748280012276 phosphorylation site [posttranslational modification] 748280012277 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 748280012278 ATP binding site [chemical binding]; other site 748280012279 Mg2+ binding site [ion binding]; other site 748280012280 G-X-G motif; other site 748280012281 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 748280012282 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 748280012283 CAP-like domain; other site 748280012284 active site 748280012285 primary dimer interface [polypeptide binding]; other site 748280012286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280012287 Coenzyme A binding pocket [chemical binding]; other site 748280012288 transketolase; Reviewed; Region: PRK12753 748280012289 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 748280012290 TPP-binding site [chemical binding]; other site 748280012291 dimer interface [polypeptide binding]; other site 748280012292 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 748280012293 PYR/PP interface [polypeptide binding]; other site 748280012294 dimer interface [polypeptide binding]; other site 748280012295 TPP binding site [chemical binding]; other site 748280012296 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 748280012297 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 748280012298 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 748280012299 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 748280012300 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 748280012301 Phosphoglycerate kinase; Region: PGK; pfam00162 748280012302 substrate binding site [chemical binding]; other site 748280012303 hinge regions; other site 748280012304 ADP binding site [chemical binding]; other site 748280012305 catalytic site [active] 748280012306 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 748280012307 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 748280012308 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 748280012309 intersubunit interface [polypeptide binding]; other site 748280012310 active site 748280012311 zinc binding site [ion binding]; other site 748280012312 Na+ binding site [ion binding]; other site 748280012313 PAS domain; Region: PAS_9; pfam13426 748280012314 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 748280012315 active site 748280012316 catalytic site [active] 748280012317 substrate binding site [chemical binding]; other site 748280012318 Response regulator receiver domain; Region: Response_reg; pfam00072 748280012319 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 748280012320 active site 748280012321 phosphorylation site [posttranslational modification] 748280012322 intermolecular recognition site; other site 748280012323 dimerization interface [polypeptide binding]; other site 748280012324 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 748280012325 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 748280012326 dimer interface [polypeptide binding]; other site 748280012327 phosphorylation site [posttranslational modification] 748280012328 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 748280012329 ATP binding site [chemical binding]; other site 748280012330 Mg2+ binding site [ion binding]; other site 748280012331 G-X-G motif; other site 748280012332 HPP family; Region: HPP; pfam04982 748280012333 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 748280012334 FOG: CBS domain [General function prediction only]; Region: COG0517 748280012335 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 748280012336 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 748280012337 MoaE interaction surface [polypeptide binding]; other site 748280012338 MoeB interaction surface [polypeptide binding]; other site 748280012339 thiocarboxylated glycine; other site 748280012340 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 748280012341 MoaE homodimer interface [polypeptide binding]; other site 748280012342 MoaD interaction [polypeptide binding]; other site 748280012343 active site residues [active] 748280012344 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 748280012345 GTP binding site; other site 748280012346 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 748280012347 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 748280012348 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 748280012349 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 748280012350 Cytochrome c; Region: Cytochrom_C; cl11414 748280012351 YGGT family; Region: YGGT; pfam02325 748280012352 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 748280012353 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 748280012354 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 748280012355 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 748280012356 catalytic residue [active] 748280012357 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 748280012358 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 748280012359 Walker A motif; other site 748280012360 ATP binding site [chemical binding]; other site 748280012361 Walker B motif; other site 748280012362 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 748280012363 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 748280012364 Walker A motif; other site 748280012365 ATP binding site [chemical binding]; other site 748280012366 Walker B motif; other site 748280012367 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 748280012368 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 748280012369 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 748280012370 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 748280012371 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 748280012372 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 748280012373 Walker A/P-loop; other site 748280012374 ATP binding site [chemical binding]; other site 748280012375 Q-loop/lid; other site 748280012376 ABC transporter signature motif; other site 748280012377 Walker B; other site 748280012378 D-loop; other site 748280012379 H-loop/switch region; other site 748280012380 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 748280012381 dimer interface [polypeptide binding]; other site 748280012382 conserved gate region; other site 748280012383 putative PBP binding loops; other site 748280012384 ABC-ATPase subunit interface; other site 748280012385 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280012386 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 748280012387 dimer interface [polypeptide binding]; other site 748280012388 conserved gate region; other site 748280012389 putative PBP binding loops; other site 748280012390 ABC-ATPase subunit interface; other site 748280012391 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 748280012392 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 748280012393 substrate binding pocket [chemical binding]; other site 748280012394 membrane-bound complex binding site; other site 748280012395 hinge residues; other site 748280012396 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 748280012397 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 748280012398 Walker A/P-loop; other site 748280012399 ATP binding site [chemical binding]; other site 748280012400 Q-loop/lid; other site 748280012401 ABC transporter signature motif; other site 748280012402 Walker B; other site 748280012403 D-loop; other site 748280012404 H-loop/switch region; other site 748280012405 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 748280012406 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 748280012407 S-adenosylmethionine binding site [chemical binding]; other site 748280012408 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 748280012409 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 748280012410 putative iron binding site [ion binding]; other site 748280012411 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 748280012412 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 748280012413 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280012414 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 748280012415 catalytic residue [active] 748280012416 Cupin domain; Region: Cupin_2; cl17218 748280012417 Cache domain; Region: Cache_1; pfam02743 748280012418 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280012419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280012420 metal binding site [ion binding]; metal-binding site 748280012421 active site 748280012422 I-site; other site 748280012423 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 748280012424 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 748280012425 ATP binding site [chemical binding]; other site 748280012426 putative Mg++ binding site [ion binding]; other site 748280012427 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 748280012428 nucleotide binding region [chemical binding]; other site 748280012429 ATP-binding site [chemical binding]; other site 748280012430 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 748280012431 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 748280012432 inhibitor-cofactor binding pocket; inhibition site 748280012433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280012434 catalytic residue [active] 748280012435 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 748280012436 putative active site [active] 748280012437 putative metal binding residues [ion binding]; other site 748280012438 signature motif; other site 748280012439 putative dimer interface [polypeptide binding]; other site 748280012440 putative phosphate binding site [ion binding]; other site 748280012441 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 748280012442 Protein of unknown function (DUF419); Region: DUF419; cl15265 748280012443 Peptidase family M48; Region: Peptidase_M48; pfam01435 748280012444 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 748280012445 Rubredoxin; Region: Rubredoxin; pfam00301 748280012446 iron binding site [ion binding]; other site 748280012447 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 748280012448 substrate binding site [chemical binding]; other site 748280012449 dimer interface [polypeptide binding]; other site 748280012450 ATP binding site [chemical binding]; other site 748280012451 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 748280012452 thiamine phosphate binding site [chemical binding]; other site 748280012453 active site 748280012454 pyrophosphate binding site [ion binding]; other site 748280012455 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 748280012456 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 748280012457 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 748280012458 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 748280012459 putative active site [active] 748280012460 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 748280012461 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 748280012462 putative metal binding site; other site 748280012463 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 748280012464 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 748280012465 putative NAD(P) binding site [chemical binding]; other site 748280012466 active site 748280012467 putative substrate binding site [chemical binding]; other site 748280012468 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 748280012469 putative active site [active] 748280012470 YdjC motif; other site 748280012471 Mg binding site [ion binding]; other site 748280012472 homodimer interface [polypeptide binding]; other site 748280012473 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 748280012474 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 748280012475 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 748280012476 catalytic residue [active] 748280012477 Protein of unknown function (DUF989); Region: DUF989; pfam06181 748280012478 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 748280012479 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 748280012480 FeS/SAM binding site; other site 748280012481 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 748280012482 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 748280012483 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 748280012484 active site 748280012485 phosphorylation site [posttranslational modification] 748280012486 intermolecular recognition site; other site 748280012487 dimerization interface [polypeptide binding]; other site 748280012488 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 748280012489 DNA binding residues [nucleotide binding] 748280012490 dimerization interface [polypeptide binding]; other site 748280012491 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 748280012492 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 748280012493 S-adenosylmethionine binding site [chemical binding]; other site 748280012494 Domain of unknown function DUF21; Region: DUF21; pfam01595 748280012495 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 748280012496 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 748280012497 Transporter associated domain; Region: CorC_HlyC; smart01091 748280012498 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 748280012499 ligand binding site [chemical binding]; other site 748280012500 active site 748280012501 UGI interface [polypeptide binding]; other site 748280012502 catalytic site [active] 748280012503 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 748280012504 active site residue [active] 748280012505 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 748280012506 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 748280012507 S-adenosylmethionine binding site [chemical binding]; other site 748280012508 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 748280012509 ThiC-associated domain; Region: ThiC-associated; pfam13667 748280012510 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 748280012511 MarR family; Region: MarR_2; pfam12802 748280012512 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 748280012513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280012514 Coenzyme A binding pocket [chemical binding]; other site 748280012515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 748280012516 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 748280012517 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 748280012518 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 748280012519 Peptidase family U32; Region: Peptidase_U32; pfam01136 748280012520 Collagenase; Region: DUF3656; pfam12392 748280012521 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 748280012522 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 748280012523 homodimer interface [polypeptide binding]; other site 748280012524 chemical substrate binding site [chemical binding]; other site 748280012525 oligomer interface [polypeptide binding]; other site 748280012526 metal binding site [ion binding]; metal-binding site 748280012527 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 748280012528 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 748280012529 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 748280012530 Zn2+ binding site [ion binding]; other site 748280012531 Mg2+ binding site [ion binding]; other site 748280012532 Cache domain; Region: Cache_1; pfam02743 748280012533 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 748280012534 dimerization interface [polypeptide binding]; other site 748280012535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 748280012536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280012537 dimer interface [polypeptide binding]; other site 748280012538 putative CheW interface [polypeptide binding]; other site 748280012539 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 748280012540 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 748280012541 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 748280012542 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 748280012543 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 748280012544 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 748280012545 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280012546 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 748280012547 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 748280012548 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 748280012549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 748280012550 Coenzyme A binding pocket [chemical binding]; other site 748280012551 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 748280012552 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 748280012553 dimer interface [polypeptide binding]; other site 748280012554 PYR/PP interface [polypeptide binding]; other site 748280012555 TPP binding site [chemical binding]; other site 748280012556 substrate binding site [chemical binding]; other site 748280012557 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 748280012558 TPP-binding site [chemical binding]; other site 748280012559 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 748280012560 Predicted permeases [General function prediction only]; Region: RarD; COG2962 748280012561 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 748280012562 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 748280012563 active site 748280012564 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 748280012565 RNA methyltransferase, RsmE family; Region: TIGR00046 748280012566 CHASE domain; Region: CHASE; pfam03924 748280012567 PAS domain; Region: PAS_9; pfam13426 748280012568 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 748280012569 putative active site [active] 748280012570 heme pocket [chemical binding]; other site 748280012571 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 748280012572 PAS domain; Region: PAS_9; pfam13426 748280012573 putative active site [active] 748280012574 heme pocket [chemical binding]; other site 748280012575 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280012576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280012577 metal binding site [ion binding]; metal-binding site 748280012578 active site 748280012579 I-site; other site 748280012580 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 748280012581 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 748280012582 DXD motif; other site 748280012583 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 748280012584 active site 748280012585 phosphate binding residues; other site 748280012586 catalytic residues [active] 748280012587 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 748280012588 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 748280012589 Walker A/P-loop; other site 748280012590 ATP binding site [chemical binding]; other site 748280012591 Q-loop/lid; other site 748280012592 ABC transporter signature motif; other site 748280012593 Walker B; other site 748280012594 D-loop; other site 748280012595 H-loop/switch region; other site 748280012596 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280012597 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 748280012598 dimer interface [polypeptide binding]; other site 748280012599 conserved gate region; other site 748280012600 putative PBP binding loops; other site 748280012601 ABC-ATPase subunit interface; other site 748280012602 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 748280012603 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 748280012604 dimer interface [polypeptide binding]; other site 748280012605 conserved gate region; other site 748280012606 putative PBP binding loops; other site 748280012607 ABC-ATPase subunit interface; other site 748280012608 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 748280012609 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 748280012610 substrate binding pocket [chemical binding]; other site 748280012611 membrane-bound complex binding site; other site 748280012612 hinge residues; other site 748280012613 imidazolonepropionase; Validated; Region: PRK09356 748280012614 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 748280012615 active site 748280012616 urocanate hydratase; Provisional; Region: PRK05414 748280012617 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 748280012618 active sites [active] 748280012619 tetramer interface [polypeptide binding]; other site 748280012620 Transcriptional regulators [Transcription]; Region: PurR; COG1609 748280012621 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 748280012622 DNA binding site [nucleotide binding] 748280012623 domain linker motif; other site 748280012624 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 748280012625 putative dimerization interface [polypeptide binding]; other site 748280012626 putative ligand binding site [chemical binding]; other site 748280012627 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 748280012628 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 748280012629 substrate binding site [chemical binding]; other site 748280012630 ATP binding site [chemical binding]; other site 748280012631 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 748280012632 D-galactonate transporter; Region: 2A0114; TIGR00893 748280012633 putative substrate translocation pore; other site 748280012634 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 748280012635 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 748280012636 dimerization interface [polypeptide binding]; other site 748280012637 ligand binding site [chemical binding]; other site 748280012638 NADP binding site [chemical binding]; other site 748280012639 catalytic site [active] 748280012640 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 748280012641 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 748280012642 Transglycosylase; Region: Transgly; cl17702 748280012643 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 748280012644 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 748280012645 trimer interface [polypeptide binding]; other site 748280012646 eyelet of channel; other site 748280012647 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 748280012648 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 748280012649 Walker A/P-loop; other site 748280012650 ATP binding site [chemical binding]; other site 748280012651 Q-loop/lid; other site 748280012652 ABC transporter signature motif; other site 748280012653 Walker B; other site 748280012654 D-loop; other site 748280012655 H-loop/switch region; other site 748280012656 TOBE domain; Region: TOBE_2; pfam08402 748280012657 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 748280012658 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 748280012659 active site 748280012660 catalytic site [active] 748280012661 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 748280012662 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 748280012663 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 748280012664 dimer interface [polypeptide binding]; other site 748280012665 conserved gate region; other site 748280012666 putative PBP binding loops; other site 748280012667 ABC-ATPase subunit interface; other site 748280012668 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 748280012669 dimer interface [polypeptide binding]; other site 748280012670 conserved gate region; other site 748280012671 putative PBP binding loops; other site 748280012672 ABC-ATPase subunit interface; other site 748280012673 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 748280012674 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 748280012675 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 748280012676 dimerization interface [polypeptide binding]; other site 748280012677 PAS domain; Region: PAS; smart00091 748280012678 PAS fold; Region: PAS_7; pfam12860 748280012679 histidine kinase; Provisional; Region: PRK13557 748280012680 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 748280012681 ATP binding site [chemical binding]; other site 748280012682 G-X-G motif; other site 748280012683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 748280012684 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 748280012685 active site 748280012686 phosphorylation site [posttranslational modification] 748280012687 intermolecular recognition site; other site 748280012688 dimerization interface [polypeptide binding]; other site 748280012689 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 748280012690 DNA binding site [nucleotide binding] 748280012691 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 748280012692 hydroxyglutarate oxidase; Provisional; Region: PRK11728 748280012693 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 748280012694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 748280012695 DNA-binding site [nucleotide binding]; DNA binding site 748280012696 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 748280012697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 748280012698 homodimer interface [polypeptide binding]; other site 748280012699 catalytic residue [active] 748280012700 Benzoate membrane transport protein; Region: BenE; pfam03594 748280012701 benzoate transporter; Region: benE; TIGR00843 748280012702 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 748280012703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 748280012704 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 748280012705 dimerization interface [polypeptide binding]; other site 748280012706 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 748280012707 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 748280012708 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 748280012709 dimerization interface [polypeptide binding]; other site 748280012710 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 748280012711 dimer interface [polypeptide binding]; other site 748280012712 putative CheW interface [polypeptide binding]; other site 748280012713 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 748280012714 proline aminopeptidase P II; Provisional; Region: PRK10879 748280012715 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 748280012716 active site 748280012717 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 748280012718 Mechanosensitive ion channel; Region: MS_channel; pfam00924 748280012719 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 748280012720 NodB motif; other site 748280012721 putative active site [active] 748280012722 putative catalytic site [active] 748280012723 putative Zn binding site [ion binding]; other site 748280012724 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 748280012725 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 748280012726 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 748280012727 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 748280012728 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 748280012729 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280012730 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 748280012731 putative ADP-binding pocket [chemical binding]; other site 748280012732 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 748280012733 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 748280012734 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 748280012735 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 748280012736 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 748280012737 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 748280012738 ligand binding site [chemical binding]; other site 748280012739 homodimer interface [polypeptide binding]; other site 748280012740 NAD(P) binding site [chemical binding]; other site 748280012741 trimer interface B [polypeptide binding]; other site 748280012742 trimer interface A [polypeptide binding]; other site 748280012743 hypothetical protein; Provisional; Region: PRK10621 748280012744 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 748280012745 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 748280012746 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 748280012747 putative active site [active] 748280012748 catalytic site [active] 748280012749 putative metal binding site [ion binding]; other site 748280012750 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 748280012751 hydroxyglutarate oxidase; Provisional; Region: PRK11728 748280012752 PAS domain S-box; Region: sensory_box; TIGR00229 748280012753 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 748280012754 putative active site [active] 748280012755 heme pocket [chemical binding]; other site 748280012756 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 748280012757 PAS domain; Region: PAS_9; pfam13426 748280012758 putative active site [active] 748280012759 heme pocket [chemical binding]; other site 748280012760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 748280012761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 748280012762 metal binding site [ion binding]; metal-binding site 748280012763 active site 748280012764 I-site; other site 748280012765 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 748280012766 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 748280012767 trmE is a tRNA modification GTPase; Region: trmE; cd04164 748280012768 G1 box; other site 748280012769 GTP/Mg2+ binding site [chemical binding]; other site 748280012770 Switch I region; other site 748280012771 G2 box; other site 748280012772 Switch II region; other site 748280012773 G3 box; other site 748280012774 G4 box; other site 748280012775 G5 box; other site 748280012776 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 748280012777 membrane protein insertase; Provisional; Region: PRK01318 748280012778 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 748280012779 Haemolytic domain; Region: Haemolytic; pfam01809 748280012780 Ribonuclease P; Region: Ribonuclease_P; cl00457 748280012781 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399