-- dump date 20140619_121325 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1380908000001 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1380908000002 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1380908000003 putative NAD(P) binding site [chemical binding]; other site 1380908000004 dimer interface [polypeptide binding]; other site 1380908000005 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 1380908000006 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908000007 Walker A/P-loop; other site 1380908000008 ATP binding site [chemical binding]; other site 1380908000009 Q-loop/lid; other site 1380908000010 ABC transporter signature motif; other site 1380908000011 Walker B; other site 1380908000012 D-loop; other site 1380908000013 H-loop/switch region; other site 1380908000014 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1380908000015 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908000016 ABC-ATPase subunit interface; other site 1380908000017 dimer interface [polypeptide binding]; other site 1380908000018 putative PBP binding regions; other site 1380908000019 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1380908000020 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908000021 dimer interface [polypeptide binding]; other site 1380908000022 ABC-ATPase subunit interface; other site 1380908000023 putative PBP binding regions; other site 1380908000024 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1380908000025 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1380908000026 siderophore binding site; other site 1380908000027 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1380908000028 Secretin and TonB N terminus short domain; Region: STN; smart00965 1380908000029 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 1380908000030 N-terminal plug; other site 1380908000031 ligand-binding site [chemical binding]; other site 1380908000032 fec operon regulator FecR; Reviewed; Region: PRK09774 1380908000033 FecR protein; Region: FecR; pfam04773 1380908000034 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1380908000035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1380908000036 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 1380908000037 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1380908000038 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1380908000039 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; cl17736 1380908000040 active site 1380908000041 phosphorylation site [posttranslational modification] 1380908000042 dimerization interface [polypeptide binding]; other site 1380908000043 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 1380908000044 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1380908000045 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 1380908000046 dimer interface [polypeptide binding]; other site 1380908000047 conserved gate region; other site 1380908000048 putative PBP binding loops; other site 1380908000049 ABC-ATPase subunit interface; other site 1380908000050 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908000051 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1380908000052 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1380908000053 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1380908000054 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908000055 Walker A/P-loop; other site 1380908000056 ATP binding site [chemical binding]; other site 1380908000057 Q-loop/lid; other site 1380908000058 ABC transporter signature motif; other site 1380908000059 Walker B; other site 1380908000060 D-loop; other site 1380908000061 H-loop/switch region; other site 1380908000062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908000063 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908000064 Walker A/P-loop; other site 1380908000065 ATP binding site [chemical binding]; other site 1380908000066 Q-loop/lid; other site 1380908000067 ABC transporter signature motif; other site 1380908000068 Walker B; other site 1380908000069 D-loop; other site 1380908000070 H-loop/switch region; other site 1380908000071 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1380908000072 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1380908000073 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1380908000074 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1380908000075 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1380908000076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1380908000077 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1380908000078 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1380908000079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1380908000080 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1380908000081 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 1380908000082 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 1380908000083 FeS/SAM binding site; other site 1380908000084 IS2 repressor TnpA; Reviewed; Region: PRK09413 1380908000085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908000086 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1380908000087 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1380908000088 DNA binding residues [nucleotide binding] 1380908000089 dimer interface [polypeptide binding]; other site 1380908000090 mercury binding site [ion binding]; other site 1380908000091 putative mercuric transport protein; Provisional; Region: PRK13751 1380908000092 putative mercury transport protein MerC; Provisional; Region: PRK13755 1380908000093 putative mercuric reductase; Provisional; Region: PRK13748 1380908000094 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 1380908000095 metal-binding site [ion binding] 1380908000096 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908000097 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1380908000098 transcriptional regulator MerD; Provisional; Region: PRK13749 1380908000099 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 1380908000100 DNA binding residues [nucleotide binding] 1380908000101 putative dimer interface [polypeptide binding]; other site 1380908000102 putative mercury resistance protein; Provisional; Region: PRK13747 1380908000103 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 1380908000104 Bacterial TniB protein; Region: TniB; pfam05621 1380908000105 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1380908000106 chloramphenicol acetyltransferase; Provisional; Region: PRK13757 1380908000107 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 1380908000108 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1380908000109 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1380908000110 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1380908000111 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1380908000112 catalytic residues [active] 1380908000113 catalytic nucleophile [active] 1380908000114 Presynaptic Site I dimer interface [polypeptide binding]; other site 1380908000115 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1380908000116 Synaptic Flat tetramer interface [polypeptide binding]; other site 1380908000117 Synaptic Site I dimer interface [polypeptide binding]; other site 1380908000118 DNA binding site [nucleotide binding] 1380908000119 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 1380908000120 DNA-binding interface [nucleotide binding]; DNA binding site 1380908000121 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 1380908000122 PAS fold; Region: PAS_3; pfam08447 1380908000123 putative active site [active] 1380908000124 heme pocket [chemical binding]; other site 1380908000125 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 1380908000126 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1380908000127 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1380908000128 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1380908000129 ParB-like nuclease domain; Region: ParBc; pfam02195 1380908000130 ParB family; Region: ParB; pfam08775 1380908000131 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1380908000132 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 1380908000133 P-loop; other site 1380908000134 Magnesium ion binding site [ion binding]; other site 1380908000135 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 1380908000136 Magnesium ion binding site [ion binding]; other site 1380908000137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1380908000138 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1380908000139 Integrase core domain; Region: rve; pfam00665 1380908000140 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' 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; Region: MPH2' cd05152 1380908000141 Phosphotransferase enzyme family; Region: APH; pfam01636 1380908000142 putative active site [active] 1380908000143 putative substrate binding site [chemical binding]; other site 1380908000144 ATP binding site [chemical binding]; other site 1380908000145 H+ Antiporter protein; Region: 2A0121; TIGR00900 1380908000146 integrase/recombinase; Provisional; Region: PRK15417 1380908000147 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1380908000148 Int/Topo IB signature motif; other site 1380908000149 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1380908000150 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 1380908000151 folate binding site [chemical binding]; other site 1380908000152 NADP+ binding site [chemical binding]; other site 1380908000153 aminoglycoside resistance protein; Provisional; Region: PRK13746 1380908000154 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1380908000155 active site 1380908000156 NTP binding site [chemical binding]; other site 1380908000157 metal binding triad [ion binding]; metal-binding site 1380908000158 antibiotic binding site [chemical binding]; other site 1380908000159 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1380908000160 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 1380908000161 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1380908000162 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1380908000163 Chromate transporter; Region: Chromate_transp; pfam02417 1380908000164 Predicted transcriptional regulators [Transcription]; Region: COG1695 1380908000165 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1380908000166 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1380908000167 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908000168 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1380908000169 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1380908000170 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1380908000171 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1380908000172 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1380908000173 catalytic residues [active] 1380908000174 catalytic nucleophile [active] 1380908000175 Presynaptic Site I dimer interface [polypeptide binding]; other site 1380908000176 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1380908000177 Synaptic Flat tetramer interface [polypeptide binding]; other site 1380908000178 Synaptic Site I dimer interface [polypeptide binding]; other site 1380908000179 DNA binding site [nucleotide binding] 1380908000180 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 1380908000181 Winged helix-turn helix; Region: HTH_29; pfam13551 1380908000182 Integrase core domain; Region: rve; pfam00665 1380908000183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1380908000184 Integrase core domain; Region: rve_3; pfam13683 1380908000185 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1380908000186 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1380908000187 Antirestriction protein; Region: Antirestrict; pfam03230 1380908000188 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1380908000189 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1380908000190 beta-lactamase TEM; Provisional; Region: PRK15442 1380908000191 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1380908000192 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1380908000193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1380908000194 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1380908000195 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1380908000196 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1380908000197 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1380908000198 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1380908000199 active site 1380908000200 NTP binding site [chemical binding]; other site 1380908000201 metal binding triad [ion binding]; metal-binding site 1380908000202 antibiotic binding site [chemical binding]; other site 1380908000203 Uncharacterized conserved protein [Function unknown]; Region: COG2361 1380908000204 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1380908000205 PLD-like domain; Region: PLDc_2; pfam13091 1380908000206 putative active site [active] 1380908000207 catalytic site [active] 1380908000208 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1380908000209 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 1380908000210 Walker A motif; other site 1380908000211 ATP binding site [chemical binding]; other site 1380908000212 Walker B motif; other site 1380908000213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1380908000214 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1380908000215 Integrase core domain; Region: rve; pfam00665 1380908000216 beta-lactamase TEM; Provisional; Region: PRK15442 1380908000217 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1380908000218 Ribosomal RNA methyltransferase (FmrO); Region: FmrO; pfam07091 1380908000219 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1380908000220 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1380908000221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908000222 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1380908000223 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1380908000224 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1380908000225 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 1380908000226 putative substrate translocation pore; other site 1380908000227 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1380908000228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1380908000229 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1380908000230 Integrase core domain; Region: rve; pfam00665 1380908000231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1380908000232 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1380908000233 Integrase core domain; Region: rve; pfam00665 1380908000234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908000235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908000236 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 1380908000237 dimerization interface [polypeptide binding]; other site 1380908000238 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1380908000239 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 1380908000240 homodimer interface [polypeptide binding]; other site 1380908000241 ligand binding site [chemical binding]; other site 1380908000242 NAD binding site [chemical binding]; other site 1380908000243 catalytic site [active] 1380908000244 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1380908000245 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 1380908000246 dimer interface [polypeptide binding]; other site 1380908000247 conserved gate region; other site 1380908000248 putative PBP binding loops; other site 1380908000249 ABC-ATPase subunit interface; other site 1380908000250 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1380908000251 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 1380908000252 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1380908000253 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1380908000254 Walker A/P-loop; other site 1380908000255 ATP binding site [chemical binding]; other site 1380908000256 Q-loop/lid; other site 1380908000257 ABC transporter signature motif; other site 1380908000258 Walker B; other site 1380908000259 D-loop; other site 1380908000260 H-loop/switch region; other site 1380908000261 Transposase domain (DUF772); Region: DUF772; pfam05598 1380908000262 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1380908000263 Transposase domain (DUF772); Region: DUF772; pfam05598 1380908000264 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1380908000265 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1380908000266 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1380908000267 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1380908000268 Clp amino terminal domain; Region: Clp_N; pfam02861 1380908000269 Clp amino terminal domain; Region: Clp_N; pfam02861 1380908000270 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 1380908000271 Walker A motif; other site 1380908000272 ATP binding site [chemical binding]; other site 1380908000273 Walker B motif; other site 1380908000274 arginine finger; other site 1380908000275 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 1380908000276 Walker A motif; other site 1380908000277 ATP binding site [chemical binding]; other site 1380908000278 Walker B motif; other site 1380908000279 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1380908000280 Peptidase family M48; Region: Peptidase_M48; cl12018 1380908000281 HTH-like domain; Region: HTH_21; pfam13276 1380908000282 Integrase core domain; Region: rve; pfam00665 1380908000283 Integrase core domain; Region: rve_2; pfam13333 1380908000284 Winged helix-turn helix; Region: HTH_29; pfam13551 1380908000285 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908000286 Homeodomain-like domain; Region: HTH_32; pfam13565 1380908000287 Integrase core domain; Region: rve; pfam00665 1380908000288 Integrase core domain; Region: rve_3; cl15866 1380908000289 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1380908000290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1380908000291 gene expression modulator; Provisional; Region: PRK10945 1380908000292 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 1380908000293 dimerization interface [polypeptide binding]; other site 1380908000294 putative DNA binding site [nucleotide binding]; other site 1380908000295 putative Zn2+ binding site [ion binding]; other site 1380908000296 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1380908000297 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 1380908000298 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 1380908000299 P loop; other site 1380908000300 Nucleotide binding site [chemical binding]; other site 1380908000301 DTAP/Switch II; other site 1380908000302 Switch I; other site 1380908000303 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 1380908000304 P loop; other site 1380908000305 Nucleotide binding site [chemical binding]; other site 1380908000306 DTAP/Switch II; other site 1380908000307 Switch I; other site 1380908000308 arsenical pump membrane protein; Provisional; Region: PRK15445 1380908000309 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1380908000310 transmembrane helices; other site 1380908000311 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 1380908000312 ArsC family; Region: ArsC; pfam03960 1380908000313 catalytic residues [active] 1380908000314 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1380908000315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908000316 Coenzyme A binding pocket [chemical binding]; other site 1380908000317 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 1380908000318 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 1380908000319 P loop; other site 1380908000320 Nucleotide binding site [chemical binding]; other site 1380908000321 DTAP/Switch II; other site 1380908000322 Switch I; other site 1380908000323 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 1380908000324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1380908000325 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 1380908000326 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 1380908000327 DNA binding residues [nucleotide binding] 1380908000328 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1380908000329 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1380908000330 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 1380908000331 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1380908000332 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908000333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908000334 Coenzyme A binding pocket [chemical binding]; other site 1380908000335 Homeodomain-like domain; Region: HTH_23; pfam13384 1380908000336 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1380908000337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1380908000338 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1380908000339 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1380908000340 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 1380908000341 dimerization interface [polypeptide binding]; other site 1380908000342 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 1380908000343 dimer interface [polypeptide binding]; other site 1380908000344 phosphorylation site [posttranslational modification] 1380908000345 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 1380908000346 ATP binding site [chemical binding]; other site 1380908000347 Mg2+ binding site [ion binding]; other site 1380908000348 G-X-G motif; other site 1380908000349 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1380908000350 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 1380908000351 active site 1380908000352 phosphorylation site [posttranslational modification] 1380908000353 intermolecular recognition site; other site 1380908000354 dimerization interface [polypeptide binding]; other site 1380908000355 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 1380908000356 DNA binding site [nucleotide binding] 1380908000357 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1380908000358 CopC domain; Region: CopC; pfam04234 1380908000359 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1380908000360 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1380908000361 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1380908000362 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1380908000363 Peptidase family M23; Region: Peptidase_M23; pfam01551 1380908000364 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1380908000365 YHS domain; Region: YHS; pfam04945 1380908000366 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1380908000367 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1380908000368 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 1380908000369 motif II; other site 1380908000370 Protein of unknown function, DUF; Region: DUF411; cl01142 1380908000371 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1380908000372 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1380908000373 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908000374 periplasmic copper-binding protein; Provisional; Region: PRK09838 1380908000375 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1380908000376 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1380908000377 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 1380908000378 active site 1380908000379 phosphorylation site [posttranslational modification] 1380908000380 intermolecular recognition site; other site 1380908000381 dimerization interface [polypeptide binding]; other site 1380908000382 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 1380908000383 DNA binding site [nucleotide binding] 1380908000384 sensor kinase CusS; Provisional; Region: PRK09835 1380908000385 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 1380908000386 dimerization interface [polypeptide binding]; other site 1380908000387 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 1380908000388 dimer interface [polypeptide binding]; other site 1380908000389 phosphorylation site [posttranslational modification] 1380908000390 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 1380908000391 ATP binding site [chemical binding]; other site 1380908000392 Mg2+ binding site [ion binding]; other site 1380908000393 G-X-G motif; other site 1380908000394 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1380908000395 Transposase; Region: HTH_Tnp_1; cl17663 1380908000396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908000397 IS2 transposase TnpB; Reviewed; Region: PRK09409 1380908000398 HTH-like domain; Region: HTH_21; pfam13276 1380908000399 Integrase core domain; Region: rve; pfam00665 1380908000400 Integrase core domain; Region: rve_3; pfam13683 1380908000401 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1380908000402 BCCT family transporter; Region: BCCT; cl00569 1380908000403 Predicted membrane protein [Function unknown]; Region: COG4325 1380908000404 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1380908000405 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 1380908000406 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1380908000407 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 1380908000408 active site 1380908000409 catalytic residues [active] 1380908000410 DNA binding site [nucleotide binding] 1380908000411 Int/Topo IB signature motif; other site 1380908000412 plasmid-partitioning protein SopA; Provisional; Region: PRK13705 1380908000413 MerR family regulatory protein; Region: MerR; pfam00376 1380908000414 DNA binding residues [nucleotide binding] 1380908000415 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 1380908000416 P-loop; other site 1380908000417 Magnesium ion binding site [ion binding]; other site 1380908000418 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 1380908000419 Magnesium ion binding site [ion binding]; other site 1380908000420 plasmid-partitioning protein; Provisional; Region: PRK13698 1380908000421 ParB-like nuclease domain; Region: ParB; smart00470 1380908000422 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1380908000423 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1380908000424 active site 1380908000425 DNA binding site [nucleotide binding] 1380908000426 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1380908000427 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1380908000428 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 1380908000429 Catalytic site [active] 1380908000430 Antirestriction protein; Region: Antirestrict; pfam03230 1380908000431 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; cl11635 1380908000432 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1380908000433 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 1380908000434 S-adenosylmethionine binding site [chemical binding]; other site 1380908000435 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1380908000436 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 1380908000437 dimer interface [polypeptide binding]; other site 1380908000438 ssDNA binding site [nucleotide binding]; other site 1380908000439 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908000440 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 1380908000441 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1380908000442 ParB-like nuclease domain; Region: ParBc; pfam02195 1380908000443 Plasmid SOS inhibition protein (PsiB); Region: PsiB; pfam06290 1380908000444 PsiA protein; Region: PsiA; pfam06952 1380908000445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1380908000446 Integrase core domain; Region: rve; pfam00665 1380908000447 Integrase core domain; Region: rve_3; pfam13683 1380908000448 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1380908000449 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 1380908000450 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908000451 salt bridge; other site 1380908000452 non-specific DNA binding site [nucleotide binding]; other site 1380908000453 sequence-specific DNA binding site [nucleotide binding]; other site 1380908000454 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 1380908000455 non-specific DNA binding site [nucleotide binding]; other site 1380908000456 salt bridge; other site 1380908000457 sequence-specific DNA binding site [nucleotide binding]; other site 1380908000458 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1380908000459 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1380908000460 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 1380908000461 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908000462 catalytic residue [active] 1380908000463 TraM protein; Region: Tra_M; pfam05261 1380908000464 conjugal transfer transcriptional regulator TraJ; Provisional; Region: PRK13719 1380908000465 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1380908000466 DNA binding residues [nucleotide binding] 1380908000467 conjugal transfer pilin subunit TraA; Provisional; Region: PRK13734 1380908000468 conjugal transfer pilus assembly protein TraL; Provisional; Region: PRK13707 1380908000469 conjugal transfer pilus assembly protein TraE; Provisional; Region: PRK13726 1380908000470 conjugal transfer protein TraK; Provisional; Region: PRK13736 1380908000471 TraK protein; Region: TraK; pfam06586 1380908000472 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 1380908000473 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1380908000474 TraP protein; Region: TraP; pfam07296 1380908000475 conjugal transfer protein TraV; Provisional; Region: PRK13733 1380908000476 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 1380908000477 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 1380908000478 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1380908000479 conjugal transfer pilus assembly protein TraW; Provisional; Region: PRK13738 1380908000480 conjugal transfer pilus assembly protein TraU; Provisional; Region: PRK13737 1380908000481 conjugal transfer pilus assembly protein TrbC; Provisional; Region: PRK13730 1380908000482 type-F conjugative transfer system mating-pair stabilization protein TraN; Region: TraN_Ftype; TIGR02750 1380908000483 Conjugal transfer protein TrbE; Region: TrbE; cl10142 1380908000484 conjugal pilus assembly protein TraF; Provisional; Region: PRK13703 1380908000485 F plasmid transfer operon protein; Region: TraF; pfam13728 1380908000486 conjugal transfer pilin chaperone TraQ; Provisional; Region: PRK13727 1380908000487 conjugal transfer protein TrbB; Provisional; Region: PRK13728 1380908000488 conjugal transfer protein TrbF; Provisional; Region: PRK13743 1380908000489 conjugal transfer pilus assembly protein TraH; Provisional; Region: PRK13723 1380908000490 conjugal transfer mating pair stabilization protein TraG; Provisional; Region: PRK13735 1380908000491 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 1380908000492 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 1380908000493 conjugal transfer protein TraD; Provisional; Region: PRK13700 1380908000494 F sex factor protein N terminal; Region: TraD_N; pfam12615 1380908000495 Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component...; Region: TrwB; cd01127 1380908000496 multimer interface [polypeptide binding]; other site 1380908000497 Walker A motif; other site 1380908000498 ATP binding site [chemical binding]; other site 1380908000499 Walker B motif; other site 1380908000500 TraX protein; Region: TraX; cl05434 1380908000501 Fertility inhibition protein N terminal; Region: FinO_N; pfam12602 1380908000502 conjugal transfer fertility inhibition protein FinO; Provisional; Region: PRK13754 1380908000503 ProQ/FINO family; Region: ProQ; pfam04352 1380908000504 putative RNA binding sites [nucleotide binding]; other site 1380908000505 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 1380908000506 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1380908000507 PLD-like domain; Region: PLDc_2; pfam13091 1380908000508 putative active site [active] 1380908000509 catalytic site [active] 1380908000510 replication protein; Provisional; Region: PRK13702 1380908000511 replication protein; Provisional; Region: PRK13750 1380908000512 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 1380908000513 AAA ATPase domain; Region: AAA_16; pfam13191 1380908000514 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 1380908000515 tellurite resistance protein terB; Region: terB; cd07176 1380908000516 putative metal binding site [ion binding]; other site 1380908000517 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 1380908000518 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 1380908000519 putative substrate translocation pore; other site 1380908000520 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1380908000521 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1380908000522 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1380908000523 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1380908000524 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1380908000525 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1380908000526 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1380908000527 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1380908000528 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1380908000529 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 1380908000530 S-adenosylmethionine binding site [chemical binding]; other site 1380908000531 ATP synthase I chain; Region: ATP_synt_I; cl09170 1380908000532 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1380908000533 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1380908000534 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1380908000535 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1380908000536 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1380908000537 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1380908000538 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1380908000539 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1380908000540 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1380908000541 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 1380908000542 beta subunit interaction interface [polypeptide binding]; other site 1380908000543 Walker A motif; other site 1380908000544 ATP binding site [chemical binding]; other site 1380908000545 Walker B motif; other site 1380908000546 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1380908000547 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1380908000548 core domain interface [polypeptide binding]; other site 1380908000549 delta subunit interface [polypeptide binding]; other site 1380908000550 epsilon subunit interface [polypeptide binding]; other site 1380908000551 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1380908000552 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1380908000553 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 1380908000554 alpha subunit interaction interface [polypeptide binding]; other site 1380908000555 Walker A motif; other site 1380908000556 ATP binding site [chemical binding]; other site 1380908000557 Walker B motif; other site 1380908000558 inhibitor binding site; inhibition site 1380908000559 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1380908000560 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1380908000561 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1380908000562 gamma subunit interface [polypeptide binding]; other site 1380908000563 epsilon subunit interface [polypeptide binding]; other site 1380908000564 LBP interface [polypeptide binding]; other site 1380908000565 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1380908000566 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 1380908000567 glutaminase active site [active] 1380908000568 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 1380908000569 dimer interface [polypeptide binding]; other site 1380908000570 active site 1380908000571 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 1380908000572 dimer interface [polypeptide binding]; other site 1380908000573 active site 1380908000574 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 1380908000575 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1380908000576 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 1380908000577 dimer interface [polypeptide binding]; other site 1380908000578 conserved gate region; other site 1380908000579 putative PBP binding loops; other site 1380908000580 ABC-ATPase subunit interface; other site 1380908000581 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1380908000582 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 1380908000583 dimer interface [polypeptide binding]; other site 1380908000584 conserved gate region; other site 1380908000585 putative PBP binding loops; other site 1380908000586 ABC-ATPase subunit interface; other site 1380908000587 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1380908000588 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1380908000589 Walker A/P-loop; other site 1380908000590 ATP binding site [chemical binding]; other site 1380908000591 Q-loop/lid; other site 1380908000592 ABC transporter signature motif; other site 1380908000593 Walker B; other site 1380908000594 D-loop; other site 1380908000595 H-loop/switch region; other site 1380908000596 transcriptional regulator PhoU; Provisional; Region: PRK11115 1380908000597 PhoU domain; Region: PhoU; pfam01895 1380908000598 PhoU domain; Region: PhoU; pfam01895 1380908000599 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1380908000600 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 1380908000601 trimer interface; other site 1380908000602 sugar binding site [chemical binding]; other site 1380908000603 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 1380908000604 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1380908000605 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1380908000606 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 1380908000607 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 1380908000608 motif II; other site 1380908000609 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1380908000610 Predicted flavoprotein [General function prediction only]; Region: COG0431 1380908000611 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1380908000612 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 1380908000613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908000614 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 1380908000615 substrate binding pocket [chemical binding]; other site 1380908000616 dimerization interface [polypeptide binding]; other site 1380908000617 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 1380908000618 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 1380908000619 putative substrate translocation pore; other site 1380908000620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908000621 Coenzyme A binding pocket [chemical binding]; other site 1380908000622 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1380908000623 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1380908000624 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1380908000625 G1 box; other site 1380908000626 GTP/Mg2+ binding site [chemical binding]; other site 1380908000627 Switch I region; other site 1380908000628 G2 box; other site 1380908000629 Switch II region; other site 1380908000630 G3 box; other site 1380908000631 G4 box; other site 1380908000632 G5 box; other site 1380908000633 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1380908000634 membrane protein insertase; Provisional; Region: PRK01318 1380908000635 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1380908000636 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1380908000637 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1380908000638 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1380908000639 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 1380908000640 Walker A motif; other site 1380908000641 ATP binding site [chemical binding]; other site 1380908000642 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 1380908000643 Walker B motif; other site 1380908000644 arginine finger; other site 1380908000645 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 1380908000646 DnaA box-binding interface [nucleotide binding]; other site 1380908000647 DNA polymerase III subunit beta; Validated; Region: PRK05643 1380908000648 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 1380908000649 putative DNA binding surface [nucleotide binding]; other site 1380908000650 dimer interface [polypeptide binding]; other site 1380908000651 beta-clamp/clamp loader binding surface; other site 1380908000652 beta-clamp/translesion DNA polymerase binding surface; other site 1380908000653 recF protein; Region: recf; TIGR00611 1380908000654 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908000655 Walker A/P-loop; other site 1380908000656 ATP binding site [chemical binding]; other site 1380908000657 Q-loop/lid; other site 1380908000658 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908000659 ABC transporter signature motif; other site 1380908000660 Walker B; other site 1380908000661 D-loop; other site 1380908000662 H-loop/switch region; other site 1380908000663 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1380908000664 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 1380908000665 Mg2+ binding site [ion binding]; other site 1380908000666 G-X-G motif; other site 1380908000667 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 1380908000668 anchoring element; other site 1380908000669 dimer interface [polypeptide binding]; other site 1380908000670 ATP binding site [chemical binding]; other site 1380908000671 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 1380908000672 active site 1380908000673 putative metal-binding site [ion binding]; other site 1380908000674 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1380908000675 sugar phosphate phosphatase; Provisional; Region: PRK10513 1380908000676 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 1380908000677 active site 1380908000678 motif I; other site 1380908000679 motif II; other site 1380908000680 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 1380908000681 Surface antigen; Region: Bac_surface_Ag; pfam01103 1380908000682 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1380908000683 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908000684 DNA-binding site [nucleotide binding]; DNA binding site 1380908000685 FCD domain; Region: FCD; pfam07729 1380908000686 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1380908000687 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1380908000688 active site 1380908000689 intersubunit interface [polypeptide binding]; other site 1380908000690 catalytic residue [active] 1380908000691 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 1380908000692 hypothetical protein; Provisional; Region: PRK11616 1380908000693 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1380908000694 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1380908000695 putative dimer interface [polypeptide binding]; other site 1380908000696 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 1380908000697 BRO family, N-terminal domain; Region: Bro-N; cl10591 1380908000698 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1380908000699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908000700 DNA-binding site [nucleotide binding]; DNA binding site 1380908000701 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1380908000702 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1380908000703 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1380908000704 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908000705 active site turn [active] 1380908000706 phosphorylation site [posttranslational modification] 1380908000707 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1380908000708 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 1380908000709 NAD binding site [chemical binding]; other site 1380908000710 sugar binding site [chemical binding]; other site 1380908000711 divalent metal binding site [ion binding]; other site 1380908000712 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908000713 dimer interface [polypeptide binding]; other site 1380908000714 Predicted membrane protein [Function unknown]; Region: COG2149 1380908000715 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1380908000716 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1380908000717 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 1380908000718 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1380908000719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908000720 catalytic residue [active] 1380908000721 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 1380908000722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908000723 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 1380908000724 dimerization interface [polypeptide binding]; other site 1380908000725 substrate binding pocket [chemical binding]; other site 1380908000726 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1380908000727 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1380908000728 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908000729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908000730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908000731 Coenzyme A binding pocket [chemical binding]; other site 1380908000732 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 1380908000733 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908000734 PYR/PP interface [polypeptide binding]; other site 1380908000735 dimer interface [polypeptide binding]; other site 1380908000736 TPP binding site [chemical binding]; other site 1380908000737 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908000738 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 1380908000739 TPP-binding site [chemical binding]; other site 1380908000740 dimer interface [polypeptide binding]; other site 1380908000741 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 1380908000742 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1380908000743 putative valine binding site [chemical binding]; other site 1380908000744 dimer interface [polypeptide binding]; other site 1380908000745 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 1380908000746 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 1380908000747 active site 1380908000748 phosphorylation site [posttranslational modification] 1380908000749 intermolecular recognition site; other site 1380908000750 dimerization interface [polypeptide binding]; other site 1380908000751 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 1380908000752 DNA binding residues [nucleotide binding] 1380908000753 dimerization interface [polypeptide binding]; other site 1380908000754 sensory histidine kinase UhpB; Provisional; Region: PRK11644 1380908000755 MASE1; Region: MASE1; pfam05231 1380908000756 Histidine kinase; Region: HisKA_3; pfam07730 1380908000757 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 1380908000758 ATP binding site [chemical binding]; other site 1380908000759 Mg2+ binding site [ion binding]; other site 1380908000760 G-X-G motif; other site 1380908000761 regulatory protein UhpC; Provisional; Region: PRK11663 1380908000762 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 1380908000763 putative substrate translocation pore; other site 1380908000764 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1380908000765 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 1380908000766 putative substrate translocation pore; other site 1380908000767 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 1380908000768 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1380908000769 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1380908000770 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 1380908000771 putative substrate translocation pore; other site 1380908000772 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1380908000773 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1380908000774 motif II; other site 1380908000775 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1380908000776 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908000777 catalytic residue [active] 1380908000778 transcriptional regulator protein; Region: phnR; TIGR03337 1380908000779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908000780 DNA-binding site [nucleotide binding]; DNA binding site 1380908000781 UTRA domain; Region: UTRA; pfam07702 1380908000782 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1380908000783 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1380908000784 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 1380908000785 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908000786 Walker A/P-loop; other site 1380908000787 ATP binding site [chemical binding]; other site 1380908000788 Q-loop/lid; other site 1380908000789 ABC transporter signature motif; other site 1380908000790 Walker B; other site 1380908000791 D-loop; other site 1380908000792 H-loop/switch region; other site 1380908000793 TOBE domain; Region: TOBE_2; pfam08402 1380908000794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908000795 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908000796 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908000797 putative transposase OrfB; Reviewed; Region: PHA02517 1380908000798 HTH-like domain; Region: HTH_21; pfam13276 1380908000799 Integrase core domain; Region: rve; pfam00665 1380908000800 Integrase core domain; Region: rve_2; pfam13333 1380908000801 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1380908000802 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1380908000803 methionine cluster; other site 1380908000804 active site 1380908000805 phosphorylation site [posttranslational modification] 1380908000806 metal binding site [ion binding]; metal-binding site 1380908000807 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908000808 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1380908000809 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1380908000810 active site 1380908000811 P-loop; other site 1380908000812 phosphorylation site [posttranslational modification] 1380908000813 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908000814 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908000815 DNA binding site [nucleotide binding] 1380908000816 domain linker motif; other site 1380908000817 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1380908000818 ligand binding site [chemical binding]; other site 1380908000819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908000820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908000821 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1380908000822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908000823 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1380908000824 putative dimerization interface [polypeptide binding]; other site 1380908000825 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1380908000826 hypothetical protein; Provisional; Region: PRK09262 1380908000827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1380908000828 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1380908000829 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 1380908000830 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1380908000831 EamA-like transporter family; Region: EamA; pfam00892 1380908000832 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1380908000833 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908000834 active site turn [active] 1380908000835 phosphorylation site [posttranslational modification] 1380908000836 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1380908000837 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1380908000838 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1380908000839 putative active site [active] 1380908000840 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 1380908000841 putative substrate translocation pore; other site 1380908000842 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1380908000843 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1380908000844 Protein export membrane protein; Region: SecD_SecF; cl14618 1380908000845 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1380908000846 Coenzyme A binding pocket [chemical binding]; other site 1380908000847 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908000848 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908000849 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1380908000850 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 1380908000851 putative substrate translocation pore; other site 1380908000852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908000853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908000854 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1380908000855 putative effector binding pocket; other site 1380908000856 putative dimerization interface [polypeptide binding]; other site 1380908000857 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1380908000858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1380908000859 SnoaL-like domain; Region: SnoaL_2; pfam12680 1380908000860 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1380908000861 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1380908000862 Cupin; Region: Cupin_6; pfam12852 1380908000863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908000864 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908000865 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908000866 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 1380908000867 lipoprotein, YaeC family; Region: TIGR00363 1380908000868 EamA-like transporter family; Region: EamA; pfam00892 1380908000869 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1380908000870 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 1380908000871 dimer interface [polypeptide binding]; other site 1380908000872 ADP-ribose binding site [chemical binding]; other site 1380908000873 active site 1380908000874 nudix motif; other site 1380908000875 metal binding site [ion binding]; metal-binding site 1380908000876 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1380908000877 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1380908000878 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1380908000879 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1380908000880 conserved cys residue [active] 1380908000881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908000882 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908000883 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1380908000884 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1380908000885 putative NAD(P) binding site [chemical binding]; other site 1380908000886 putative substrate binding site [chemical binding]; other site 1380908000887 catalytic Zn binding site [ion binding]; other site 1380908000888 structural Zn binding site [ion binding]; other site 1380908000889 dimer interface [polypeptide binding]; other site 1380908000890 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1380908000891 Transcriptional regulator; Region: Rrf2; cl17282 1380908000892 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1380908000893 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1380908000894 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1380908000895 putative NAD(P) binding site [chemical binding]; other site 1380908000896 dimer interface [polypeptide binding]; other site 1380908000897 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 1380908000898 putative transporter; Provisional; Region: PRK11462 1380908000899 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908000900 putative alpha-glucosidase; Provisional; Region: PRK10658 1380908000901 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1380908000902 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 1380908000903 active site 1380908000904 homotrimer interface [polypeptide binding]; other site 1380908000905 catalytic site [active] 1380908000906 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 1380908000907 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908000908 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908000909 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 1380908000910 putative active site [active] 1380908000911 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1380908000912 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1380908000913 NAD(P) binding site [chemical binding]; other site 1380908000914 LDH/MDH dimer interface [polypeptide binding]; other site 1380908000915 substrate binding site [chemical binding]; other site 1380908000916 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1380908000917 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1380908000918 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908000919 active site turn [active] 1380908000920 phosphorylation site [posttranslational modification] 1380908000921 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1380908000922 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1380908000923 glycerol kinase; Provisional; Region: glpK; PRK00047 1380908000924 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1380908000925 N- and C-terminal domain interface [polypeptide binding]; other site 1380908000926 active site 1380908000927 MgATP binding site [chemical binding]; other site 1380908000928 catalytic site [active] 1380908000929 metal binding site [ion binding]; metal-binding site 1380908000930 glycerol binding site [chemical binding]; other site 1380908000931 homotetramer interface [polypeptide binding]; other site 1380908000932 homodimer interface [polypeptide binding]; other site 1380908000933 FBP binding site [chemical binding]; other site 1380908000934 protein IIAGlc interface [polypeptide binding]; other site 1380908000935 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1380908000936 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 1380908000937 substrate binding pocket [chemical binding]; other site 1380908000938 membrane-bound complex binding site; other site 1380908000939 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 1380908000940 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 1380908000941 transmembrane helices; other site 1380908000942 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1380908000943 triosephosphate isomerase; Provisional; Region: PRK14567 1380908000944 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 1380908000945 substrate binding site [chemical binding]; other site 1380908000946 dimer interface [polypeptide binding]; other site 1380908000947 catalytic triad [active] 1380908000948 Predicted membrane protein [Function unknown]; Region: COG3152 1380908000949 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1380908000950 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 1380908000951 FAD binding pocket [chemical binding]; other site 1380908000952 FAD binding motif [chemical binding]; other site 1380908000953 phosphate binding motif [ion binding]; other site 1380908000954 beta-alpha-beta structure motif; other site 1380908000955 NAD binding pocket [chemical binding]; other site 1380908000956 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1380908000957 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1380908000958 putative active site [active] 1380908000959 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1380908000960 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1380908000961 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1380908000962 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1380908000963 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908000964 Zn2+ binding site [ion binding]; other site 1380908000965 Mg2+ binding site [ion binding]; other site 1380908000966 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1380908000967 synthetase active site [active] 1380908000968 NTP binding site [chemical binding]; other site 1380908000969 metal binding site [ion binding]; metal-binding site 1380908000970 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 1380908000971 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1380908000972 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1380908000973 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1380908000974 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 1380908000975 catalytic site [active] 1380908000976 G-X2-G-X-G-K; other site 1380908000977 Predicted membrane protein [Function unknown]; Region: COG2860 1380908000978 UPF0126 domain; Region: UPF0126; pfam03458 1380908000979 UPF0126 domain; Region: UPF0126; pfam03458 1380908000980 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1380908000981 putative ion selectivity filter; other site 1380908000982 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1380908000983 putative pore gating glutamate residue; other site 1380908000984 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1380908000985 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1380908000986 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1380908000987 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 1380908000988 DNA binding site [nucleotide binding] 1380908000989 active site 1380908000990 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1380908000991 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 1380908000992 tetramer interface [polypeptide binding]; other site 1380908000993 active site 1380908000994 Mg2+/Mn2+ binding site [ion binding]; other site 1380908000995 hypothetical protein; Provisional; Region: PRK11820 1380908000996 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1380908000997 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1380908000998 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 1380908000999 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1380908001000 putative acyl-acceptor binding pocket; other site 1380908001001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1380908001002 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1380908001003 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908001004 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1380908001005 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1380908001006 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1380908001007 ribonuclease PH; Reviewed; Region: rph; PRK00173 1380908001008 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1380908001009 hexamer interface [polypeptide binding]; other site 1380908001010 active site 1380908001011 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908001012 active site 1380908001013 division inhibitor protein; Provisional; Region: slmA; PRK09480 1380908001014 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908001015 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1380908001016 trimer interface [polypeptide binding]; other site 1380908001017 active site 1380908001018 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1380908001019 Flavoprotein; Region: Flavoprotein; pfam02441 1380908001020 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1380908001021 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1380908001022 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1380908001023 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1380908001024 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1380908001025 DNA binding site [nucleotide binding] 1380908001026 catalytic residue [active] 1380908001027 H2TH interface [polypeptide binding]; other site 1380908001028 putative catalytic residues [active] 1380908001029 turnover-facilitating residue; other site 1380908001030 intercalation triad [nucleotide binding]; other site 1380908001031 8OG recognition residue [nucleotide binding]; other site 1380908001032 putative reading head residues; other site 1380908001033 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1380908001034 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1380908001035 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1380908001036 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1380908001037 active site 1380908001038 (T/H)XGH motif; other site 1380908001039 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1380908001040 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1380908001041 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 1380908001042 putative glycosyl transferase; Provisional; Region: PRK10073 1380908001043 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1380908001044 active site 1380908001045 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1380908001046 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1380908001047 putative ADP-binding pocket [chemical binding]; other site 1380908001048 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 1380908001049 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1380908001050 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 1380908001051 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 1380908001052 putative active site [active] 1380908001053 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 1380908001054 putative active site [active] 1380908001055 putative catalytic site [active] 1380908001056 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1380908001057 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 1380908001058 O-Antigen ligase; Region: Wzy_C; pfam04932 1380908001059 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 1380908001060 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1380908001061 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 1380908001062 putative active site [active] 1380908001063 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1380908001064 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 1380908001065 putative active site [active] 1380908001066 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1380908001067 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1380908001068 NADP binding site [chemical binding]; other site 1380908001069 homopentamer interface [polypeptide binding]; other site 1380908001070 substrate binding site [chemical binding]; other site 1380908001071 active site 1380908001072 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1380908001073 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 1380908001074 substrate-cofactor binding pocket; other site 1380908001075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908001076 catalytic residue [active] 1380908001077 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1380908001078 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1380908001079 NAD(P) binding site [chemical binding]; other site 1380908001080 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1380908001081 putative metal binding site; other site 1380908001082 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1380908001083 NodB motif; other site 1380908001084 putative active site [active] 1380908001085 putative catalytic site [active] 1380908001086 Zn binding site [ion binding]; other site 1380908001087 AmiB activator; Provisional; Region: PRK11637 1380908001088 Vps51/Vps67; Region: Vps51; pfam08700 1380908001089 Peptidase family M23; Region: Peptidase_M23; pfam01551 1380908001090 phosphoglyceromutase; Provisional; Region: PRK05434 1380908001091 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1380908001092 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 1380908001093 active site residue [active] 1380908001094 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 1380908001095 GSH binding site [chemical binding]; other site 1380908001096 catalytic residues [active] 1380908001097 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1380908001098 SecA binding site; other site 1380908001099 Preprotein binding site; other site 1380908001100 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1380908001101 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1380908001102 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 1380908001103 trimer interface [polypeptide binding]; other site 1380908001104 active site 1380908001105 substrate binding site [chemical binding]; other site 1380908001106 CoA binding site [chemical binding]; other site 1380908001107 putative rRNA methylase; Provisional; Region: PRK10358 1380908001108 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1380908001109 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1380908001110 active site 1380908001111 substrate binding site [chemical binding]; other site 1380908001112 FMN binding site [chemical binding]; other site 1380908001113 putative catalytic residues [active] 1380908001114 L-lactate permease; Provisional; Region: PRK10420 1380908001115 glycolate transporter; Provisional; Region: PRK09695 1380908001116 hypothetical protein; Provisional; Region: PRK11020 1380908001117 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1380908001118 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 1380908001119 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1380908001120 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1380908001121 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1380908001122 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1380908001123 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1380908001124 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1380908001125 active site 1380908001126 P-loop; other site 1380908001127 phosphorylation site [posttranslational modification] 1380908001128 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 1380908001129 active site 1380908001130 phosphorylation site [posttranslational modification] 1380908001131 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1380908001132 Chorismate mutase type II; Region: CM_2; cl00693 1380908001133 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1380908001134 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908001135 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908001136 putative glutathione S-transferase; Provisional; Region: PRK10357 1380908001137 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 1380908001138 putative C-terminal domain interface [polypeptide binding]; other site 1380908001139 putative GSH binding site (G-site) [chemical binding]; other site 1380908001140 putative dimer interface [polypeptide binding]; other site 1380908001141 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1380908001142 dimer interface [polypeptide binding]; other site 1380908001143 N-terminal domain interface [polypeptide binding]; other site 1380908001144 putative substrate binding pocket (H-site) [chemical binding]; other site 1380908001145 selenocysteine synthase; Provisional; Region: PRK04311 1380908001146 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1380908001147 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1380908001148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908001149 catalytic residue [active] 1380908001150 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1380908001151 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1380908001152 G1 box; other site 1380908001153 putative GEF interaction site [polypeptide binding]; other site 1380908001154 GTP/Mg2+ binding site [chemical binding]; other site 1380908001155 Switch I region; other site 1380908001156 G2 box; other site 1380908001157 G3 box; other site 1380908001158 Switch II region; other site 1380908001159 G4 box; other site 1380908001160 G5 box; other site 1380908001161 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 1380908001162 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 1380908001163 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1380908001164 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1380908001165 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1380908001166 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1380908001167 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1380908001168 putative dimerization interface [polypeptide binding]; other site 1380908001169 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908001170 putative ligand binding site [chemical binding]; other site 1380908001171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908001172 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908001173 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908001174 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908001175 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 1380908001176 TM-ABC transporter signature motif; other site 1380908001177 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1380908001178 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908001179 Walker A/P-loop; other site 1380908001180 ATP binding site [chemical binding]; other site 1380908001181 Q-loop/lid; other site 1380908001182 ABC transporter signature motif; other site 1380908001183 Walker B; other site 1380908001184 D-loop; other site 1380908001185 H-loop/switch region; other site 1380908001186 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908001187 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1380908001188 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1380908001189 putative ligand binding site [chemical binding]; other site 1380908001190 xylose isomerase; Provisional; Region: PRK05474 1380908001191 xylose isomerase; Region: xylose_isom_A; TIGR02630 1380908001192 xylulokinase; Provisional; Region: PRK15027 1380908001193 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1380908001194 N- and C-terminal domain interface [polypeptide binding]; other site 1380908001195 active site 1380908001196 MgATP binding site [chemical binding]; other site 1380908001197 catalytic site [active] 1380908001198 metal binding site [ion binding]; metal-binding site 1380908001199 xylulose binding site [chemical binding]; other site 1380908001200 homodimer interface [polypeptide binding]; other site 1380908001201 hypothetical protein; Provisional; Region: PRK11403 1380908001202 yiaA/B two helix domain; Region: YiaAB; cl01759 1380908001203 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1380908001204 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1380908001205 YsaB-like lipoprotein; Region: YsaB; pfam13983 1380908001206 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 1380908001207 dimer interface [polypeptide binding]; other site 1380908001208 motif 1; other site 1380908001209 active site 1380908001210 motif 2; other site 1380908001211 motif 3; other site 1380908001212 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1380908001213 DALR anticodon binding domain; Region: DALR_1; pfam05746 1380908001214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1380908001215 Integrase core domain; Region: rve; pfam00665 1380908001216 Integrase core domain; Region: rve_3; pfam13683 1380908001217 Hok/gef family; Region: HOK_GEF; cl11494 1380908001218 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1380908001219 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908001220 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908001221 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 1380908001222 DNA-binding site [nucleotide binding]; DNA binding site 1380908001223 RNA-binding motif; other site 1380908001224 Predicted transcriptional regulator [Transcription]; Region: COG2944 1380908001225 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 1380908001226 salt bridge; other site 1380908001227 non-specific DNA binding site [nucleotide binding]; other site 1380908001228 sequence-specific DNA binding site [nucleotide binding]; other site 1380908001229 benzoate transport; Region: 2A0115; TIGR00895 1380908001230 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 1380908001231 putative substrate translocation pore; other site 1380908001232 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 1380908001233 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1380908001234 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1380908001235 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1380908001236 dimerization interface [polypeptide binding]; other site 1380908001237 ligand binding site [chemical binding]; other site 1380908001238 NADP binding site [chemical binding]; other site 1380908001239 catalytic site [active] 1380908001240 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 1380908001241 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908001242 putative substrate translocation pore; other site 1380908001243 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908001244 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 1380908001245 substrate binding site [chemical binding]; other site 1380908001246 ATP binding site [chemical binding]; other site 1380908001247 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1380908001248 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908001249 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908001250 DNA binding site [nucleotide binding] 1380908001251 domain linker motif; other site 1380908001252 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1380908001253 putative dimerization interface [polypeptide binding]; other site 1380908001254 putative ligand binding site [chemical binding]; other site 1380908001255 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1380908001256 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1380908001257 ligand binding site [chemical binding]; other site 1380908001258 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908001259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908001260 Coenzyme A binding pocket [chemical binding]; other site 1380908001261 Autotransporter beta-domain; Region: Autotransporter; cl17461 1380908001262 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1380908001263 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 1380908001264 putative substrate translocation pore; other site 1380908001265 phosphoethanolamine transferase; Provisional; Region: PRK11560 1380908001266 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1380908001267 Sulfatase; Region: Sulfatase; pfam00884 1380908001268 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908001269 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908001270 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908001271 putative transposase OrfB; Reviewed; Region: PHA02517 1380908001272 HTH-like domain; Region: HTH_21; pfam13276 1380908001273 Integrase core domain; Region: rve; pfam00665 1380908001274 Integrase core domain; Region: rve_2; pfam13333 1380908001275 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908001276 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1380908001277 peptide binding site [polypeptide binding]; other site 1380908001278 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1380908001279 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 1380908001280 dimer interface [polypeptide binding]; other site 1380908001281 conserved gate region; other site 1380908001282 putative PBP binding loops; other site 1380908001283 ABC-ATPase subunit interface; other site 1380908001284 dipeptide transporter; Provisional; Region: PRK10913 1380908001285 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1380908001286 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 1380908001287 dimer interface [polypeptide binding]; other site 1380908001288 conserved gate region; other site 1380908001289 putative PBP binding loops; other site 1380908001290 ABC-ATPase subunit interface; other site 1380908001291 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1380908001292 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908001293 Walker A/P-loop; other site 1380908001294 ATP binding site [chemical binding]; other site 1380908001295 Q-loop/lid; other site 1380908001296 ABC transporter signature motif; other site 1380908001297 Walker B; other site 1380908001298 D-loop; other site 1380908001299 H-loop/switch region; other site 1380908001300 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1380908001301 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1380908001302 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908001303 Walker A/P-loop; other site 1380908001304 ATP binding site [chemical binding]; other site 1380908001305 Q-loop/lid; other site 1380908001306 ABC transporter signature motif; other site 1380908001307 Walker B; other site 1380908001308 D-loop; other site 1380908001309 H-loop/switch region; other site 1380908001310 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1380908001311 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1380908001312 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 1380908001313 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1380908001314 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1380908001315 DXD motif; other site 1380908001316 PilZ domain; Region: PilZ; pfam07238 1380908001317 cellulose synthase regulator protein; Provisional; Region: PRK11114 1380908001318 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1380908001319 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 1380908001320 TPR motif; other site 1380908001321 binding surface 1380908001322 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1380908001323 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1380908001324 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1380908001325 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 1380908001326 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 1380908001327 Protein of unknown function (DUF2636); Region: DUF2636; pfam11120 1380908001328 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 1380908001329 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 1380908001330 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 1380908001331 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 1380908001332 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 1380908001333 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1380908001334 DXD motif; other site 1380908001335 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 1380908001336 PilZ domain; Region: PilZ; pfam07238 1380908001337 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1380908001338 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1380908001339 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 1380908001340 TPR motif; other site 1380908001341 binding surface 1380908001342 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 1380908001343 binding surface 1380908001344 TPR motif; other site 1380908001345 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 1380908001346 binding surface 1380908001347 TPR motif; other site 1380908001348 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1380908001349 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1380908001350 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1380908001351 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1380908001352 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1380908001353 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1380908001354 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1380908001355 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 1380908001356 metabolite-proton symporter; Region: 2A0106; TIGR00883 1380908001357 putative substrate translocation pore; other site 1380908001358 inner membrane protein YhjD; Region: TIGR00766 1380908001359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908001360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908001361 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1380908001362 putative effector binding pocket; other site 1380908001363 putative dimerization interface [polypeptide binding]; other site 1380908001364 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1380908001365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908001366 NAD(P) binding site [chemical binding]; other site 1380908001367 active site 1380908001368 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1380908001369 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908001370 trehalase; Provisional; Region: treF; PRK13270 1380908001371 Trehalase; Region: Trehalase; pfam01204 1380908001372 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1380908001373 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1380908001374 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1380908001375 putative N-terminal domain interface [polypeptide binding]; other site 1380908001376 putative dimer interface [polypeptide binding]; other site 1380908001377 putative substrate binding pocket (H-site) [chemical binding]; other site 1380908001378 glutathione reductase; Validated; Region: PRK06116 1380908001379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908001380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908001381 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1380908001382 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1380908001383 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1380908001384 active site 1380908001385 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1380908001386 oligopeptidase A; Provisional; Region: PRK10911 1380908001387 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1380908001388 active site 1380908001389 Zn binding site [ion binding]; other site 1380908001390 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 1380908001391 S-adenosylmethionine binding site [chemical binding]; other site 1380908001392 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1380908001393 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 1380908001394 putative substrate translocation pore; other site 1380908001395 POT family; Region: PTR2; pfam00854 1380908001396 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 1380908001397 Ligand Binding Site [chemical binding]; other site 1380908001398 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1380908001399 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1380908001400 Predicted flavoproteins [General function prediction only]; Region: COG2081 1380908001401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908001402 FOG: CBS domain [General function prediction only]; Region: COG0517 1380908001403 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 1380908001404 Divalent cation transporter; Region: MgtE; pfam01769 1380908001405 nickel responsive regulator; Provisional; Region: PRK02967 1380908001406 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1380908001407 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1380908001408 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 1380908001409 dimer interface [polypeptide binding]; other site 1380908001410 conserved gate region; other site 1380908001411 putative PBP binding loops; other site 1380908001412 ABC-ATPase subunit interface; other site 1380908001413 nickel transporter permease NikB; Provisional; Region: PRK10352 1380908001414 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 1380908001415 dimer interface [polypeptide binding]; other site 1380908001416 conserved gate region; other site 1380908001417 putative PBP binding loops; other site 1380908001418 ABC-ATPase subunit interface; other site 1380908001419 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1380908001420 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908001421 substrate binding site [chemical binding]; other site 1380908001422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908001423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908001424 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 1380908001425 dimerization interface [polypeptide binding]; other site 1380908001426 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 1380908001427 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1380908001428 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 1380908001429 inhibitor-cofactor binding pocket; inhibition site 1380908001430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908001431 catalytic residue [active] 1380908001432 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 1380908001433 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 1380908001434 substrate binding site [chemical binding]; other site 1380908001435 cosubstrate binding site; other site 1380908001436 catalytic site [active] 1380908001437 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1380908001438 active site 1380908001439 hexamer interface [polypeptide binding]; other site 1380908001440 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1380908001441 NAD binding site [chemical binding]; other site 1380908001442 substrate binding site [chemical binding]; other site 1380908001443 active site 1380908001444 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1380908001445 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1380908001446 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 1380908001447 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1380908001448 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1380908001449 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1380908001450 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1380908001451 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1380908001452 major facilitator superfamily transporter; Provisional; Region: PRK05122 1380908001453 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 1380908001454 putative substrate translocation pore; other site 1380908001455 hypothetical protein; Provisional; Region: PRK11615 1380908001456 hypothetical protein; Provisional; Region: PRK11212 1380908001457 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1380908001458 CPxP motif; other site 1380908001459 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1380908001460 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 1380908001461 metal-binding site [ion binding] 1380908001462 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1380908001463 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1380908001464 Predicted membrane protein [Function unknown]; Region: COG3714 1380908001465 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 1380908001466 hypothetical protein; Provisional; Region: PRK10910 1380908001467 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1380908001468 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 1380908001469 S-adenosylmethionine binding site [chemical binding]; other site 1380908001470 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1380908001471 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1380908001472 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 1380908001473 P loop; other site 1380908001474 GTP binding site [chemical binding]; other site 1380908001475 cell division protein FtsE; Provisional; Region: PRK10908 1380908001476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908001477 Walker A/P-loop; other site 1380908001478 ATP binding site [chemical binding]; other site 1380908001479 Q-loop/lid; other site 1380908001480 ABC transporter signature motif; other site 1380908001481 Walker B; other site 1380908001482 D-loop; other site 1380908001483 H-loop/switch region; other site 1380908001484 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 1380908001485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908001486 DNA-binding site [nucleotide binding]; DNA binding site 1380908001487 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 1380908001488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908001489 homodimer interface [polypeptide binding]; other site 1380908001490 catalytic residue [active] 1380908001491 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1380908001492 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 1380908001493 inhibitor-cofactor binding pocket; inhibition site 1380908001494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908001495 catalytic residue [active] 1380908001496 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1380908001497 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1380908001498 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1380908001499 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 1380908001500 dimerization interface [polypeptide binding]; other site 1380908001501 ligand binding site [chemical binding]; other site 1380908001502 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1380908001503 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908001504 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 1380908001505 TM-ABC transporter signature motif; other site 1380908001506 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1380908001507 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1380908001508 Walker A/P-loop; other site 1380908001509 ATP binding site [chemical binding]; other site 1380908001510 Q-loop/lid; other site 1380908001511 ABC transporter signature motif; other site 1380908001512 Walker B; other site 1380908001513 D-loop; other site 1380908001514 H-loop/switch region; other site 1380908001515 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1380908001516 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1380908001517 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1380908001518 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1380908001519 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 1380908001520 dimer interface [polypeptide binding]; other site 1380908001521 conserved gate region; other site 1380908001522 putative PBP binding loops; other site 1380908001523 ABC-ATPase subunit interface; other site 1380908001524 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1380908001525 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1380908001526 putative active site [active] 1380908001527 catalytic site [active] 1380908001528 putative metal binding site [ion binding]; other site 1380908001529 Protein of unknown function (DUF2756); Region: DUF2756; cl08110 1380908001530 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 1380908001531 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1380908001532 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1380908001533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908001534 Coenzyme A binding pocket [chemical binding]; other site 1380908001535 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1380908001536 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1380908001537 putative oxidoreductase; Provisional; Region: PRK10206 1380908001538 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908001539 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908001540 Pirin-related protein [General function prediction only]; Region: COG1741 1380908001541 Pirin; Region: Pirin; pfam02678 1380908001542 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1380908001543 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908001544 DNA binding site [nucleotide binding] 1380908001545 domain linker motif; other site 1380908001546 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 1380908001547 putative ligand binding site [chemical binding]; other site 1380908001548 putative dimerization interface [polypeptide binding]; other site 1380908001549 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 1380908001550 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1380908001551 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1380908001552 glycogen branching enzyme; Provisional; Region: PRK05402 1380908001553 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1380908001554 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1380908001555 active site 1380908001556 catalytic site [active] 1380908001557 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1380908001558 glycogen debranching enzyme; Provisional; Region: PRK03705 1380908001559 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1380908001560 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1380908001561 active site 1380908001562 catalytic site [active] 1380908001563 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1380908001564 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1380908001565 ligand binding site; other site 1380908001566 oligomer interface; other site 1380908001567 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1380908001568 dimer interface [polypeptide binding]; other site 1380908001569 N-terminal domain interface [polypeptide binding]; other site 1380908001570 sulfate 1 binding site; other site 1380908001571 glycogen phosphorylase; Provisional; Region: PRK14986 1380908001572 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1380908001573 homodimer interface [polypeptide binding]; other site 1380908001574 active site pocket [active] 1380908001575 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1380908001576 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1380908001577 active site residue [active] 1380908001578 intramembrane serine protease GlpG; Provisional; Region: PRK10907 1380908001579 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1380908001580 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1380908001581 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1380908001582 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1380908001583 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908001584 transcriptional regulator MalT; Provisional; Region: PRK04841 1380908001585 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 1380908001586 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 1380908001587 DNA binding residues [nucleotide binding] 1380908001588 dimerization interface [polypeptide binding]; other site 1380908001589 maltodextrin phosphorylase; Provisional; Region: PRK14985 1380908001590 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1380908001591 homodimer interface [polypeptide binding]; other site 1380908001592 active site pocket [active] 1380908001593 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1380908001594 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1380908001595 high-affinity gluconate transporter; Provisional; Region: PRK14984 1380908001596 gluconate transporter; Region: gntP; TIGR00791 1380908001597 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1380908001598 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1380908001599 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1380908001600 DNA utilization protein GntX; Provisional; Region: PRK11595 1380908001601 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908001602 active site 1380908001603 carboxylesterase BioH; Provisional; Region: PRK10349 1380908001604 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1380908001605 catalytic site [active] 1380908001606 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908001607 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 1380908001608 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1380908001609 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1380908001610 G1 box; other site 1380908001611 GTP/Mg2+ binding site [chemical binding]; other site 1380908001612 Switch I region; other site 1380908001613 G2 box; other site 1380908001614 G3 box; other site 1380908001615 Switch II region; other site 1380908001616 G4 box; other site 1380908001617 G5 box; other site 1380908001618 Nucleoside recognition; Region: Gate; pfam07670 1380908001619 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1380908001620 Nucleoside recognition; Region: Gate; pfam07670 1380908001621 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1380908001622 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1380908001623 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1380908001624 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 1380908001625 RNA binding site [nucleotide binding]; other site 1380908001626 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1380908001627 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1380908001628 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1380908001629 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1380908001630 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 1380908001631 active site 1380908001632 phosphorylation site [posttranslational modification] 1380908001633 intermolecular recognition site; other site 1380908001634 dimerization interface [polypeptide binding]; other site 1380908001635 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 1380908001636 DNA binding site [nucleotide binding] 1380908001637 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1380908001638 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 1380908001639 dimerization interface [polypeptide binding]; other site 1380908001640 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 1380908001641 dimer interface [polypeptide binding]; other site 1380908001642 phosphorylation site [posttranslational modification] 1380908001643 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 1380908001644 ATP binding site [chemical binding]; other site 1380908001645 Mg2+ binding site [ion binding]; other site 1380908001646 G-X-G motif; other site 1380908001647 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1380908001648 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1380908001649 active site 1380908001650 substrate-binding site [chemical binding]; other site 1380908001651 metal-binding site [ion binding] 1380908001652 ATP binding site [chemical binding]; other site 1380908001653 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1380908001654 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 1380908001655 dimerization interface [polypeptide binding]; other site 1380908001656 domain crossover interface; other site 1380908001657 redox-dependent activation switch; other site 1380908001658 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 1380908001659 RNA binding surface [nucleotide binding]; other site 1380908001660 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1380908001661 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 1380908001662 motif II; other site 1380908001663 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 1380908001664 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1380908001665 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 1380908001666 ADP-ribose binding site [chemical binding]; other site 1380908001667 dimer interface [polypeptide binding]; other site 1380908001668 active site 1380908001669 nudix motif; other site 1380908001670 metal binding site [ion binding]; metal-binding site 1380908001671 shikimate kinase; Reviewed; Region: aroK; PRK00131 1380908001672 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 1380908001673 magnesium binding site [ion binding]; other site 1380908001674 putative shikimate binding site; other site 1380908001675 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1380908001676 active site 1380908001677 dimer interface [polypeptide binding]; other site 1380908001678 metal binding site [ion binding]; metal-binding site 1380908001679 cell division protein DamX; Validated; Region: PRK10905 1380908001680 hypothetical protein; Reviewed; Region: PRK11901 1380908001681 DNA adenine methylase; Provisional; Region: PRK10904 1380908001682 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 1380908001683 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1380908001684 substrate binding site [chemical binding]; other site 1380908001685 hexamer interface [polypeptide binding]; other site 1380908001686 metal binding site [ion binding]; metal-binding site 1380908001687 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1380908001688 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 1380908001689 motif II; other site 1380908001690 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1380908001691 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1380908001692 active site 1380908001693 dimer interface [polypeptide binding]; other site 1380908001694 KMSKS motif; other site 1380908001695 siroheme synthase; Provisional; Region: cysG; PRK10637 1380908001696 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1380908001697 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1380908001698 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1380908001699 active site 1380908001700 SAM binding site [chemical binding]; other site 1380908001701 homodimer interface [polypeptide binding]; other site 1380908001702 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1380908001703 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1380908001704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908001705 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1380908001706 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1380908001707 cytosine deaminase; Provisional; Region: PRK09230 1380908001708 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 1380908001709 active site 1380908001710 putative transporter; Provisional; Region: PRK03699 1380908001711 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 1380908001712 putative substrate translocation pore; other site 1380908001713 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1380908001714 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 1380908001715 substrate binding site [chemical binding]; other site 1380908001716 hypothetical protein; Provisional; Region: PRK10204 1380908001717 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1380908001718 cell filamentation protein Fic; Provisional; Region: PRK10347 1380908001719 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1380908001720 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1380908001721 glutamine binding [chemical binding]; other site 1380908001722 catalytic triad [active] 1380908001723 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1380908001724 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 1380908001725 inhibitor-cofactor binding pocket; inhibition site 1380908001726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908001727 catalytic residue [active] 1380908001728 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1380908001729 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1380908001730 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1380908001731 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1380908001732 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 1380908001733 ligand binding site [chemical binding]; other site 1380908001734 flexible hinge region; other site 1380908001735 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 1380908001736 putative switch regulator; other site 1380908001737 non-specific DNA interactions [nucleotide binding]; other site 1380908001738 DNA binding site [nucleotide binding] 1380908001739 sequence specific DNA binding site [nucleotide binding]; other site 1380908001740 putative cAMP binding site [chemical binding]; other site 1380908001741 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 1380908001742 active site 1380908001743 hypothetical protein; Provisional; Region: PRK04966 1380908001744 putative hydrolase; Provisional; Region: PRK10985 1380908001745 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 1380908001746 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 1380908001747 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1380908001748 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1380908001749 phi X174 lysis protein; Provisional; Region: PRK02793 1380908001750 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1380908001751 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1380908001752 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1380908001753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1380908001754 YheO-like PAS domain; Region: PAS_6; pfam08348 1380908001755 HTH domain; Region: HTH_22; pfam13309 1380908001756 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1380908001757 sulfur relay protein TusC; Validated; Region: PRK00211 1380908001758 30S ribosomal protein S7; Validated; Region: PRK05302 1380908001759 elongation factor G; Reviewed; Region: PRK00007 1380908001760 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1380908001761 G1 box; other site 1380908001762 putative GEF interaction site [polypeptide binding]; other site 1380908001763 GTP/Mg2+ binding site [chemical binding]; other site 1380908001764 Switch I region; other site 1380908001765 G2 box; other site 1380908001766 G3 box; other site 1380908001767 Switch II region; other site 1380908001768 G4 box; other site 1380908001769 G5 box; other site 1380908001770 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 1380908001771 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 1380908001772 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 1380908001773 elongation factor Tu; Reviewed; Region: PRK00049 1380908001774 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1380908001775 G1 box; other site 1380908001776 GEF interaction site [polypeptide binding]; other site 1380908001777 GTP/Mg2+ binding site [chemical binding]; other site 1380908001778 Switch I region; other site 1380908001779 G2 box; other site 1380908001780 G3 box; other site 1380908001781 Switch II region; other site 1380908001782 G4 box; other site 1380908001783 G5 box; other site 1380908001784 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 1380908001785 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 1380908001786 Antibiotic Binding Site [chemical binding]; other site 1380908001787 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 1380908001788 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1380908001789 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1380908001790 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 1380908001791 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1380908001792 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1380908001793 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1380908001794 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1380908001795 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1380908001796 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1380908001797 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 1380908001798 G-X-X-G motif; other site 1380908001799 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1380908001800 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 1380908001801 23S rRNA interface [nucleotide binding]; other site 1380908001802 5S rRNA interface [nucleotide binding]; other site 1380908001803 putative antibiotic binding site [chemical binding]; other site 1380908001804 L25 interface [polypeptide binding]; other site 1380908001805 L27 interface [polypeptide binding]; other site 1380908001806 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 1380908001807 23S rRNA interface [nucleotide binding]; other site 1380908001808 putative translocon interaction site; other site 1380908001809 signal recognition particle (SRP54) interaction site; other site 1380908001810 L23 interface [polypeptide binding]; other site 1380908001811 trigger factor interaction site; other site 1380908001812 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1380908001813 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1380908001814 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1380908001815 RNA binding site [nucleotide binding]; other site 1380908001816 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1380908001817 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1380908001818 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1380908001819 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1380908001820 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1380908001821 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1380908001822 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1380908001823 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1380908001824 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 1380908001825 23S rRNA interface [nucleotide binding]; other site 1380908001826 5S rRNA interface [nucleotide binding]; other site 1380908001827 L27 interface [polypeptide binding]; other site 1380908001828 L5 interface [polypeptide binding]; other site 1380908001829 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1380908001830 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1380908001831 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1380908001832 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 1380908001833 23S rRNA binding site [nucleotide binding]; other site 1380908001834 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1380908001835 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1380908001836 SecY translocase; Region: SecY; pfam00344 1380908001837 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1380908001838 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1380908001839 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1380908001840 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1380908001841 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 1380908001842 RNA binding surface [nucleotide binding]; other site 1380908001843 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1380908001844 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1380908001845 alphaNTD homodimer interface [polypeptide binding]; other site 1380908001846 alphaNTD - beta interaction site [polypeptide binding]; other site 1380908001847 alphaNTD - beta' interaction site [polypeptide binding]; other site 1380908001848 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1380908001849 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1380908001850 hypothetical protein; Provisional; Region: PRK10203 1380908001851 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1380908001852 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1380908001853 DNA binding residues [nucleotide binding] 1380908001854 dimer interface [polypeptide binding]; other site 1380908001855 metal binding site [ion binding]; metal-binding site 1380908001856 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1380908001857 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1380908001858 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1380908001859 TrkA-N domain; Region: TrkA_N; pfam02254 1380908001860 TrkA-C domain; Region: TrkA_C; pfam02080 1380908001861 TrkA-N domain; Region: TrkA_N; pfam02254 1380908001862 TrkA-C domain; Region: TrkA_C; pfam02080 1380908001863 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1380908001864 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 1380908001865 putative RNA binding site [nucleotide binding]; other site 1380908001866 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 1380908001867 S-adenosylmethionine binding site [chemical binding]; other site 1380908001868 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1380908001869 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1380908001870 putative active site [active] 1380908001871 substrate binding site [chemical binding]; other site 1380908001872 putative cosubstrate binding site; other site 1380908001873 catalytic site [active] 1380908001874 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1380908001875 substrate binding site [chemical binding]; other site 1380908001876 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 1380908001877 active site 1380908001878 catalytic residues [active] 1380908001879 metal binding site [ion binding]; metal-binding site 1380908001880 hypothetical protein; Provisional; Region: PRK10736 1380908001881 DNA protecting protein DprA; Region: dprA; TIGR00732 1380908001882 hypothetical protein; Validated; Region: PRK03430 1380908001883 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1380908001884 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1380908001885 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1380908001886 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1380908001887 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 1380908001888 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1380908001889 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1380908001890 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1380908001891 shikimate binding site; other site 1380908001892 NAD(P) binding site [chemical binding]; other site 1380908001893 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1380908001894 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1380908001895 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 1380908001896 trimer interface [polypeptide binding]; other site 1380908001897 putative metal binding site [ion binding]; other site 1380908001898 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1380908001899 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1380908001900 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1380908001901 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1380908001902 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908001903 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1380908001904 integrase; Provisional; Region: PRK09692 1380908001905 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 1380908001906 active site 1380908001907 Int/Topo IB signature motif; other site 1380908001908 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1380908001909 AntA/AntB antirepressor; Region: AntA; pfam08346 1380908001910 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1380908001911 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 1380908001912 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1380908001913 Phage capsid family; Region: Phage_capsid; pfam05065 1380908001914 Phage head maturation protease [General function prediction only]; Region: COG3740 1380908001915 Phage-related protein [Function unknown]; Region: COG4695 1380908001916 Phage portal protein; Region: Phage_portal; pfam04860 1380908001917 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 1380908001918 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 1380908001919 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 1380908001920 active site 1380908001921 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1380908001922 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1380908001923 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1380908001924 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1380908001925 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 1380908001926 FMN binding site [chemical binding]; other site 1380908001927 active site 1380908001928 catalytic residues [active] 1380908001929 substrate binding site [chemical binding]; other site 1380908001930 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1380908001931 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 1380908001932 hypothetical protein; Provisional; Region: PRK10633 1380908001933 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1380908001934 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1380908001935 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1380908001936 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1380908001937 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1380908001938 sensor protein PhoQ; Provisional; Region: PRK10815 1380908001939 regulatory protein CsrD; Provisional; Region: PRK11059 1380908001940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908001941 metal binding site [ion binding]; metal-binding site 1380908001942 active site 1380908001943 I-site; other site 1380908001944 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 1380908001945 rod shape-determining protein MreB; Provisional; Region: PRK13927 1380908001946 MreB and similar proteins; Region: MreB_like; cd10225 1380908001947 nucleotide binding site [chemical binding]; other site 1380908001948 Mg binding site [ion binding]; other site 1380908001949 putative protofilament interaction site [polypeptide binding]; other site 1380908001950 RodZ interaction site [polypeptide binding]; other site 1380908001951 rod shape-determining protein MreC; Region: mreC; TIGR00219 1380908001952 rod shape-determining protein MreC; Region: MreC; pfam04085 1380908001953 rod shape-determining protein MreD; Provisional; Region: PRK11060 1380908001954 ribonuclease G; Provisional; Region: PRK11712 1380908001955 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 1380908001956 homodimer interface [polypeptide binding]; other site 1380908001957 oligonucleotide binding site [chemical binding]; other site 1380908001958 protease TldD; Provisional; Region: tldD; PRK10735 1380908001959 transcriptional regulator; Provisional; Region: PRK10632 1380908001960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908001961 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 1380908001962 putative effector binding pocket; other site 1380908001963 dimerization interface [polypeptide binding]; other site 1380908001964 efflux system membrane protein; Provisional; Region: PRK11594 1380908001965 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1380908001966 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908001967 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908001968 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 1380908001969 RNAase interaction site [polypeptide binding]; other site 1380908001970 arginine repressor; Provisional; Region: PRK05066 1380908001971 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1380908001972 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1380908001973 serine endoprotease; Provisional; Region: PRK10898 1380908001974 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1380908001975 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 1380908001976 protein binding site [polypeptide binding]; other site 1380908001977 serine endoprotease; Provisional; Region: PRK10139 1380908001978 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1380908001979 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 1380908001980 protein binding site [polypeptide binding]; other site 1380908001981 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 1380908001982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1380908001983 hypothetical protein; Provisional; Region: PRK11677 1380908001984 Predicted ATPase [General function prediction only]; Region: COG1485 1380908001985 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 1380908001986 23S rRNA interface [nucleotide binding]; other site 1380908001987 L3 interface [polypeptide binding]; other site 1380908001988 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1380908001989 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1380908001990 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 1380908001991 C-terminal domain interface [polypeptide binding]; other site 1380908001992 putative GSH binding site (G-site) [chemical binding]; other site 1380908001993 dimer interface [polypeptide binding]; other site 1380908001994 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1380908001995 dimer interface [polypeptide binding]; other site 1380908001996 N-terminal domain interface [polypeptide binding]; other site 1380908001997 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1380908001998 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1380908001999 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1380908002000 putative active site cavity [active] 1380908002001 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1380908002002 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 1380908002003 active site 1380908002004 dimer interface [polypeptide binding]; other site 1380908002005 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1380908002006 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 1380908002007 active site 1380908002008 FMN binding site [chemical binding]; other site 1380908002009 substrate binding site [chemical binding]; other site 1380908002010 3Fe-4S cluster binding site [ion binding]; other site 1380908002011 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 1380908002012 domain interface; other site 1380908002013 radical SAM protein, TIGR01212 family; Region: TIGR01212 1380908002014 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 1380908002015 FeS/SAM binding site; other site 1380908002016 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 1380908002017 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908002018 putative substrate translocation pore; other site 1380908002019 putative oxidoreductase; Provisional; Region: PRK10083 1380908002020 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1380908002021 putative NAD(P) binding site [chemical binding]; other site 1380908002022 catalytic Zn binding site [ion binding]; other site 1380908002023 structural Zn binding site [ion binding]; other site 1380908002024 putative transposase OrfB; Reviewed; Region: PHA02517 1380908002025 HTH-like domain; Region: HTH_21; pfam13276 1380908002026 Integrase core domain; Region: rve; pfam00665 1380908002027 Integrase core domain; Region: rve_3; pfam13683 1380908002028 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1380908002029 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 1380908002030 putative active site [active] 1380908002031 heme pocket [chemical binding]; other site 1380908002032 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 1380908002033 dimer interface [polypeptide binding]; other site 1380908002034 phosphorylation site [posttranslational modification] 1380908002035 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 1380908002036 ATP binding site [chemical binding]; other site 1380908002037 Mg2+ binding site [ion binding]; other site 1380908002038 G-X-G motif; other site 1380908002039 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 1380908002040 active site 1380908002041 phosphorylation site [posttranslational modification] 1380908002042 intermolecular recognition site; other site 1380908002043 dimerization interface [polypeptide binding]; other site 1380908002044 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 1380908002045 putative binding surface; other site 1380908002046 active site 1380908002047 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1380908002048 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1380908002049 conserved cys residue [active] 1380908002050 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1380908002051 Transglycosylase; Region: Transgly; cl17702 1380908002052 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 1380908002053 dimerization domain swap beta strand [polypeptide binding]; other site 1380908002054 regulatory protein interface [polypeptide binding]; other site 1380908002055 active site 1380908002056 regulatory phosphorylation site [posttranslational modification]; other site 1380908002057 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1380908002058 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 1380908002059 30S subunit binding site; other site 1380908002060 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1380908002061 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1380908002062 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1380908002063 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1380908002064 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 1380908002065 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1380908002066 Walker A/P-loop; other site 1380908002067 ATP binding site [chemical binding]; other site 1380908002068 Q-loop/lid; other site 1380908002069 ABC transporter signature motif; other site 1380908002070 Walker B; other site 1380908002071 D-loop; other site 1380908002072 H-loop/switch region; other site 1380908002073 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 1380908002074 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1380908002075 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 1380908002076 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1380908002077 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 1380908002078 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1380908002079 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1380908002080 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 1380908002081 putative active site [active] 1380908002082 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 1380908002083 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1380908002084 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1380908002085 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1380908002086 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1380908002087 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1380908002088 Walker A/P-loop; other site 1380908002089 ATP binding site [chemical binding]; other site 1380908002090 Q-loop/lid; other site 1380908002091 ABC transporter signature motif; other site 1380908002092 Walker B; other site 1380908002093 D-loop; other site 1380908002094 H-loop/switch region; other site 1380908002095 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1380908002096 conserved hypothetical integral membrane protein; Region: TIGR00056 1380908002097 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1380908002098 mce related protein; Region: MCE; pfam02470 1380908002099 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 1380908002100 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 1380908002101 anti sigma factor interaction site; other site 1380908002102 regulatory phosphorylation site [posttranslational modification]; other site 1380908002103 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1380908002104 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1380908002105 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 1380908002106 hinge; other site 1380908002107 active site 1380908002108 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 1380908002109 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1380908002110 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1380908002111 substrate binding pocket [chemical binding]; other site 1380908002112 chain length determination region; other site 1380908002113 substrate-Mg2+ binding site; other site 1380908002114 catalytic residues [active] 1380908002115 aspartate-rich region 1; other site 1380908002116 active site lid residues [active] 1380908002117 aspartate-rich region 2; other site 1380908002118 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1380908002119 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1380908002120 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1380908002121 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1380908002122 EamA-like transporter family; Region: EamA; pfam00892 1380908002123 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1380908002124 GTP1/OBG; Region: GTP1_OBG; pfam01018 1380908002125 Obg GTPase; Region: Obg; cd01898 1380908002126 G1 box; other site 1380908002127 GTP/Mg2+ binding site [chemical binding]; other site 1380908002128 Switch I region; other site 1380908002129 G2 box; other site 1380908002130 G3 box; other site 1380908002131 Switch II region; other site 1380908002132 G4 box; other site 1380908002133 G5 box; other site 1380908002134 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1380908002135 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1380908002136 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1380908002137 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1380908002138 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1380908002139 RNA-binding protein YhbY; Provisional; Region: PRK10343 1380908002140 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1380908002141 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 1380908002142 S-adenosylmethionine binding site [chemical binding]; other site 1380908002143 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1380908002144 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 1380908002145 Walker A motif; other site 1380908002146 ATP binding site [chemical binding]; other site 1380908002147 Walker B motif; other site 1380908002148 arginine finger; other site 1380908002149 Peptidase family M41; Region: Peptidase_M41; pfam01434 1380908002150 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1380908002151 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 1380908002152 active site 1380908002153 substrate binding site [chemical binding]; other site 1380908002154 metal binding site [ion binding]; metal-binding site 1380908002155 argininosuccinate synthase; Validated; Region: PRK05370 1380908002156 argininosuccinate synthase; Provisional; Region: PRK13820 1380908002157 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1380908002158 hypothetical protein; Provisional; Region: PRK14641 1380908002159 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1380908002160 putative oligomer interface [polypeptide binding]; other site 1380908002161 putative RNA binding site [nucleotide binding]; other site 1380908002162 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1380908002163 NusA N-terminal domain; Region: NusA_N; pfam08529 1380908002164 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 1380908002165 RNA binding site [nucleotide binding]; other site 1380908002166 homodimer interface [polypeptide binding]; other site 1380908002167 NusA-like KH domain; Region: KH_5; pfam13184 1380908002168 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 1380908002169 G-X-X-G motif; other site 1380908002170 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1380908002171 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1380908002172 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1380908002173 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 1380908002174 16S/18S rRNA binding site [nucleotide binding]; other site 1380908002175 S13e-L30e interaction site [polypeptide binding]; other site 1380908002176 25S rRNA binding site [nucleotide binding]; other site 1380908002177 lipoprotein NlpI; Provisional; Region: PRK11189 1380908002178 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 1380908002179 binding surface 1380908002180 TPR motif; other site 1380908002181 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1380908002182 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 1380908002183 ATP binding site [chemical binding]; other site 1380908002184 Mg++ binding site [ion binding]; other site 1380908002185 motif III; other site 1380908002186 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 1380908002187 nucleotide binding region [chemical binding]; other site 1380908002188 ATP-binding site [chemical binding]; other site 1380908002189 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1380908002190 putative RNA binding site [nucleotide binding]; other site 1380908002191 tryptophan permease; Provisional; Region: PRK10483 1380908002192 aromatic amino acid transport protein; Region: araaP; TIGR00837 1380908002193 hypothetical protein; Provisional; Region: PRK10508 1380908002194 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1380908002195 putative protease; Provisional; Region: PRK15447 1380908002196 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1380908002197 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1380908002198 Peptidase family U32; Region: Peptidase_U32; pfam01136 1380908002199 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1380908002200 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1380908002201 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908002202 Coenzyme A binding pocket [chemical binding]; other site 1380908002203 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1380908002204 GIY-YIG motif/motif A; other site 1380908002205 putative active site [active] 1380908002206 putative metal binding site [ion binding]; other site 1380908002207 hypothetical protein; Provisional; Region: PRK03467 1380908002208 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1380908002209 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1380908002210 proposed catalytic triad [active] 1380908002211 conserved cys residue [active] 1380908002212 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1380908002213 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1380908002214 NAD binding site [chemical binding]; other site 1380908002215 active site 1380908002216 outer membrane lipoprotein; Provisional; Region: PRK11023 1380908002217 BON domain; Region: BON; pfam04972 1380908002218 BON domain; Region: BON; pfam04972 1380908002219 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 1380908002220 dimer interface [polypeptide binding]; other site 1380908002221 active site 1380908002222 hypothetical protein; Reviewed; Region: PRK12497 1380908002223 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1380908002224 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1380908002225 putative SAM binding site [chemical binding]; other site 1380908002226 putative homodimer interface [polypeptide binding]; other site 1380908002227 Fic family protein [Function unknown]; Region: COG3177 1380908002228 Fic/DOC family; Region: Fic; pfam02661 1380908002229 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 1380908002230 putative DNA binding site [nucleotide binding]; other site 1380908002231 putative Zn2+ binding site [ion binding]; other site 1380908002232 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908002233 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908002234 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908002235 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 1380908002236 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1380908002237 putative NAD(P) binding site [chemical binding]; other site 1380908002238 catalytic Zn binding site [ion binding]; other site 1380908002239 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1380908002240 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1380908002241 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1380908002242 active site 1380908002243 P-loop; other site 1380908002244 phosphorylation site [posttranslational modification] 1380908002245 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 1380908002246 active site 1380908002247 phosphorylation site [posttranslational modification] 1380908002248 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 1380908002249 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 1380908002250 active site 1380908002251 phosphorylation site [posttranslational modification] 1380908002252 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 1380908002253 dimerization domain swap beta strand [polypeptide binding]; other site 1380908002254 regulatory protein interface [polypeptide binding]; other site 1380908002255 active site 1380908002256 regulatory phosphorylation site [posttranslational modification]; other site 1380908002257 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1380908002258 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 1380908002259 active site 1380908002260 P-loop; other site 1380908002261 phosphorylation site [posttranslational modification] 1380908002262 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1380908002263 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 1380908002264 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1380908002265 putative substrate binding site [chemical binding]; other site 1380908002266 putative ATP binding site [chemical binding]; other site 1380908002267 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 1380908002268 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1380908002269 intersubunit interface [polypeptide binding]; other site 1380908002270 active site 1380908002271 zinc binding site [ion binding]; other site 1380908002272 Na+ binding site [ion binding]; other site 1380908002273 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908002274 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908002275 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908002276 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908002277 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 1380908002278 substrate binding site [chemical binding]; other site 1380908002279 ATP binding site [chemical binding]; other site 1380908002280 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1380908002281 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1380908002282 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1380908002283 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 1380908002284 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908002285 putative substrate translocation pore; other site 1380908002286 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 1380908002287 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1380908002288 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1380908002289 glycerate kinase I; Provisional; Region: PRK10342 1380908002290 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 1380908002291 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1380908002292 dimer interface [polypeptide binding]; other site 1380908002293 Pirin-related protein [General function prediction only]; Region: COG1741 1380908002294 Pirin; Region: Pirin; pfam02678 1380908002295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908002296 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1380908002297 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 1380908002298 dimerization interface [polypeptide binding]; other site 1380908002299 Predicted membrane protein [Function unknown]; Region: COG3152 1380908002300 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1380908002301 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1380908002302 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1380908002303 putative dimer interface [polypeptide binding]; other site 1380908002304 N-terminal domain interface [polypeptide binding]; other site 1380908002305 putative substrate binding pocket (H-site) [chemical binding]; other site 1380908002306 Predicted membrane protein [Function unknown]; Region: COG2259 1380908002307 YqjK-like protein; Region: YqjK; pfam13997 1380908002308 Predicted membrane protein [Function unknown]; Region: COG5393 1380908002309 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1380908002310 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1380908002311 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 1380908002312 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 1380908002313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908002314 DNA-binding site [nucleotide binding]; DNA binding site 1380908002315 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1380908002316 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908002317 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 1380908002318 putative substrate translocation pore; other site 1380908002319 Glucuronate isomerase; Region: UxaC; pfam02614 1380908002320 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1380908002321 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1380908002322 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1380908002323 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1380908002324 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1380908002325 serine/threonine transporter SstT; Provisional; Region: PRK13628 1380908002326 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1380908002327 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908002328 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908002329 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908002330 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 1380908002331 non-specific DNA binding site [nucleotide binding]; other site 1380908002332 salt bridge; other site 1380908002333 sequence-specific DNA binding site [nucleotide binding]; other site 1380908002334 Cupin domain; Region: Cupin_2; pfam07883 1380908002335 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1380908002336 B3/4 domain; Region: B3_4; pfam03483 1380908002337 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1380908002338 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 1380908002339 S-adenosylmethionine binding site [chemical binding]; other site 1380908002340 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1380908002341 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 1380908002342 active site 1380908002343 FMN binding site [chemical binding]; other site 1380908002344 2,4-decadienoyl-CoA binding site; other site 1380908002345 catalytic residue [active] 1380908002346 4Fe-4S cluster binding site [ion binding]; other site 1380908002347 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1380908002348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908002349 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 1380908002350 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 1380908002351 putative N- and C-terminal domain interface [polypeptide binding]; other site 1380908002352 putative active site [active] 1380908002353 putative MgATP binding site [chemical binding]; other site 1380908002354 catalytic site [active] 1380908002355 metal binding site [ion binding]; metal-binding site 1380908002356 putative carbohydrate binding site [chemical binding]; other site 1380908002357 transcriptional regulator LsrR; Provisional; Region: PRK15418 1380908002358 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1380908002359 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908002360 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 1380908002361 TM-ABC transporter signature motif; other site 1380908002362 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 1380908002363 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908002364 TM-ABC transporter signature motif; other site 1380908002365 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 1380908002366 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1380908002367 ligand binding site [chemical binding]; other site 1380908002368 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1380908002369 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1380908002370 putative active site; other site 1380908002371 catalytic residue [active] 1380908002372 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 1380908002373 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 1380908002374 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 1380908002375 inhibitor-cofactor binding pocket; inhibition site 1380908002376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002377 catalytic residue [active] 1380908002378 Predicted transcriptional regulators [Transcription]; Region: COG1695 1380908002379 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1380908002380 GLE1-like protein; Region: GLE1; pfam07817 1380908002381 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1380908002382 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1380908002383 FAD binding pocket [chemical binding]; other site 1380908002384 FAD binding motif [chemical binding]; other site 1380908002385 phosphate binding motif [ion binding]; other site 1380908002386 NAD binding pocket [chemical binding]; other site 1380908002387 putative transposase OrfB; Reviewed; Region: PHA02517 1380908002388 HTH-like domain; Region: HTH_21; pfam13276 1380908002389 Integrase core domain; Region: rve; pfam00665 1380908002390 Integrase core domain; Region: rve_3; pfam13683 1380908002391 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 1380908002392 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1380908002393 DAK2 domain; Region: Dak2; pfam02734 1380908002394 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 1380908002395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 1380908002396 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 1380908002397 dimerization domain swap beta strand [polypeptide binding]; other site 1380908002398 regulatory protein interface [polypeptide binding]; other site 1380908002399 active site 1380908002400 regulatory phosphorylation site [posttranslational modification]; other site 1380908002401 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1380908002402 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1380908002403 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1380908002404 Dak1 domain; Region: Dak1; pfam02733 1380908002405 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1380908002406 PAS domain; Region: PAS; smart00091 1380908002407 putative active site [active] 1380908002408 heme pocket [chemical binding]; other site 1380908002409 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 1380908002410 Walker A motif; other site 1380908002411 ATP binding site [chemical binding]; other site 1380908002412 Walker B motif; other site 1380908002413 arginine finger; other site 1380908002414 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1380908002415 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1380908002416 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 1380908002417 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1380908002418 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1380908002419 dimer interface [polypeptide binding]; other site 1380908002420 active site 1380908002421 metal binding site [ion binding]; metal-binding site 1380908002422 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1380908002423 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 1380908002424 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 1380908002425 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 1380908002426 alpha-beta subunit interface [polypeptide binding]; other site 1380908002427 alpha-gamma subunit interface [polypeptide binding]; other site 1380908002428 active site 1380908002429 substrate and K+ binding site; other site 1380908002430 K+ binding site [ion binding]; other site 1380908002431 cobalamin binding site [chemical binding]; other site 1380908002432 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 1380908002433 Dehydratase small subunit; Region: Dehydratase_SU; pfam02287 1380908002434 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 1380908002435 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1380908002436 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1380908002437 amphipathic channel; other site 1380908002438 Asn-Pro-Ala signature motifs; other site 1380908002439 acid-resistance protein; Provisional; Region: hdeB; PRK11566 1380908002440 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1380908002441 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 1380908002442 substrate binding pocket [chemical binding]; other site 1380908002443 membrane-bound complex binding site; other site 1380908002444 hinge residues; other site 1380908002445 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 1380908002446 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908002447 substrate binding pocket [chemical binding]; other site 1380908002448 membrane-bound complex binding site; other site 1380908002449 hinge residues; other site 1380908002450 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1380908002451 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 1380908002452 dimer interface [polypeptide binding]; other site 1380908002453 phosphorylation site [posttranslational modification] 1380908002454 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 1380908002455 ATP binding site [chemical binding]; other site 1380908002456 Mg2+ binding site [ion binding]; other site 1380908002457 G-X-G motif; other site 1380908002458 Response regulator receiver domain; Region: Response_reg; pfam00072 1380908002459 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 1380908002460 active site 1380908002461 phosphorylation site [posttranslational modification] 1380908002462 intermolecular recognition site; other site 1380908002463 dimerization interface [polypeptide binding]; other site 1380908002464 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; cl00086 1380908002465 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; cl00086 1380908002466 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 1380908002467 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 1380908002468 active site 1380908002469 phosphorylation site [posttranslational modification] 1380908002470 intermolecular recognition site; other site 1380908002471 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 1380908002472 DNA binding residues [nucleotide binding] 1380908002473 dimerization interface [polypeptide binding]; other site 1380908002474 HdeA/HdeB family; Region: HdeA; pfam06411 1380908002475 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1380908002476 active site 1380908002477 SUMO-1 interface [polypeptide binding]; other site 1380908002478 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1380908002479 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1380908002480 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1380908002481 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1380908002482 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1380908002483 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1380908002484 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 1380908002485 DNA binding residues [nucleotide binding] 1380908002486 DNA primase; Validated; Region: dnaG; PRK05667 1380908002487 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1380908002488 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1380908002489 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 1380908002490 active site 1380908002491 metal binding site [ion binding]; metal-binding site 1380908002492 interdomain interaction site; other site 1380908002493 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1380908002494 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1380908002495 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1380908002496 UGMP family protein; Validated; Region: PRK09604 1380908002497 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1380908002498 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 1380908002499 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1380908002500 UreF; Region: UreF; pfam01730 1380908002501 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1380908002502 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 1380908002503 dimer interface [polypeptide binding]; other site 1380908002504 catalytic residues [active] 1380908002505 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 1380908002506 gamma-beta subunit interface [polypeptide binding]; other site 1380908002507 alpha-beta subunit interface [polypeptide binding]; other site 1380908002508 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1380908002509 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1380908002510 homooctamer interface [polypeptide binding]; other site 1380908002511 active site 1380908002512 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1380908002513 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1380908002514 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1380908002515 active site 1380908002516 NTP binding site [chemical binding]; other site 1380908002517 metal binding triad [ion binding]; metal-binding site 1380908002518 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1380908002519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908002520 Zn2+ binding site [ion binding]; other site 1380908002521 Mg2+ binding site [ion binding]; other site 1380908002522 SH3 domain-containing protein; Provisional; Region: PRK10884 1380908002523 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1380908002524 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1380908002525 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1380908002526 putative active site [active] 1380908002527 putative metal binding residues [ion binding]; other site 1380908002528 signature motif; other site 1380908002529 putative triphosphate binding site [ion binding]; other site 1380908002530 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1380908002531 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1380908002532 metal binding triad; other site 1380908002533 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1380908002534 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1380908002535 metal binding triad; other site 1380908002536 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1380908002537 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1380908002538 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 1380908002539 putative ribose interaction site [chemical binding]; other site 1380908002540 putative ADP binding site [chemical binding]; other site 1380908002541 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1380908002542 active site 1380908002543 nucleotide binding site [chemical binding]; other site 1380908002544 HIGH motif; other site 1380908002545 KMSKS motif; other site 1380908002546 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 1380908002547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1380908002548 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1380908002549 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1380908002550 zinc transporter ZupT; Provisional; Region: PRK04201 1380908002551 ZIP Zinc transporter; Region: Zip; pfam02535 1380908002552 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1380908002553 hypothetical protein; Provisional; Region: PRK11653 1380908002554 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1380908002555 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1380908002556 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 1380908002557 dimer interface [polypeptide binding]; other site 1380908002558 ADP-ribose binding site [chemical binding]; other site 1380908002559 active site 1380908002560 nudix motif; other site 1380908002561 metal binding site [ion binding]; metal-binding site 1380908002562 putative dehydrogenase; Provisional; Region: PRK11039 1380908002563 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1380908002564 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1380908002565 active site 1380908002566 metal binding site [ion binding]; metal-binding site 1380908002567 hexamer interface [polypeptide binding]; other site 1380908002568 esterase YqiA; Provisional; Region: PRK11071 1380908002569 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1380908002570 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1380908002571 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 1380908002572 ATP binding site [chemical binding]; other site 1380908002573 Mg2+ binding site [ion binding]; other site 1380908002574 G-X-G motif; other site 1380908002575 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 1380908002576 anchoring element; other site 1380908002577 dimer interface [polypeptide binding]; other site 1380908002578 ATP binding site [chemical binding]; other site 1380908002579 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 1380908002580 active site 1380908002581 metal binding site [ion binding]; metal-binding site 1380908002582 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1380908002583 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1380908002584 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1380908002585 sensor protein QseC; Provisional; Region: PRK10337 1380908002586 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 1380908002587 dimer interface [polypeptide binding]; other site 1380908002588 phosphorylation site [posttranslational modification] 1380908002589 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 1380908002590 ATP binding site [chemical binding]; other site 1380908002591 Mg2+ binding site [ion binding]; other site 1380908002592 G-X-G motif; other site 1380908002593 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1380908002594 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 1380908002595 active site 1380908002596 phosphorylation site [posttranslational modification] 1380908002597 intermolecular recognition site; other site 1380908002598 dimerization interface [polypeptide binding]; other site 1380908002599 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 1380908002600 DNA binding site [nucleotide binding] 1380908002601 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1380908002602 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908002603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908002604 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1380908002605 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1380908002606 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 1380908002607 CAP-like domain; other site 1380908002608 active site 1380908002609 primary dimer interface [polypeptide binding]; other site 1380908002610 FtsI repressor; Provisional; Region: PRK10883 1380908002611 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1380908002612 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1380908002613 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 1380908002614 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908002615 active site 1380908002616 catalytic tetrad [active] 1380908002617 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1380908002618 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1380908002619 dimer interface [polypeptide binding]; other site 1380908002620 active site 1380908002621 metal binding site [ion binding]; metal-binding site 1380908002622 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1380908002623 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1380908002624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908002625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908002626 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1380908002627 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1380908002628 cystathionine beta-lyase; Provisional; Region: PRK08114 1380908002629 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 1380908002630 homodimer interface [polypeptide binding]; other site 1380908002631 substrate-cofactor binding pocket; other site 1380908002632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002633 catalytic residue [active] 1380908002634 biopolymer transport protein ExbB; Provisional; Region: PRK10414 1380908002635 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1380908002636 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1380908002637 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1380908002638 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908002639 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1380908002640 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 1380908002641 active site 1380908002642 hypothetical protein; Provisional; Region: PRK05208 1380908002643 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1380908002644 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 1380908002645 putative S-transferase; Provisional; Region: PRK11752 1380908002646 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 1380908002647 C-terminal domain interface [polypeptide binding]; other site 1380908002648 GSH binding site (G-site) [chemical binding]; other site 1380908002649 dimer interface [polypeptide binding]; other site 1380908002650 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1380908002651 dimer interface [polypeptide binding]; other site 1380908002652 N-terminal domain interface [polypeptide binding]; other site 1380908002653 active site 1380908002654 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1380908002655 Thioredoxin; Region: Thioredoxin_4; cl17273 1380908002656 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1380908002657 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 1380908002658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002659 homodimer interface [polypeptide binding]; other site 1380908002660 catalytic residue [active] 1380908002661 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1380908002662 putative NAD(P) binding site [chemical binding]; other site 1380908002663 homodimer interface [polypeptide binding]; other site 1380908002664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908002665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908002666 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_8; cd08477 1380908002667 putative effector binding pocket; other site 1380908002668 putative dimerization interface [polypeptide binding]; other site 1380908002669 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1380908002670 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 1380908002671 homodimer interface [polypeptide binding]; other site 1380908002672 substrate-cofactor binding pocket; other site 1380908002673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002674 catalytic residue [active] 1380908002675 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1380908002676 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 1380908002677 dimer interface [polypeptide binding]; other site 1380908002678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002679 catalytic residue [active] 1380908002680 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1380908002681 FOG: CBS domain [General function prediction only]; Region: COG0517 1380908002682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908002683 Coenzyme A binding pocket [chemical binding]; other site 1380908002684 Transposase; Region: HTH_Tnp_1; cl17663 1380908002685 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1380908002686 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 1380908002687 replicative DNA helicase; Region: DnaB; TIGR00665 1380908002688 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1380908002689 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 1380908002690 Walker A motif; other site 1380908002691 ATP binding site [chemical binding]; other site 1380908002692 Walker B motif; other site 1380908002693 DNA binding loops [nucleotide binding] 1380908002694 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1380908002695 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1380908002696 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1380908002697 Helix-turn-helix domain; Region: HTH_36; pfam13730 1380908002698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4861 1380908002699 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1380908002700 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1380908002701 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1380908002702 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1380908002703 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1380908002704 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 1380908002705 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908002706 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1380908002707 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1380908002708 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1380908002709 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 1380908002710 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 1380908002711 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1380908002712 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1380908002713 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1380908002714 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1380908002715 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1380908002716 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1380908002717 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1380908002718 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 1380908002719 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1380908002720 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1380908002721 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1380908002722 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 1380908002723 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 1380908002724 non-specific DNA binding site [nucleotide binding]; other site 1380908002725 salt bridge; other site 1380908002726 sequence-specific DNA binding site [nucleotide binding]; other site 1380908002727 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 1380908002728 DNA-binding site [nucleotide binding]; DNA binding site 1380908002729 RNA-binding motif; other site 1380908002730 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 1380908002731 sequence-specific DNA binding site [nucleotide binding]; other site 1380908002732 salt bridge; other site 1380908002733 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 1380908002734 Integrase; Region: Integrase_1; pfam12835 1380908002735 14-3-3 domain; Region: 14-3-3; cl02098 1380908002736 dimer interface [polypeptide binding]; other site 1380908002737 Antirestriction protein; Region: Antirestrict; pfam03230 1380908002738 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 1380908002739 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1380908002740 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1380908002741 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1380908002742 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1380908002743 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1380908002744 ornithine decarboxylase; Provisional; Region: PRK13578 1380908002745 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1380908002746 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 1380908002747 homodimer interface [polypeptide binding]; other site 1380908002748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002749 catalytic residue [active] 1380908002750 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1380908002751 nucleoside transporter; Region: 2A0110; TIGR00889 1380908002752 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1380908002753 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1380908002754 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 1380908002755 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908002756 catalytic residue [active] 1380908002757 oxidative damage protection protein; Provisional; Region: PRK05408 1380908002758 adenine DNA glycosylase; Provisional; Region: PRK10880 1380908002759 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1380908002760 minor groove reading motif; other site 1380908002761 helix-hairpin-helix signature motif; other site 1380908002762 substrate binding pocket [chemical binding]; other site 1380908002763 active site 1380908002764 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1380908002765 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 1380908002766 DNA binding and oxoG recognition site [nucleotide binding] 1380908002767 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1380908002768 hypothetical protein; Provisional; Region: PRK11702 1380908002769 hypothetical protein; Provisional; Region: PRK10626 1380908002770 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1380908002771 HemN family oxidoreductase; Provisional; Region: PRK05660 1380908002772 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 1380908002773 FeS/SAM binding site; other site 1380908002774 HemN C-terminal domain; Region: HemN_C; pfam06969 1380908002775 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 1380908002776 active site 1380908002777 dimerization interface [polypeptide binding]; other site 1380908002778 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1380908002779 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1380908002780 catalytic residue [active] 1380908002781 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1380908002782 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 1380908002783 Walker A motif; other site 1380908002784 ATP binding site [chemical binding]; other site 1380908002785 Walker B motif; other site 1380908002786 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 1380908002787 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 1380908002788 DNA binding residues [nucleotide binding] 1380908002789 dimerization interface [polypeptide binding]; other site 1380908002790 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1380908002791 hypothetical protein; Validated; Region: PRK00228 1380908002792 glutathione synthetase; Provisional; Region: PRK05246 1380908002793 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1380908002794 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1380908002795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1380908002796 RNA methyltransferase, RsmE family; Region: TIGR00046 1380908002797 DNA-specific endonuclease I; Provisional; Region: PRK15137 1380908002798 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1380908002799 hypothetical protein; Provisional; Region: PRK04860 1380908002800 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1380908002801 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1380908002802 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 1380908002803 putative substrate translocation pore; other site 1380908002804 Bacterial protein of unknown function (DUF899); Region: DUF899; cl17828 1380908002805 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 1380908002806 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1380908002807 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1380908002808 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1380908002809 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1380908002810 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1380908002811 agmatinase; Region: agmatinase; TIGR01230 1380908002812 oligomer interface [polypeptide binding]; other site 1380908002813 putative active site [active] 1380908002814 Mn binding site [ion binding]; other site 1380908002815 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 1380908002816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908002817 putative substrate translocation pore; other site 1380908002818 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 1380908002819 [2Fe-2S] cluster binding site [ion binding]; other site 1380908002820 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1380908002821 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 1380908002822 [2Fe-2S] cluster binding site [ion binding]; other site 1380908002823 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1380908002824 hydrophobic ligand binding site; other site 1380908002825 short chain dehydrogenase; Provisional; Region: PRK12939 1380908002826 classical (c) SDRs; Region: SDR_c; cd05233 1380908002827 NAD(P) binding site [chemical binding]; other site 1380908002828 active site 1380908002829 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1380908002830 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1380908002831 Bacterial transcriptional regulator; Region: IclR; pfam01614 1380908002832 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 1380908002833 active site 1380908002834 metal binding site [ion binding]; metal-binding site 1380908002835 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 1380908002836 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908002837 putative active site [active] 1380908002838 putative metal binding site [ion binding]; other site 1380908002839 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1380908002840 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1380908002841 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908002842 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908002843 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 1380908002844 putative substrate translocation pore; other site 1380908002845 Cupin domain; Region: Cupin_2; pfam07883 1380908002846 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1380908002847 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1380908002848 short chain dehydrogenase; Provisional; Region: PRK07062 1380908002849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908002850 NAD(P) binding site [chemical binding]; other site 1380908002851 active site 1380908002852 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1380908002853 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1380908002854 Domain of unknown function DUF108; Region: DUF108; pfam01958 1380908002855 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1380908002856 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1380908002857 NAD(P) binding site [chemical binding]; other site 1380908002858 catalytic residues [active] 1380908002859 hypothetical protein; Provisional; Region: PRK07064 1380908002860 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908002861 PYR/PP interface [polypeptide binding]; other site 1380908002862 dimer interface [polypeptide binding]; other site 1380908002863 TPP binding site [chemical binding]; other site 1380908002864 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908002865 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 1380908002866 TPP-binding site [chemical binding]; other site 1380908002867 outer membrane porin, OprD family; Region: OprD; pfam03573 1380908002868 transketolase; Reviewed; Region: PRK12753 1380908002869 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 1380908002870 TPP-binding site [chemical binding]; other site 1380908002871 dimer interface [polypeptide binding]; other site 1380908002872 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 1380908002873 PYR/PP interface [polypeptide binding]; other site 1380908002874 dimer interface [polypeptide binding]; other site 1380908002875 TPP binding site [chemical binding]; other site 1380908002876 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1380908002877 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1380908002878 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1380908002879 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1380908002880 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1380908002881 Phosphoglycerate kinase; Region: PGK; pfam00162 1380908002882 substrate binding site [chemical binding]; other site 1380908002883 hinge regions; other site 1380908002884 ADP binding site [chemical binding]; other site 1380908002885 catalytic site [active] 1380908002886 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1380908002887 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1380908002888 active site 1380908002889 intersubunit interface [polypeptide binding]; other site 1380908002890 zinc binding site [ion binding]; other site 1380908002891 Na+ binding site [ion binding]; other site 1380908002892 mechanosensitive channel MscS; Provisional; Region: PRK10334 1380908002893 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908002894 arginine exporter protein; Provisional; Region: PRK09304 1380908002895 oxidative stress defense protein; Provisional; Region: PRK11087 1380908002896 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1380908002897 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1380908002898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908002899 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1380908002900 putative dimerization interface [polypeptide binding]; other site 1380908002901 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 1380908002902 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908002903 active site 1380908002904 dimer interface [polypeptide binding]; other site 1380908002905 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1380908002906 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1380908002907 ligand binding site [chemical binding]; other site 1380908002908 NAD binding site [chemical binding]; other site 1380908002909 tetramer interface [polypeptide binding]; other site 1380908002910 catalytic site [active] 1380908002911 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1380908002912 L-serine binding site [chemical binding]; other site 1380908002913 ACT domain interface; other site 1380908002914 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 1380908002915 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1380908002916 Cell division protein ZapA; Region: ZapA; cl01146 1380908002917 hypothetical protein; Reviewed; Region: PRK01736 1380908002918 proline aminopeptidase P II; Provisional; Region: PRK10879 1380908002919 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1380908002920 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 1380908002921 active site 1380908002922 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1380908002923 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1380908002924 oxidoreductase; Provisional; Region: PRK08013 1380908002925 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1380908002926 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1380908002927 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1380908002928 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 1380908002929 lipoyl attachment site [posttranslational modification]; other site 1380908002930 glycine dehydrogenase; Provisional; Region: PRK05367 1380908002931 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 1380908002932 tetramer interface [polypeptide binding]; other site 1380908002933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002934 catalytic residue [active] 1380908002935 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 1380908002936 tetramer interface [polypeptide binding]; other site 1380908002937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908002938 catalytic residue [active] 1380908002939 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 1380908002940 classical (c) SDRs; Region: SDR_c; cd05233 1380908002941 NAD(P) binding site [chemical binding]; other site 1380908002942 active site 1380908002943 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 1380908002944 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1380908002945 catalytic residues [active] 1380908002946 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 1380908002947 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1380908002948 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1380908002949 catalytic residues [active] 1380908002950 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1380908002951 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1380908002952 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1380908002953 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 1380908002954 DsbD alpha interface [polypeptide binding]; other site 1380908002955 catalytic residues [active] 1380908002956 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 1380908002957 beta-galactosidase; Region: BGL; TIGR03356 1380908002958 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908002959 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908002960 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 1380908002961 putative active site [active] 1380908002962 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1380908002963 hemolysin; Provisional; Region: PRK15087 1380908002964 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1380908002965 putative global regulator; Reviewed; Region: PRK09559 1380908002966 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1380908002967 hypothetical protein; Provisional; Region: PRK10878 1380908002968 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 1380908002969 flavodoxin FldB; Provisional; Region: PRK12359 1380908002970 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1380908002971 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 1380908002972 active site 1380908002973 Int/Topo IB signature motif; other site 1380908002974 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1380908002975 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 1380908002976 dimerization domain [polypeptide binding]; other site 1380908002977 dimer interface [polypeptide binding]; other site 1380908002978 catalytic residues [active] 1380908002979 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1380908002980 DHH family; Region: DHH; pfam01368 1380908002981 DHHA1 domain; Region: DHHA1; pfam02272 1380908002982 peptide chain release factor 2; Provisional; Region: PRK08787 1380908002983 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1380908002984 RF-1 domain; Region: RF-1; pfam00472 1380908002985 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 1380908002986 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 1380908002987 dimer interface [polypeptide binding]; other site 1380908002988 putative anticodon binding site; other site 1380908002989 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 1380908002990 motif 1; other site 1380908002991 active site 1380908002992 motif 2; other site 1380908002993 motif 3; other site 1380908002994 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1380908002995 Peptidase family M23; Region: Peptidase_M23; pfam01551 1380908002996 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 1380908002997 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908002998 putative substrate translocation pore; other site 1380908002999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003001 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 1380908003002 putative substrate binding pocket [chemical binding]; other site 1380908003003 putative dimerization interface [polypeptide binding]; other site 1380908003004 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1380908003005 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1380908003006 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908003007 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 1380908003008 active site 1380908003009 catalytic tetrad [active] 1380908003010 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1380908003011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003013 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 1380908003014 dimerization interface [polypeptide binding]; other site 1380908003015 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 1380908003016 YCII-related domain; Region: YCII; cl00999 1380908003017 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 1380908003018 dimerization interface [polypeptide binding]; other site 1380908003019 putative DNA binding site [nucleotide binding]; other site 1380908003020 putative Zn2+ binding site [ion binding]; other site 1380908003021 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 1380908003022 ArsC family; Region: ArsC; pfam03960 1380908003023 catalytic residues [active] 1380908003024 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 1380908003025 putative substrate translocation pore; other site 1380908003026 POT family; Region: PTR2; cl17359 1380908003027 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 1380908003028 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 1380908003029 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1380908003030 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908003031 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908003032 Uncharacterized conserved protein [Function unknown]; Region: COG3592 1380908003033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908003034 Coenzyme A binding pocket [chemical binding]; other site 1380908003035 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1380908003036 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 1380908003037 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 1380908003038 mannosyl binding site [chemical binding]; other site 1380908003039 Fimbrial protein; Region: Fimbrial; cl01416 1380908003040 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003041 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003042 outer membrane usher protein; Provisional; Region: PRK15193 1380908003043 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908003044 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908003045 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908003046 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908003047 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908003048 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003049 Fimbrial protein; Region: Fimbrial; cl01416 1380908003050 tyrosine recombinase; Provisional; Region: PRK09871 1380908003051 active site 1380908003052 DNA binding site [nucleotide binding] 1380908003053 Int/Topo IB signature motif; other site 1380908003054 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 1380908003055 Int/Topo IB signature motif; other site 1380908003056 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1380908003057 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1380908003058 MarR family; Region: MarR; pfam01047 1380908003059 MarR family; Region: MarR_2; cl17246 1380908003060 EamA-like transporter family; Region: EamA; pfam00892 1380908003061 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1380908003062 EamA-like transporter family; Region: EamA; pfam00892 1380908003063 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908003064 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003065 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1380908003066 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908003067 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908003068 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908003069 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908003070 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908003071 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908003072 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003073 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003074 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 1380908003075 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 1380908003076 DNA binding residues [nucleotide binding] 1380908003077 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1380908003078 PilZ domain; Region: PilZ; pfam07238 1380908003079 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 1380908003080 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908003081 active site 1380908003082 catalytic tetrad [active] 1380908003083 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1380908003084 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1380908003085 Predicted membrane protein [Function unknown]; Region: COG4125 1380908003086 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1380908003087 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1380908003088 putative acyltransferase; Provisional; Region: PRK05790 1380908003089 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 1380908003090 dimer interface [polypeptide binding]; other site 1380908003091 active site 1380908003092 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1380908003093 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1380908003094 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1380908003095 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 1380908003096 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1380908003097 NADP binding site [chemical binding]; other site 1380908003098 homodimer interface [polypeptide binding]; other site 1380908003099 active site 1380908003100 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1380908003101 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 1380908003102 putative substrate translocation pore; other site 1380908003103 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 1380908003104 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908003105 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908003106 DNA binding site [nucleotide binding] 1380908003107 domain linker motif; other site 1380908003108 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 1380908003109 putative dimerization interface [polypeptide binding]; other site 1380908003110 putative ligand binding site [chemical binding]; other site 1380908003111 galactoside permease; Reviewed; Region: lacY; PRK09528 1380908003112 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 1380908003113 putative substrate translocation pore; other site 1380908003114 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1380908003115 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1380908003116 substrate binding [chemical binding]; other site 1380908003117 active site 1380908003118 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1380908003119 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1380908003120 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1380908003121 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1380908003122 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1380908003123 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1380908003124 Walker A/P-loop; other site 1380908003125 ATP binding site [chemical binding]; other site 1380908003126 Q-loop/lid; other site 1380908003127 ABC transporter signature motif; other site 1380908003128 Walker B; other site 1380908003129 D-loop; other site 1380908003130 H-loop/switch region; other site 1380908003131 TOBE domain; Region: TOBE; pfam03459 1380908003132 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1380908003133 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 1380908003134 dimer interface [polypeptide binding]; other site 1380908003135 conserved gate region; other site 1380908003136 putative PBP binding loops; other site 1380908003137 ABC-ATPase subunit interface; other site 1380908003138 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1380908003139 putative racemase; Provisional; Region: PRK10200 1380908003140 aspartate racemase; Region: asp_race; TIGR00035 1380908003141 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1380908003142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003143 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 1380908003144 dimerization interface [polypeptide binding]; other site 1380908003145 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1380908003146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1380908003147 active site 1380908003148 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1380908003149 substrate binding site [chemical binding]; other site 1380908003150 catalytic residues [active] 1380908003151 dimer interface [polypeptide binding]; other site 1380908003152 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908003153 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908003154 DNA binding site [nucleotide binding] 1380908003155 domain linker motif; other site 1380908003156 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1380908003157 dimerization interface (closed form) [polypeptide binding]; other site 1380908003158 ligand binding site [chemical binding]; other site 1380908003159 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908003160 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1380908003161 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1380908003162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908003163 DNA-binding site [nucleotide binding]; DNA binding site 1380908003164 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1380908003165 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908003166 Coenzyme A binding pocket [chemical binding]; other site 1380908003167 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 1380908003168 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908003169 DNA binding site [nucleotide binding] 1380908003170 domain linker motif; other site 1380908003171 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1380908003172 dimerization interface (closed form) [polypeptide binding]; other site 1380908003173 ligand binding site [chemical binding]; other site 1380908003174 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 1380908003175 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1380908003176 putative acyl-acceptor binding pocket; other site 1380908003177 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1380908003178 acyl-activating enzyme (AAE) consensus motif; other site 1380908003179 putative AMP binding site [chemical binding]; other site 1380908003180 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 1380908003181 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908003182 active site 1380908003183 catalytic tetrad [active] 1380908003184 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1380908003185 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1380908003186 putative DNA-binding cleft [nucleotide binding]; other site 1380908003187 putative DNA clevage site; other site 1380908003188 molecular lever; other site 1380908003189 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 1380908003190 putative active site [active] 1380908003191 Ap4A binding site [chemical binding]; other site 1380908003192 nudix motif; other site 1380908003193 putative metal binding site [ion binding]; other site 1380908003194 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1380908003195 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1380908003196 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1380908003197 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1380908003198 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1380908003199 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1380908003200 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1380908003201 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 1380908003202 dimerization interface [polypeptide binding]; other site 1380908003203 active site 1380908003204 hypothetical protein; Provisional; Region: PRK10506 1380908003205 hypothetical protein; Provisional; Region: PRK10557 1380908003206 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1380908003207 hypothetical protein; Provisional; Region: PRK11521 1380908003208 hypothetical protein; Provisional; Region: PRK10332 1380908003209 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 1380908003210 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1380908003211 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 1380908003212 protease3; Provisional; Region: PRK15101 1380908003213 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1380908003214 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1380908003215 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1380908003216 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1380908003217 N-acetylglutamate synthase; Validated; Region: PRK05279 1380908003218 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 1380908003219 putative feedback inhibition sensing region; other site 1380908003220 putative nucleotide binding site [chemical binding]; other site 1380908003221 putative substrate binding site [chemical binding]; other site 1380908003222 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908003223 Coenzyme A binding pocket [chemical binding]; other site 1380908003224 AMIN domain; Region: AMIN; pfam11741 1380908003225 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 1380908003226 active site 1380908003227 metal binding site [ion binding]; metal-binding site 1380908003228 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 1380908003229 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 1380908003230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908003231 homodimer interface [polypeptide binding]; other site 1380908003232 catalytic residue [active] 1380908003233 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1380908003234 propionate kinase; Reviewed; Region: PRK12397 1380908003235 propionate/acetate kinase; Provisional; Region: PRK12379 1380908003236 Ethanolamine utilisation - propanediol utilisation; Region: PduV-EutP; pfam10662 1380908003237 G3 box; other site 1380908003238 Switch II region; other site 1380908003239 GTP/Mg2+ binding site [chemical binding]; other site 1380908003240 G4 box; other site 1380908003241 G5 box; other site 1380908003242 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1380908003243 putative hexamer interface [polypeptide binding]; other site 1380908003244 putative hexagonal pore; other site 1380908003245 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 1380908003246 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 1380908003247 putative hexamer interface [polypeptide binding]; other site 1380908003248 putative hexagonal pore; other site 1380908003249 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 1380908003250 putative hexamer interface [polypeptide binding]; other site 1380908003251 putative hexagonal pore; other site 1380908003252 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1380908003253 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1380908003254 active site 1380908003255 NAD binding site [chemical binding]; other site 1380908003256 metal binding site [ion binding]; metal-binding site 1380908003257 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 1380908003258 putative catalytic cysteine [active] 1380908003259 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1380908003260 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1380908003261 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1380908003262 Hexamer/Pentamer interface [polypeptide binding]; other site 1380908003263 central pore; other site 1380908003264 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 1380908003265 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 1380908003266 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1380908003267 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1380908003268 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1380908003269 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1380908003270 Hexamer interface [polypeptide binding]; other site 1380908003271 Hexagonal pore residue; other site 1380908003272 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 1380908003273 Cell division protein FtsA; Region: FtsA; cl17206 1380908003274 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 1380908003275 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 1380908003276 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 1380908003277 propanediol utilization protein PduB; Provisional; Region: PRK15415 1380908003278 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 1380908003279 putative hexamer interface [polypeptide binding]; other site 1380908003280 putative hexagonal pore; other site 1380908003281 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 1380908003282 putative hexamer interface [polypeptide binding]; other site 1380908003283 putative hexagonal pore; other site 1380908003284 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1380908003285 amphipathic channel; other site 1380908003286 Asn-Pro-Ala signature motifs; other site 1380908003287 Sensory domain found in PocR; Region: PocR; pfam10114 1380908003288 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1380908003289 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1380908003290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908003291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908003292 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1380908003293 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1380908003294 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1380908003295 catalytic triad [active] 1380908003296 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1380908003297 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 1380908003298 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1380908003299 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1380908003300 active site 1380908003301 putative homodimer interface [polypeptide binding]; other site 1380908003302 SAM binding site [chemical binding]; other site 1380908003303 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 1380908003304 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 1380908003305 S-adenosylmethionine binding site [chemical binding]; other site 1380908003306 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1380908003307 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1380908003308 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1380908003309 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1380908003310 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1380908003311 active site 1380908003312 SAM binding site [chemical binding]; other site 1380908003313 homodimer interface [polypeptide binding]; other site 1380908003314 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1380908003315 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1380908003316 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 1380908003317 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 1380908003318 active site 1380908003319 C-terminal domain interface [polypeptide binding]; other site 1380908003320 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1380908003321 active site 1380908003322 N-terminal domain interface [polypeptide binding]; other site 1380908003323 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1380908003324 active site 1380908003325 SAM binding site [chemical binding]; other site 1380908003326 homodimer interface [polypeptide binding]; other site 1380908003327 cobalt transport protein CbiM; Validated; Region: PRK08319 1380908003328 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1380908003329 cobalt transport protein CbiN; Provisional; Region: PRK02898 1380908003330 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 1380908003331 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1380908003332 Walker A/P-loop; other site 1380908003333 ATP binding site [chemical binding]; other site 1380908003334 Q-loop/lid; other site 1380908003335 ABC transporter signature motif; other site 1380908003336 Walker B; other site 1380908003337 D-loop; other site 1380908003338 H-loop/switch region; other site 1380908003339 cobyric acid synthase; Provisional; Region: PRK00784 1380908003340 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 1380908003341 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 1380908003342 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1380908003343 catalytic triad [active] 1380908003344 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 1380908003345 homotrimer interface [polypeptide binding]; other site 1380908003346 Walker A motif; other site 1380908003347 GTP binding site [chemical binding]; other site 1380908003348 Walker B motif; other site 1380908003349 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1380908003350 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1380908003351 putative dimer interface [polypeptide binding]; other site 1380908003352 active site pocket [active] 1380908003353 putative cataytic base [active] 1380908003354 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1380908003355 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 1380908003356 putative ATP binding site [chemical binding]; other site 1380908003357 putative substrate interface [chemical binding]; other site 1380908003358 Fe-S metabolism associated domain; Region: SufE; cl00951 1380908003359 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1380908003360 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 1380908003361 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908003362 catalytic residue [active] 1380908003363 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1380908003364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003365 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1380908003366 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 1380908003367 dimerization interface [polypeptide binding]; other site 1380908003368 substrate binding pocket [chemical binding]; other site 1380908003369 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1380908003370 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1380908003371 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 1380908003372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908003373 DNA-binding site [nucleotide binding]; DNA binding site 1380908003374 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908003375 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 1380908003376 L-fuculokinase; Provisional; Region: PRK10331 1380908003377 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1380908003378 nucleotide binding site [chemical binding]; other site 1380908003379 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1380908003380 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1380908003381 intersubunit interface [polypeptide binding]; other site 1380908003382 active site 1380908003383 Zn2+ binding site [ion binding]; other site 1380908003384 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1380908003385 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1380908003386 dimer interface [polypeptide binding]; other site 1380908003387 active site 1380908003388 metal binding site [ion binding]; metal-binding site 1380908003389 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1380908003390 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 1380908003391 Walker A motif; other site 1380908003392 ATP binding site [chemical binding]; other site 1380908003393 Walker B motif; other site 1380908003394 arginine finger; other site 1380908003395 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1380908003396 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1380908003397 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 1380908003398 substrate binding pocket [chemical binding]; other site 1380908003399 membrane-bound complex binding site; other site 1380908003400 hinge residues; other site 1380908003401 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1380908003402 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1380908003403 active site 1380908003404 dimer interface [polypeptide binding]; other site 1380908003405 non-prolyl cis peptide bond; other site 1380908003406 insertion regions; other site 1380908003407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1380908003408 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1380908003409 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1380908003410 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1380908003411 active site 1380908003412 non-prolyl cis peptide bond; other site 1380908003413 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1380908003414 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1380908003415 Walker A/P-loop; other site 1380908003416 ATP binding site [chemical binding]; other site 1380908003417 Q-loop/lid; other site 1380908003418 ABC transporter signature motif; other site 1380908003419 Walker B; other site 1380908003420 D-loop; other site 1380908003421 H-loop/switch region; other site 1380908003422 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 1380908003423 dimer interface [polypeptide binding]; other site 1380908003424 conserved gate region; other site 1380908003425 ABC-ATPase subunit interface; other site 1380908003426 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1380908003427 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 1380908003428 putative substrate translocation pore; other site 1380908003429 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1380908003430 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 1380908003431 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1380908003432 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1380908003433 Flavin binding site [chemical binding]; other site 1380908003434 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1380908003435 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 1380908003436 substrate binding pocket [chemical binding]; other site 1380908003437 membrane-bound complex binding site; other site 1380908003438 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1380908003439 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1380908003440 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1380908003441 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1380908003442 serine transporter; Region: stp; TIGR00814 1380908003443 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1380908003444 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1380908003445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1380908003446 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1380908003447 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1380908003448 SecY interacting protein Syd; Provisional; Region: PRK04968 1380908003449 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1380908003450 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1380908003451 probable active site [active] 1380908003452 flavodoxin; Provisional; Region: PRK08105 1380908003453 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 1380908003454 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908003455 putative substrate translocation pore; other site 1380908003456 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1380908003457 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1380908003458 active site 1380908003459 tetramer interface [polypeptide binding]; other site 1380908003460 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1380908003461 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1380908003462 active site 1380908003463 tetramer interface [polypeptide binding]; other site 1380908003464 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1380908003465 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1380908003466 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 1380908003467 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 1380908003468 dimerization interface [polypeptide binding]; other site 1380908003469 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 1380908003470 dimer interface [polypeptide binding]; other site 1380908003471 phosphorylation site [posttranslational modification] 1380908003472 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 1380908003473 ATP binding site [chemical binding]; other site 1380908003474 Mg2+ binding site [ion binding]; other site 1380908003475 G-X-G motif; other site 1380908003476 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 1380908003477 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 1380908003478 active site 1380908003479 phosphorylation site [posttranslational modification] 1380908003480 intermolecular recognition site; other site 1380908003481 dimerization interface [polypeptide binding]; other site 1380908003482 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 1380908003483 putative binding surface; other site 1380908003484 active site 1380908003485 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1380908003486 TRAM domain; Region: TRAM; pfam01938 1380908003487 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 1380908003488 S-adenosylmethionine binding site [chemical binding]; other site 1380908003489 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1380908003490 HD domain; Region: HD_4; pfam13328 1380908003491 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1380908003492 synthetase active site [active] 1380908003493 NTP binding site [chemical binding]; other site 1380908003494 metal binding site [ion binding]; metal-binding site 1380908003495 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 1380908003496 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1380908003497 CTP synthetase; Validated; Region: pyrG; PRK05380 1380908003498 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 1380908003499 Catalytic site [active] 1380908003500 active site 1380908003501 UTP binding site [chemical binding]; other site 1380908003502 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1380908003503 active site 1380908003504 putative oxyanion hole; other site 1380908003505 catalytic triad [active] 1380908003506 enolase; Provisional; Region: eno; PRK00077 1380908003507 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 1380908003508 dimer interface [polypeptide binding]; other site 1380908003509 metal binding site [ion binding]; metal-binding site 1380908003510 substrate binding pocket [chemical binding]; other site 1380908003511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908003512 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1380908003513 NAD(P) binding site [chemical binding]; other site 1380908003514 active site 1380908003515 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1380908003516 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1380908003517 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 1380908003518 active site 1380908003519 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 1380908003520 Flavodoxin; Region: Flavodoxin_1; pfam00258 1380908003521 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 1380908003522 FAD binding pocket [chemical binding]; other site 1380908003523 FAD binding motif [chemical binding]; other site 1380908003524 catalytic residues [active] 1380908003525 NAD binding pocket [chemical binding]; other site 1380908003526 phosphate binding motif [ion binding]; other site 1380908003527 beta-alpha-beta structure motif; other site 1380908003528 sulfite reductase subunit beta; Provisional; Region: PRK13504 1380908003529 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1380908003530 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1380908003531 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1380908003532 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 1380908003533 Active Sites [active] 1380908003534 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1380908003535 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1380908003536 metal binding site [ion binding]; metal-binding site 1380908003537 siroheme synthase; Provisional; Region: cysG; PRK10637 1380908003538 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1380908003539 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1380908003540 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1380908003541 active site 1380908003542 SAM binding site [chemical binding]; other site 1380908003543 homodimer interface [polypeptide binding]; other site 1380908003544 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1380908003545 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 1380908003546 Active Sites [active] 1380908003547 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1380908003548 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1380908003549 CysD dimerization site [polypeptide binding]; other site 1380908003550 G1 box; other site 1380908003551 putative GEF interaction site [polypeptide binding]; other site 1380908003552 GTP/Mg2+ binding site [chemical binding]; other site 1380908003553 Switch I region; other site 1380908003554 G2 box; other site 1380908003555 G3 box; other site 1380908003556 Switch II region; other site 1380908003557 G4 box; other site 1380908003558 G5 box; other site 1380908003559 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 1380908003560 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 1380908003561 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 1380908003562 ligand-binding site [chemical binding]; other site 1380908003563 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 1380908003564 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1380908003565 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1380908003566 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 1380908003567 homotrimer interaction site [polypeptide binding]; other site 1380908003568 zinc binding site [ion binding]; other site 1380908003569 CDP-binding sites; other site 1380908003570 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1380908003571 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 1380908003572 S-adenosylmethionine binding site [chemical binding]; other site 1380908003573 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1380908003574 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1380908003575 Peptidase family M23; Region: Peptidase_M23; pfam01551 1380908003576 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1380908003577 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1380908003578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1380908003579 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1380908003580 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 1380908003581 DNA binding residues [nucleotide binding] 1380908003582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1380908003583 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908003584 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 1380908003585 putative substrate translocation pore; other site 1380908003586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003588 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 1380908003589 putative effector binding pocket; other site 1380908003590 dimerization interface [polypeptide binding]; other site 1380908003591 MarR family; Region: MarR_2; cl17246 1380908003592 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1380908003593 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1380908003594 Flavoprotein; Region: Flavoprotein; pfam02441 1380908003595 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1380908003596 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 1380908003597 Hok/gef family; Region: HOK_GEF; pfam01848 1380908003598 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1380908003599 MutS domain I; Region: MutS_I; pfam01624 1380908003600 MutS domain II; Region: MutS_II; pfam05188 1380908003601 MutS domain III; Region: MutS_III; pfam05192 1380908003602 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1380908003603 Walker A/P-loop; other site 1380908003604 ATP binding site [chemical binding]; other site 1380908003605 Q-loop/lid; other site 1380908003606 ABC transporter signature motif; other site 1380908003607 Walker B; other site 1380908003608 D-loop; other site 1380908003609 H-loop/switch region; other site 1380908003610 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1380908003611 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1380908003612 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908003613 Walker A/P-loop; other site 1380908003614 ATP binding site [chemical binding]; other site 1380908003615 Q-loop/lid; other site 1380908003616 ABC transporter signature motif; other site 1380908003617 Walker B; other site 1380908003618 D-loop; other site 1380908003619 H-loop/switch region; other site 1380908003620 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1380908003621 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1380908003622 putative hemin binding site; other site 1380908003623 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1380908003624 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 1380908003625 N-terminal plug; other site 1380908003626 ligand-binding site [chemical binding]; other site 1380908003627 Rdx family; Region: Rdx; cl01407 1380908003628 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 1380908003629 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908003630 PYR/PP interface [polypeptide binding]; other site 1380908003631 dimer interface [polypeptide binding]; other site 1380908003632 TPP binding site [chemical binding]; other site 1380908003633 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 1380908003634 TPP-binding site [chemical binding]; other site 1380908003635 Membrane transport protein; Region: Mem_trans; cl09117 1380908003636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003638 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 1380908003639 dimerization interface [polypeptide binding]; other site 1380908003640 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 1380908003641 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1380908003642 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908003643 ABC-ATPase subunit interface; other site 1380908003644 dimer interface [polypeptide binding]; other site 1380908003645 putative PBP binding regions; other site 1380908003646 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1380908003647 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908003648 ABC-ATPase subunit interface; other site 1380908003649 dimer interface [polypeptide binding]; other site 1380908003650 putative PBP binding regions; other site 1380908003651 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1380908003652 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1380908003653 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 1380908003654 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1380908003655 metal binding site [ion binding]; metal-binding site 1380908003656 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908003657 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908003658 DNA binding site [nucleotide binding] 1380908003659 domain linker motif; other site 1380908003660 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1380908003661 ligand binding site [chemical binding]; other site 1380908003662 dimerization interface [polypeptide binding]; other site 1380908003663 fructokinase; Reviewed; Region: PRK09557 1380908003664 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908003665 nucleotide binding site [chemical binding]; other site 1380908003666 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cl00166 1380908003667 methionine cluster; other site 1380908003668 active site 1380908003669 phosphorylation site [posttranslational modification] 1380908003670 metal binding site [ion binding]; metal-binding site 1380908003671 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1380908003672 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908003673 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1380908003674 active site 1380908003675 P-loop; other site 1380908003676 phosphorylation site [posttranslational modification] 1380908003677 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1380908003678 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908003679 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1380908003680 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1380908003681 Interdomain contacts; other site 1380908003682 Cytokine receptor motif; other site 1380908003683 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1380908003684 putative metal binding site [ion binding]; other site 1380908003685 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1380908003686 beta-galactosidase; Region: BGL; TIGR03356 1380908003687 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 1380908003688 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1380908003689 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1380908003690 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 1380908003691 Walker A motif; other site 1380908003692 ATP binding site [chemical binding]; other site 1380908003693 Walker B motif; other site 1380908003694 arginine finger; other site 1380908003695 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1380908003696 hydrogenase assembly chaperone; Provisional; Region: PRK10409 1380908003697 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 1380908003698 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 1380908003699 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 1380908003700 Transcriptional repressor of hyc and hyp operons; Region: HycA_repressor; pfam11046 1380908003701 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1380908003702 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 1380908003703 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1380908003704 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1380908003705 NADH dehydrogenase; Region: NADHdh; cl00469 1380908003706 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 1380908003707 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1380908003708 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1380908003709 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 1380908003710 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 1380908003711 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1380908003712 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 1380908003713 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 1380908003714 beta-galactosidase; Region: BGL; TIGR03356 1380908003715 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 1380908003716 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908003717 active site turn [active] 1380908003718 phosphorylation site [posttranslational modification] 1380908003719 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1380908003720 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908003721 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908003722 DNA binding site [nucleotide binding] 1380908003723 domain linker motif; other site 1380908003724 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1380908003725 dimerization interface (closed form) [polypeptide binding]; other site 1380908003726 ligand binding site [chemical binding]; other site 1380908003727 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1380908003728 Acylphosphatase; Region: Acylphosphatase; pfam00708 1380908003729 HypF finger; Region: zf-HYPF; pfam07503 1380908003730 HypF finger; Region: zf-HYPF; pfam07503 1380908003731 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1380908003732 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1380908003733 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1380908003734 UAF complex subunit Rrn10; Region: UAF_Rrn10; pfam05234 1380908003735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908003736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908003737 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1380908003738 GAF domain; Region: GAF; pfam01590 1380908003739 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 1380908003740 Walker A motif; other site 1380908003741 ATP binding site [chemical binding]; other site 1380908003742 Walker B motif; other site 1380908003743 arginine finger; other site 1380908003744 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 1380908003745 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 1380908003746 putative active site [active] 1380908003747 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 1380908003748 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1380908003749 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1380908003750 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908003751 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1380908003752 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1380908003753 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 1380908003754 putative NAD(P) binding site [chemical binding]; other site 1380908003755 active site 1380908003756 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 1380908003757 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1380908003758 Nucleoside recognition; Region: Gate; pfam07670 1380908003759 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1380908003760 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1380908003761 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1380908003762 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 1380908003763 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908003764 catalytic residue [active] 1380908003765 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1380908003766 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1380908003767 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1380908003768 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908003769 ABC-ATPase subunit interface; other site 1380908003770 dimer interface [polypeptide binding]; other site 1380908003771 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 1380908003772 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1380908003773 metal binding site [ion binding]; metal-binding site 1380908003774 hypothetical protein; Validated; Region: PRK03661 1380908003775 recombinase A; Provisional; Region: recA; PRK09354 1380908003776 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 1380908003777 hexamer interface [polypeptide binding]; other site 1380908003778 Walker A motif; other site 1380908003779 ATP binding site [chemical binding]; other site 1380908003780 Walker B motif; other site 1380908003781 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1380908003782 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1380908003783 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 1380908003784 motif 1; other site 1380908003785 active site 1380908003786 motif 2; other site 1380908003787 motif 3; other site 1380908003788 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1380908003789 DHHA1 domain; Region: DHHA1; pfam02272 1380908003790 BON domain; Region: BON; pfam04972 1380908003791 Predicted membrane protein [Function unknown]; Region: COG1238 1380908003792 glutamate--cysteine ligase; Provisional; Region: PRK02107 1380908003793 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908003794 Helix-turn-helix domain; Region: HTH_18; pfam12833 1380908003795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908003796 2-isopropylmalate synthase; Validated; Region: PRK03739 1380908003797 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1380908003798 active site 1380908003799 catalytic residues [active] 1380908003800 metal binding site [ion binding]; metal-binding site 1380908003801 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1380908003802 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1380908003803 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 1380908003804 putative substrate translocation pore; other site 1380908003805 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 1380908003806 transcriptional repressor MprA; Provisional; Region: PRK10870 1380908003807 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1380908003808 putative L-valine exporter; Provisional; Region: PRK10408 1380908003809 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1380908003810 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1380908003811 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1380908003812 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1380908003813 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 1380908003814 dimer interface [polypeptide binding]; other site 1380908003815 conserved gate region; other site 1380908003816 putative PBP binding loops; other site 1380908003817 ABC-ATPase subunit interface; other site 1380908003818 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 1380908003819 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1380908003820 Walker A/P-loop; other site 1380908003821 ATP binding site [chemical binding]; other site 1380908003822 Q-loop/lid; other site 1380908003823 ABC transporter signature motif; other site 1380908003824 Walker B; other site 1380908003825 D-loop; other site 1380908003826 H-loop/switch region; other site 1380908003827 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1380908003828 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1380908003829 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1380908003830 dimer interface [polypeptide binding]; other site 1380908003831 putative radical transfer pathway; other site 1380908003832 diiron center [ion binding]; other site 1380908003833 tyrosyl radical; other site 1380908003834 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1380908003835 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1380908003836 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1380908003837 active site 1380908003838 dimer interface [polypeptide binding]; other site 1380908003839 catalytic residues [active] 1380908003840 effector binding site; other site 1380908003841 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1380908003842 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1380908003843 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1380908003844 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1380908003845 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1380908003846 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 1380908003847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908003848 DNA-binding site [nucleotide binding]; DNA binding site 1380908003849 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 1380908003850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908003851 homodimer interface [polypeptide binding]; other site 1380908003852 catalytic residue [active] 1380908003853 hypothetical protein; Provisional; Region: PRK10132 1380908003854 hypothetical protein; Provisional; Region: PRK10556 1380908003855 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1380908003856 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1380908003857 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1380908003858 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 1380908003859 active site residue [active] 1380908003860 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1380908003861 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 1380908003862 dimerization interface [polypeptide binding]; other site 1380908003863 putative DNA binding site [nucleotide binding]; other site 1380908003864 putative Zn2+ binding site [ion binding]; other site 1380908003865 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1380908003866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003868 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1380908003869 putative effector binding pocket; other site 1380908003870 putative dimerization interface [polypeptide binding]; other site 1380908003871 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1380908003872 GAF domain; Region: GAF; pfam01590 1380908003873 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 1380908003874 Walker A motif; other site 1380908003875 ATP binding site [chemical binding]; other site 1380908003876 Walker B motif; other site 1380908003877 arginine finger; other site 1380908003878 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1380908003879 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1380908003880 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1380908003881 NAD(P) binding site [chemical binding]; other site 1380908003882 catalytic residues [active] 1380908003883 Fimbrial protein; Region: Fimbrial; cl01416 1380908003884 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1380908003885 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908003886 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908003887 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908003888 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908003889 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908003890 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908003891 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003892 Fimbrial protein; Region: Fimbrial; pfam00419 1380908003893 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908003894 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908003895 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908003896 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908003897 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1380908003898 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908003899 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908003900 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908003901 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1380908003902 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 1380908003903 DNA binding residues [nucleotide binding] 1380908003904 dimerization interface [polypeptide binding]; other site 1380908003905 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 1380908003906 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908003907 substrate binding pocket [chemical binding]; other site 1380908003908 membrane-bound complex binding site; other site 1380908003909 hinge residues; other site 1380908003910 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1380908003911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908003912 NAD(P) binding site [chemical binding]; other site 1380908003913 active site 1380908003914 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1380908003915 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1380908003916 putative ligand binding site [chemical binding]; other site 1380908003917 NAD binding site [chemical binding]; other site 1380908003918 dimerization interface [polypeptide binding]; other site 1380908003919 catalytic site [active] 1380908003920 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1380908003921 intersubunit interface [polypeptide binding]; other site 1380908003922 active site 1380908003923 Zn2+ binding site [ion binding]; other site 1380908003924 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 1380908003925 dimer interface [polypeptide binding]; other site 1380908003926 conserved gate region; other site 1380908003927 ABC-ATPase subunit interface; other site 1380908003928 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908003929 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908003930 Walker A/P-loop; other site 1380908003931 ATP binding site [chemical binding]; other site 1380908003932 Q-loop/lid; other site 1380908003933 ABC transporter signature motif; other site 1380908003934 Walker B; other site 1380908003935 D-loop; other site 1380908003936 H-loop/switch region; other site 1380908003937 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 1380908003938 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908003939 substrate binding pocket [chemical binding]; other site 1380908003940 membrane-bound complex binding site; other site 1380908003941 hinge residues; other site 1380908003942 oxidase reductase; Provisional; Region: PTZ00273 1380908003943 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1380908003944 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1380908003945 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1380908003946 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1380908003947 agmatinase; Region: agmatinase; TIGR01230 1380908003948 oligomer interface [polypeptide binding]; other site 1380908003949 putative active site [active] 1380908003950 Mn binding site [ion binding]; other site 1380908003951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003953 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 1380908003954 dimerization interface [polypeptide binding]; other site 1380908003955 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1380908003956 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1380908003957 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908003958 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908003959 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1380908003960 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908003961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908003962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908003963 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1380908003964 putative effector binding pocket; other site 1380908003965 putative dimerization interface [polypeptide binding]; other site 1380908003966 integrase; Provisional; Region: int; PHA02601 1380908003967 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 1380908003968 active site 1380908003969 DNA binding site [nucleotide binding] 1380908003970 Int/Topo IB signature motif; other site 1380908003971 Predicted transcriptional regulator [Transcription]; Region: COG2932 1380908003972 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 1380908003973 Protein of unknown function (DUF2724); Region: DUF2724; pfam10893 1380908003974 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 1380908003975 DNA adenine methylase (dam); Region: dam; TIGR00571 1380908003976 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1380908003977 terminase ATPase subunit; Provisional; Region: P; PHA02535 1380908003978 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1380908003979 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1380908003980 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1380908003981 capsid protein; Provisional; Region: N; PHA02538 1380908003982 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1380908003983 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1380908003984 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1380908003985 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 1380908003986 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1380908003987 catalytic residues [active] 1380908003988 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1380908003989 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1380908003990 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1380908003991 baseplate assembly protein; Provisional; Region: J; PHA02568 1380908003992 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 1380908003993 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1380908003994 major tail sheath protein; Provisional; Region: FI; PHA02560 1380908003995 Phage tail tube protein FII; Region: Phage_tube; cl01390 1380908003996 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1380908003997 Phage protein U [General function prediction only]; Region: COG3499 1380908003998 tail protein; Provisional; Region: D; PHA02561 1380908003999 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 1380908004000 SmpB-tmRNA interface; other site 1380908004001 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1380908004002 putative coenzyme Q binding site [chemical binding]; other site 1380908004003 hypothetical protein; Validated; Region: PRK01777 1380908004004 recombination and repair protein; Provisional; Region: PRK10869 1380908004005 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1380908004006 Walker A/P-loop; other site 1380908004007 ATP binding site [chemical binding]; other site 1380908004008 Q-loop/lid; other site 1380908004009 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1380908004010 ABC transporter signature motif; other site 1380908004011 Walker B; other site 1380908004012 D-loop; other site 1380908004013 H-loop/switch region; other site 1380908004014 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 1380908004015 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1380908004016 hypothetical protein; Provisional; Region: PRK11573 1380908004017 Domain of unknown function DUF21; Region: DUF21; pfam01595 1380908004018 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 1380908004019 Transporter associated domain; Region: CorC_HlyC; smart01091 1380908004020 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1380908004021 signal recognition particle protein; Provisional; Region: PRK10867 1380908004022 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1380908004023 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 1380908004024 P loop; other site 1380908004025 GTP binding site [chemical binding]; other site 1380908004026 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1380908004027 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1380908004028 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1380908004029 RimM N-terminal domain; Region: RimM; pfam01782 1380908004030 PRC-barrel domain; Region: PRC; pfam05239 1380908004031 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1380908004032 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1380908004033 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1380908004034 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1380908004035 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1380908004036 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1380908004037 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1380908004038 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1380908004039 ligand binding site [chemical binding]; other site 1380908004040 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1380908004041 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1380908004042 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1380908004043 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1380908004044 Chorismate mutase type II; Region: CM_2; cl00693 1380908004045 prephenate dehydrogenase; Validated; Region: PRK08507 1380908004046 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1380908004047 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1380908004048 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1380908004049 Prephenate dehydratase; Region: PDT; pfam00800 1380908004050 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 1380908004051 putative L-Phe binding site [chemical binding]; other site 1380908004052 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 1380908004053 30S subunit binding site; other site 1380908004054 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 1380908004055 hypothetical protein; Provisional; Region: PRK10723 1380908004056 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1380908004057 protein disaggregation chaperone; Provisional; Region: PRK10865 1380908004058 Clp amino terminal domain; Region: Clp_N; pfam02861 1380908004059 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 1380908004060 Walker A motif; other site 1380908004061 ATP binding site [chemical binding]; other site 1380908004062 Walker B motif; other site 1380908004063 arginine finger; other site 1380908004064 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 1380908004065 Walker A motif; other site 1380908004066 ATP binding site [chemical binding]; other site 1380908004067 Walker B motif; other site 1380908004068 arginine finger; other site 1380908004069 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1380908004070 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1380908004071 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 1380908004072 putative substrate translocation pore; other site 1380908004073 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1380908004074 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1380908004075 domain interface [polypeptide binding]; other site 1380908004076 putative active site [active] 1380908004077 catalytic site [active] 1380908004078 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1380908004079 domain interface [polypeptide binding]; other site 1380908004080 putative active site [active] 1380908004081 catalytic site [active] 1380908004082 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1380908004083 CoA binding domain; Region: CoA_binding_2; pfam13380 1380908004084 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1380908004085 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1380908004086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1380908004087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908004088 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1380908004089 thioredoxin 2; Provisional; Region: PRK10996 1380908004090 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 1380908004091 catalytic residues [active] 1380908004092 putative methyltransferase; Provisional; Region: PRK10864 1380908004093 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1380908004094 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1380908004095 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1380908004096 ligand binding site [chemical binding]; other site 1380908004097 active site 1380908004098 UGI interface [polypeptide binding]; other site 1380908004099 catalytic site [active] 1380908004100 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1380908004101 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1380908004102 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 1380908004103 ATP binding site [chemical binding]; other site 1380908004104 Mg++ binding site [ion binding]; other site 1380908004105 motif III; other site 1380908004106 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 1380908004107 nucleotide binding region [chemical binding]; other site 1380908004108 ATP-binding site [chemical binding]; other site 1380908004109 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1380908004110 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 1380908004111 L-aspartate oxidase; Provisional; Region: PRK09077 1380908004112 L-aspartate oxidase; Provisional; Region: PRK06175 1380908004113 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1380908004114 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1380908004115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1380908004116 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 1380908004117 DNA binding residues [nucleotide binding] 1380908004118 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1380908004119 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1380908004120 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1380908004121 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1380908004122 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1380908004123 SoxR reducing system protein RseC; Provisional; Region: PRK10862 1380908004124 GTP-binding protein LepA; Provisional; Region: PRK05433 1380908004125 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1380908004126 G1 box; other site 1380908004127 putative GEF interaction site [polypeptide binding]; other site 1380908004128 GTP/Mg2+ binding site [chemical binding]; other site 1380908004129 Switch I region; other site 1380908004130 G2 box; other site 1380908004131 G3 box; other site 1380908004132 Switch II region; other site 1380908004133 G4 box; other site 1380908004134 G5 box; other site 1380908004135 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 1380908004136 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 1380908004137 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1380908004138 signal peptidase I; Provisional; Region: PRK10861 1380908004139 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 1380908004140 Catalytic site [active] 1380908004141 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 1380908004142 ribonuclease III; Reviewed; Region: rnc; PRK00102 1380908004143 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 1380908004144 dimerization interface [polypeptide binding]; other site 1380908004145 active site 1380908004146 metal binding site [ion binding]; metal-binding site 1380908004147 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 1380908004148 dsRNA binding site [nucleotide binding]; other site 1380908004149 GTPase Era; Reviewed; Region: era; PRK00089 1380908004150 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1380908004151 G1 box; other site 1380908004152 GTP/Mg2+ binding site [chemical binding]; other site 1380908004153 Switch I region; other site 1380908004154 G2 box; other site 1380908004155 Switch II region; other site 1380908004156 G3 box; other site 1380908004157 G4 box; other site 1380908004158 G5 box; other site 1380908004159 KH domain; Region: KH_2; pfam07650 1380908004160 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1380908004161 Recombination protein O N terminal; Region: RecO_N; pfam11967 1380908004162 Recombination protein O C terminal; Region: RecO_C; pfam02565 1380908004163 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 1380908004164 active site 1380908004165 hydrophilic channel; other site 1380908004166 dimerization interface [polypeptide binding]; other site 1380908004167 catalytic residues [active] 1380908004168 active site lid [active] 1380908004169 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1380908004170 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1380908004171 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908004172 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 1380908004173 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 1380908004174 putative active site [active] 1380908004175 hypothetical protein; Provisional; Region: PRK11590 1380908004176 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1380908004177 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 1380908004178 nucleoside/Zn binding site; other site 1380908004179 dimer interface [polypeptide binding]; other site 1380908004180 catalytic motif [active] 1380908004181 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1380908004182 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 1380908004183 dimerization interface [polypeptide binding]; other site 1380908004184 ATP binding site [chemical binding]; other site 1380908004185 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1380908004186 dimerization interface [polypeptide binding]; other site 1380908004187 ATP binding site [chemical binding]; other site 1380908004188 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1380908004189 putative active site [active] 1380908004190 catalytic triad [active] 1380908004191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1380908004192 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 1380908004193 dimer interface [polypeptide binding]; other site 1380908004194 phosphorylation site [posttranslational modification] 1380908004195 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 1380908004196 ATP binding site [chemical binding]; other site 1380908004197 Mg2+ binding site [ion binding]; other site 1380908004198 G-X-G motif; other site 1380908004199 hypothetical protein; Provisional; Region: PRK10722 1380908004200 response regulator GlrR; Provisional; Region: PRK15115 1380908004201 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 1380908004202 active site 1380908004203 phosphorylation site [posttranslational modification] 1380908004204 intermolecular recognition site; other site 1380908004205 dimerization interface [polypeptide binding]; other site 1380908004206 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 1380908004207 Walker A motif; other site 1380908004208 ATP binding site [chemical binding]; other site 1380908004209 Walker B motif; other site 1380908004210 arginine finger; other site 1380908004211 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1380908004212 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1380908004213 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1380908004214 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 1380908004215 heme-binding site [chemical binding]; other site 1380908004216 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 1380908004217 FAD binding pocket [chemical binding]; other site 1380908004218 FAD binding motif [chemical binding]; other site 1380908004219 phosphate binding motif [ion binding]; other site 1380908004220 beta-alpha-beta structure motif; other site 1380908004221 NAD binding pocket [chemical binding]; other site 1380908004222 Heme binding pocket [chemical binding]; other site 1380908004223 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1380908004224 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 1380908004225 dimer interface [polypeptide binding]; other site 1380908004226 active site 1380908004227 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1380908004228 folate binding site [chemical binding]; other site 1380908004229 Predicted membrane protein [Function unknown]; Region: COG2259 1380908004230 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1380908004231 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1380908004232 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908004233 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1380908004234 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1380908004235 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 1380908004236 binding surface 1380908004237 TPR motif; other site 1380908004238 TPR repeat; Region: TPR_11; pfam13414 1380908004239 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 1380908004240 binding surface 1380908004241 TPR motif; other site 1380908004242 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1380908004243 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 1380908004244 putative substrate translocation pore; other site 1380908004245 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 1380908004246 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1380908004247 active site 1380908004248 catalytic residues [active] 1380908004249 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1380908004250 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 1380908004251 putative substrate translocation pore; other site 1380908004252 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1380908004253 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1380908004254 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1380908004255 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 1380908004256 active site 1380908004257 dimerization interface [polypeptide binding]; other site 1380908004258 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1380908004259 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1380908004260 Transcriptional regulator; Region: Rrf2; cl17282 1380908004261 Rrf2 family protein; Region: rrf2_super; TIGR00738 1380908004262 cysteine desulfurase; Provisional; Region: PRK14012 1380908004263 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1380908004264 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908004265 catalytic residue [active] 1380908004266 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1380908004267 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1380908004268 trimerization site [polypeptide binding]; other site 1380908004269 active site 1380908004270 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1380908004271 co-chaperone HscB; Provisional; Region: hscB; PRK05014 1380908004272 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 1380908004273 HSP70 interaction site [polypeptide binding]; other site 1380908004274 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1380908004275 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1380908004276 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1380908004277 nucleotide binding site [chemical binding]; other site 1380908004278 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1380908004279 SBD interface [polypeptide binding]; other site 1380908004280 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1380908004281 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 1380908004282 catalytic loop [active] 1380908004283 iron binding site [ion binding]; other site 1380908004284 hypothetical protein; Provisional; Region: PRK10721 1380908004285 aminopeptidase B; Provisional; Region: PRK05015 1380908004286 Peptidase; Region: DUF3663; pfam12404 1380908004287 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 1380908004288 interface (dimer of trimers) [polypeptide binding]; other site 1380908004289 Substrate-binding/catalytic site; other site 1380908004290 Zn-binding sites [ion binding]; other site 1380908004291 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 1380908004292 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1380908004293 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 1380908004294 active site residue [active] 1380908004295 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 1380908004296 active site residue [active] 1380908004297 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1380908004298 MG2 domain; Region: A2M_N; pfam01835 1380908004299 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1380908004300 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1380908004301 surface patch; other site 1380908004302 thioester region; other site 1380908004303 specificity defining residues; other site 1380908004304 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 1380908004305 active site 1380908004306 multimer interface [polypeptide binding]; other site 1380908004307 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1380908004308 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 1380908004309 FeS/SAM binding site; other site 1380908004310 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1380908004311 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 1380908004312 non-specific DNA binding site [nucleotide binding]; other site 1380908004313 salt bridge; other site 1380908004314 sequence-specific DNA binding site [nucleotide binding]; other site 1380908004315 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1380908004316 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1380908004317 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1380908004318 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1380908004319 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1380908004320 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 1380908004321 dimer interface [polypeptide binding]; other site 1380908004322 motif 1; other site 1380908004323 active site 1380908004324 motif 2; other site 1380908004325 motif 3; other site 1380908004326 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 1380908004327 anticodon binding site; other site 1380908004328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1380908004329 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1380908004330 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1380908004331 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1380908004332 Trp docking motif [polypeptide binding]; other site 1380908004333 GTP-binding protein Der; Reviewed; Region: PRK00093 1380908004334 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1380908004335 G1 box; other site 1380908004336 GTP/Mg2+ binding site [chemical binding]; other site 1380908004337 Switch I region; other site 1380908004338 G2 box; other site 1380908004339 Switch II region; other site 1380908004340 G3 box; other site 1380908004341 G4 box; other site 1380908004342 G5 box; other site 1380908004343 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1380908004344 G1 box; other site 1380908004345 GTP/Mg2+ binding site [chemical binding]; other site 1380908004346 Switch I region; other site 1380908004347 G2 box; other site 1380908004348 G3 box; other site 1380908004349 Switch II region; other site 1380908004350 G4 box; other site 1380908004351 G5 box; other site 1380908004352 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908004353 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908004354 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 1380908004355 Nucleolar RNA-binding protein, Nop10p family; Region: Nop10p; cl00977 1380908004356 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1380908004357 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 1380908004358 generic binding surface II; other site 1380908004359 generic binding surface I; other site 1380908004360 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1380908004361 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 1380908004362 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 1380908004363 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 1380908004364 active site 1380908004365 GMP synthase; Reviewed; Region: guaA; PRK00074 1380908004366 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1380908004367 AMP/PPi binding site [chemical binding]; other site 1380908004368 candidate oxyanion hole; other site 1380908004369 catalytic triad [active] 1380908004370 potential glutamine specificity residues [chemical binding]; other site 1380908004371 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 1380908004372 ATP Binding subdomain [chemical binding]; other site 1380908004373 Ligand Binding sites [chemical binding]; other site 1380908004374 Dimerization subdomain; other site 1380908004375 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1380908004376 Sulfatase; Region: Sulfatase; cl17466 1380908004377 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1380908004378 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 1380908004379 FeS/SAM binding site; other site 1380908004380 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1380908004381 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908004382 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 1380908004383 putative substrate translocation pore; other site 1380908004384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908004385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908004386 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 1380908004387 dimerization interface [polypeptide binding]; other site 1380908004388 MASE1; Region: MASE1; pfam05231 1380908004389 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908004390 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1380908004391 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 1380908004392 exopolyphosphatase; Provisional; Region: PRK10854 1380908004393 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1380908004394 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 1380908004395 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1380908004396 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1380908004397 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1380908004398 domain interface [polypeptide binding]; other site 1380908004399 active site 1380908004400 catalytic site [active] 1380908004401 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1380908004402 domain interface [polypeptide binding]; other site 1380908004403 active site 1380908004404 catalytic site [active] 1380908004405 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1380908004406 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1380908004407 active site 1380908004408 substrate binding site [chemical binding]; other site 1380908004409 cosubstrate binding site; other site 1380908004410 catalytic site [active] 1380908004411 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1380908004412 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 1380908004413 dimerization interface [polypeptide binding]; other site 1380908004414 putative ATP binding site [chemical binding]; other site 1380908004415 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 1380908004416 beta-galactosidase; Region: BGL; TIGR03356 1380908004417 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908004418 active site 1380908004419 uracil transporter; Provisional; Region: PRK10720 1380908004420 hypothetical protein; Provisional; Region: PRK09956 1380908004421 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1380908004422 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 1380908004423 ArsC family; Region: ArsC; pfam03960 1380908004424 catalytic residues [active] 1380908004425 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1380908004426 Peptidase family M48; Region: Peptidase_M48; cl12018 1380908004427 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1380908004428 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1380908004429 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1380908004430 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 1380908004431 catalytic triad [active] 1380908004432 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 1380908004433 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1380908004434 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1380908004435 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1380908004436 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1380908004437 dimer interface [polypeptide binding]; other site 1380908004438 active site 1380908004439 catalytic residue [active] 1380908004440 lipoprotein; Provisional; Region: PRK11679 1380908004441 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1380908004442 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1380908004443 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1380908004444 ATP binding site [chemical binding]; other site 1380908004445 active site 1380908004446 substrate binding site [chemical binding]; other site 1380908004447 Predicted metalloprotease [General function prediction only]; Region: COG2321 1380908004448 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1380908004449 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1380908004450 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1380908004451 Helicase; Region: Helicase_RecD; pfam05127 1380908004452 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1380908004453 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 1380908004454 putative hydrolase; Provisional; Region: PRK11460 1380908004455 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1380908004456 hypothetical protein; Provisional; Region: PRK13664 1380908004457 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1380908004458 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1380908004459 metal binding site [ion binding]; metal-binding site 1380908004460 dimer interface [polypeptide binding]; other site 1380908004461 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 1380908004462 ArsC family; Region: ArsC; pfam03960 1380908004463 putative catalytic residues [active] 1380908004464 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 1380908004465 Protein export membrane protein; Region: SecD_SecF; cl14618 1380908004466 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1380908004467 4Fe-4S binding domain; Region: Fer4; pfam00037 1380908004468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908004469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908004470 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1380908004471 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 1380908004472 dimer interface [polypeptide binding]; other site 1380908004473 ADP-ribose binding site [chemical binding]; other site 1380908004474 active site 1380908004475 nudix motif; other site 1380908004476 metal binding site [ion binding]; metal-binding site 1380908004477 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1380908004478 transketolase; Reviewed; Region: PRK12753 1380908004479 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 1380908004480 TPP-binding site [chemical binding]; other site 1380908004481 dimer interface [polypeptide binding]; other site 1380908004482 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 1380908004483 PYR/PP interface [polypeptide binding]; other site 1380908004484 dimer interface [polypeptide binding]; other site 1380908004485 TPP binding site [chemical binding]; other site 1380908004486 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1380908004487 transaldolase-like protein; Provisional; Region: PTZ00411 1380908004488 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1380908004489 active site 1380908004490 dimer interface [polypeptide binding]; other site 1380908004491 catalytic residue [active] 1380908004492 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1380908004493 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1380908004494 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1380908004495 putative NAD(P) binding site [chemical binding]; other site 1380908004496 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1380908004497 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1380908004498 putative hexamer interface [polypeptide binding]; other site 1380908004499 putative hexagonal pore; other site 1380908004500 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1380908004501 G1 box; other site 1380908004502 GTP/Mg2+ binding site [chemical binding]; other site 1380908004503 G2 box; other site 1380908004504 Switch I region; other site 1380908004505 G3 box; other site 1380908004506 Switch II region; other site 1380908004507 G4 box; other site 1380908004508 G5 box; other site 1380908004509 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1380908004510 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 1380908004511 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 1380908004512 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1380908004513 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1380908004514 Hexamer/Pentamer interface [polypeptide binding]; other site 1380908004515 central pore; other site 1380908004516 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 1380908004517 NAD(P) binding site [chemical binding]; other site 1380908004518 catalytic residues [active] 1380908004519 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 1380908004520 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908004521 nucleotide binding site [chemical binding]; other site 1380908004522 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 1380908004523 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1380908004524 active site 1380908004525 metal binding site [ion binding]; metal-binding site 1380908004526 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 1380908004527 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 1380908004528 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1380908004529 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 1380908004530 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 1380908004531 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 1380908004532 putative hexamer interface [polypeptide binding]; other site 1380908004533 putative hexagonal pore; other site 1380908004534 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 1380908004535 putative hexamer interface [polypeptide binding]; other site 1380908004536 putative hexagonal pore; other site 1380908004537 carboxysome structural protein EutK; Provisional; Region: PRK15466 1380908004538 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1380908004539 Hexamer interface [polypeptide binding]; other site 1380908004540 Hexagonal pore residue; other site 1380908004541 transcriptional regulator EutR; Provisional; Region: PRK10130 1380908004542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908004543 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1380908004544 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1380908004545 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 1380908004546 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 1380908004547 active site 1380908004548 metal binding site [ion binding]; metal-binding site 1380908004549 putative acetyltransferase; Provisional; Region: PRK03624 1380908004550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908004551 Coenzyme A binding pocket [chemical binding]; other site 1380908004552 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 1380908004553 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 1380908004554 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1380908004555 thiosulfate transporter subunit; Provisional; Region: PRK10852 1380908004556 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1380908004557 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1380908004558 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 1380908004559 dimer interface [polypeptide binding]; other site 1380908004560 conserved gate region; other site 1380908004561 putative PBP binding loops; other site 1380908004562 ABC-ATPase subunit interface; other site 1380908004563 sulfate transport protein; Provisional; Region: cysT; CHL00187 1380908004564 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 1380908004565 dimer interface [polypeptide binding]; other site 1380908004566 conserved gate region; other site 1380908004567 putative PBP binding loops; other site 1380908004568 ABC-ATPase subunit interface; other site 1380908004569 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 1380908004570 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1380908004571 Walker A/P-loop; other site 1380908004572 ATP binding site [chemical binding]; other site 1380908004573 Q-loop/lid; other site 1380908004574 ABC transporter signature motif; other site 1380908004575 Walker B; other site 1380908004576 D-loop; other site 1380908004577 H-loop/switch region; other site 1380908004578 TOBE-like domain; Region: TOBE_3; pfam12857 1380908004579 cysteine synthase B; Region: cysM; TIGR01138 1380908004580 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 1380908004581 dimer interface [polypeptide binding]; other site 1380908004582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908004583 catalytic residue [active] 1380908004584 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1380908004585 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1380908004586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908004587 DNA-binding site [nucleotide binding]; DNA binding site 1380908004588 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 1380908004589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908004590 homodimer interface [polypeptide binding]; other site 1380908004591 catalytic residue [active] 1380908004592 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1380908004593 dimer interface [polypeptide binding]; other site 1380908004594 pyridoxamine kinase; Validated; Region: PRK05756 1380908004595 pyridoxal binding site [chemical binding]; other site 1380908004596 ATP binding site [chemical binding]; other site 1380908004597 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 1380908004598 HPr interaction site; other site 1380908004599 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1380908004600 active site 1380908004601 phosphorylation site [posttranslational modification] 1380908004602 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1380908004603 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1380908004604 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1380908004605 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1380908004606 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 1380908004607 dimerization domain swap beta strand [polypeptide binding]; other site 1380908004608 regulatory protein interface [polypeptide binding]; other site 1380908004609 active site 1380908004610 regulatory phosphorylation site [posttranslational modification]; other site 1380908004611 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1380908004612 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 1380908004613 dimer interface [polypeptide binding]; other site 1380908004614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908004615 catalytic residue [active] 1380908004616 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1380908004617 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1380908004618 cell division protein ZipA; Provisional; Region: PRK03427 1380908004619 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 1380908004620 FtsZ protein binding site [polypeptide binding]; other site 1380908004621 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1380908004622 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 1380908004623 nucleotide binding pocket [chemical binding]; other site 1380908004624 K-X-D-G motif; other site 1380908004625 catalytic site [active] 1380908004626 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1380908004627 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1380908004628 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 1380908004629 Dimer interface [polypeptide binding]; other site 1380908004630 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1380908004631 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1380908004632 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1380908004633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908004634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908004635 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 1380908004636 putative dimerization interface [polypeptide binding]; other site 1380908004637 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1380908004638 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1380908004639 active site 1380908004640 HIGH motif; other site 1380908004641 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1380908004642 active site 1380908004643 KMSKS motif; other site 1380908004644 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1380908004645 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1380908004646 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1380908004647 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1380908004648 Nucleoside recognition; Region: Gate; pfam07670 1380908004649 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1380908004650 manganese transport protein MntH; Reviewed; Region: PRK00701 1380908004651 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1380908004652 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 1380908004653 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 1380908004654 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908004655 active site 1380908004656 catalytic tetrad [active] 1380908004657 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 1380908004658 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 1380908004659 dimer interface [polypeptide binding]; other site 1380908004660 PYR/PP interface [polypeptide binding]; other site 1380908004661 TPP binding site [chemical binding]; other site 1380908004662 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908004663 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 1380908004664 TPP-binding site [chemical binding]; other site 1380908004665 dimer interface [polypeptide binding]; other site 1380908004666 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1380908004667 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 1380908004668 Cl- selectivity filter; other site 1380908004669 Cl- binding residues [ion binding]; other site 1380908004670 pore gating glutamate residue; other site 1380908004671 dimer interface [polypeptide binding]; other site 1380908004672 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1380908004673 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 1380908004674 active site 1380908004675 phosphorylation site [posttranslational modification] 1380908004676 intermolecular recognition site; other site 1380908004677 dimerization interface [polypeptide binding]; other site 1380908004678 LytTr DNA-binding domain; Region: LytTR; pfam04397 1380908004679 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1380908004680 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1380908004681 Histidine kinase; Region: His_kinase; pfam06580 1380908004682 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 1380908004683 ATP binding site [chemical binding]; other site 1380908004684 Mg2+ binding site [ion binding]; other site 1380908004685 G-X-G motif; other site 1380908004686 aminotransferase; Validated; Region: PRK08175 1380908004687 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 1380908004688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908004689 homodimer interface [polypeptide binding]; other site 1380908004690 catalytic residue [active] 1380908004691 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 1380908004692 nucleoside/Zn binding site; other site 1380908004693 dimer interface [polypeptide binding]; other site 1380908004694 catalytic motif [active] 1380908004695 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1380908004696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908004697 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 1380908004698 dimerization interface [polypeptide binding]; other site 1380908004699 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1380908004700 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1380908004701 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 1380908004702 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 1380908004703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1380908004704 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1380908004705 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 1380908004706 dimer interface [polypeptide binding]; other site 1380908004707 active site 1380908004708 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1380908004709 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 1380908004710 substrate binding site [chemical binding]; other site 1380908004711 oxyanion hole (OAH) forming residues; other site 1380908004712 trimer interface [polypeptide binding]; other site 1380908004713 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1380908004714 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908004715 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908004716 hypothetical protein; Provisional; Region: PRK04946 1380908004717 Smr domain; Region: Smr; pfam01713 1380908004718 HemK family putative methylases; Region: hemK_fam; TIGR00536 1380908004719 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 1380908004720 S-adenosylmethionine binding site [chemical binding]; other site 1380908004721 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1380908004722 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1380908004723 Tetramer interface [polypeptide binding]; other site 1380908004724 active site 1380908004725 FMN-binding site [chemical binding]; other site 1380908004726 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1380908004727 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1380908004728 hypothetical protein; Provisional; Region: PRK10621 1380908004729 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1380908004730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 1380908004731 YfcL protein; Region: YfcL; pfam08891 1380908004732 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1380908004733 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1380908004734 putative transporter; Provisional; Region: PRK12382 1380908004735 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 1380908004736 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 1380908004737 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1380908004738 ligand binding site [chemical binding]; other site 1380908004739 NAD binding site [chemical binding]; other site 1380908004740 catalytic site [active] 1380908004741 homodimer interface [polypeptide binding]; other site 1380908004742 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 1380908004743 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1380908004744 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1380908004745 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1380908004746 cell division protein DedD; Provisional; Region: PRK11633 1380908004747 Sporulation related domain; Region: SPOR; pfam05036 1380908004748 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1380908004749 colicin V production protein; Provisional; Region: PRK10845 1380908004750 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1380908004751 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 1380908004752 active site 1380908004753 tetramer interface [polypeptide binding]; other site 1380908004754 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908004755 active site 1380908004756 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1380908004757 Flavoprotein; Region: Flavoprotein; pfam02441 1380908004758 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 1380908004759 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 1380908004760 substrate binding pocket [chemical binding]; other site 1380908004761 membrane-bound complex binding site; other site 1380908004762 hinge residues; other site 1380908004763 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1380908004764 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 1380908004765 substrate binding pocket [chemical binding]; other site 1380908004766 membrane-bound complex binding site; other site 1380908004767 hinge residues; other site 1380908004768 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908004769 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 1380908004770 dimer interface [polypeptide binding]; other site 1380908004771 conserved gate region; other site 1380908004772 putative PBP binding loops; other site 1380908004773 ABC-ATPase subunit interface; other site 1380908004774 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908004775 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 1380908004776 dimer interface [polypeptide binding]; other site 1380908004777 conserved gate region; other site 1380908004778 putative PBP binding loops; other site 1380908004779 ABC-ATPase subunit interface; other site 1380908004780 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 1380908004781 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908004782 Walker A/P-loop; other site 1380908004783 ATP binding site [chemical binding]; other site 1380908004784 Q-loop/lid; other site 1380908004785 ABC transporter signature motif; other site 1380908004786 Walker B; other site 1380908004787 D-loop; other site 1380908004788 H-loop/switch region; other site 1380908004789 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1380908004790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908004791 Coenzyme A binding pocket [chemical binding]; other site 1380908004792 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1380908004793 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1380908004794 putative NAD(P) binding site [chemical binding]; other site 1380908004795 putative active site [active] 1380908004796 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1380908004797 homooctamer interface [polypeptide binding]; other site 1380908004798 active site 1380908004799 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1380908004800 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 1380908004801 C-terminal domain interface [polypeptide binding]; other site 1380908004802 GSH binding site (G-site) [chemical binding]; other site 1380908004803 dimer interface [polypeptide binding]; other site 1380908004804 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1380908004805 N-terminal domain interface [polypeptide binding]; other site 1380908004806 putative dimer interface [polypeptide binding]; other site 1380908004807 active site 1380908004808 glutathione S-transferase; Provisional; Region: PRK15113 1380908004809 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 1380908004810 C-terminal domain interface [polypeptide binding]; other site 1380908004811 GSH binding site (G-site) [chemical binding]; other site 1380908004812 dimer interface [polypeptide binding]; other site 1380908004813 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 1380908004814 N-terminal domain interface [polypeptide binding]; other site 1380908004815 putative dimer interface [polypeptide binding]; other site 1380908004816 putative substrate binding pocket (H-site) [chemical binding]; other site 1380908004817 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1380908004818 active site 1380908004819 metal binding site [ion binding]; metal-binding site 1380908004820 homotetramer interface [polypeptide binding]; other site 1380908004821 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1380908004822 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_38; cd04697 1380908004823 nudix motif; other site 1380908004824 phosphate acetyltransferase; Reviewed; Region: PRK05632 1380908004825 DRTGG domain; Region: DRTGG; pfam07085 1380908004826 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1380908004827 hypothetical protein; Validated; Region: PRK05445 1380908004828 putative phosphatase; Provisional; Region: PRK11587 1380908004829 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 1380908004830 motif II; other site 1380908004831 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908004832 Zn2+ binding site [ion binding]; other site 1380908004833 Mg2+ binding site [ion binding]; other site 1380908004834 aminotransferase AlaT; Validated; Region: PRK09265 1380908004835 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 1380908004836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908004837 homodimer interface [polypeptide binding]; other site 1380908004838 catalytic residue [active] 1380908004839 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1380908004840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908004841 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1380908004842 putative dimerization interface [polypeptide binding]; other site 1380908004843 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1380908004844 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1380908004845 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1380908004846 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1380908004847 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1380908004848 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1380908004849 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 1380908004850 putative dimer interface [polypeptide binding]; other site 1380908004851 [2Fe-2S] cluster binding site [ion binding]; other site 1380908004852 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1380908004853 SLBB domain; Region: SLBB; pfam10531 1380908004854 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1380908004855 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1380908004856 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1380908004857 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1380908004858 [4Fe-4S] binding site [ion binding]; other site 1380908004859 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1380908004860 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1380908004861 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1380908004862 4Fe-4S binding domain; Region: Fer4; pfam00037 1380908004863 4Fe-4S binding domain; Region: Fer4; pfam00037 1380908004864 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1380908004865 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1380908004866 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1380908004867 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1380908004868 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1380908004869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1380908004870 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1380908004871 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1380908004872 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1380908004873 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1380908004874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1380908004875 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 1380908004876 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1380908004877 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 1380908004878 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1380908004879 substrate binding site [chemical binding]; other site 1380908004880 oxyanion hole (OAH) forming residues; other site 1380908004881 trimer interface [polypeptide binding]; other site 1380908004882 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1380908004883 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1380908004884 active site 1380908004885 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1380908004886 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1380908004887 acyl-activating enzyme (AAE) consensus motif; other site 1380908004888 putative AMP binding site [chemical binding]; other site 1380908004889 putative active site [active] 1380908004890 putative CoA binding site [chemical binding]; other site 1380908004891 putative transposase; Provisional; Region: PRK09857 1380908004892 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1380908004893 YfaZ precursor; Region: YfaZ; pfam07437 1380908004894 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1380908004895 hypothetical protein; Provisional; Region: PRK03673 1380908004896 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 1380908004897 putative MPT binding site; other site 1380908004898 Competence-damaged protein; Region: CinA; cl00666 1380908004899 L-rhamnonate dehydratase; Provisional; Region: PRK15440 1380908004900 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 1380908004901 putative active site pocket [active] 1380908004902 putative metal binding site [ion binding]; other site 1380908004903 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 1380908004904 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 1380908004905 Cysteine-rich domain; Region: CCG; pfam02754 1380908004906 Cysteine-rich domain; Region: CCG; pfam02754 1380908004907 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 1380908004908 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1380908004909 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 1380908004910 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1380908004911 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1380908004912 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1380908004913 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 1380908004914 putative substrate translocation pore; other site 1380908004915 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1380908004916 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1380908004917 active site 1380908004918 catalytic site [active] 1380908004919 metal binding site [ion binding]; metal-binding site 1380908004920 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1380908004921 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 1380908004922 catalytic loop [active] 1380908004923 iron binding site [ion binding]; other site 1380908004924 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1380908004925 dimer interface [polypeptide binding]; other site 1380908004926 putative radical transfer pathway; other site 1380908004927 diiron center [ion binding]; other site 1380908004928 tyrosyl radical; other site 1380908004929 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1380908004930 ATP cone domain; Region: ATP-cone; pfam03477 1380908004931 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1380908004932 active site 1380908004933 dimer interface [polypeptide binding]; other site 1380908004934 catalytic residues [active] 1380908004935 effector binding site; other site 1380908004936 R2 peptide binding site; other site 1380908004937 DNA gyrase subunit A; Validated; Region: PRK05560 1380908004938 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 1380908004939 CAP-like domain; other site 1380908004940 active site 1380908004941 primary dimer interface [polypeptide binding]; other site 1380908004942 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1380908004943 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1380908004944 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1380908004945 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1380908004946 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1380908004947 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1380908004948 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 1380908004949 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 1380908004950 dimer interface [polypeptide binding]; other site 1380908004951 phosphorylation site [posttranslational modification] 1380908004952 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 1380908004953 ATP binding site [chemical binding]; other site 1380908004954 Mg2+ binding site [ion binding]; other site 1380908004955 G-X-G motif; other site 1380908004956 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 1380908004957 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 1380908004958 active site 1380908004959 phosphorylation site [posttranslational modification] 1380908004960 intermolecular recognition site; other site 1380908004961 dimerization interface [polypeptide binding]; other site 1380908004962 transcriptional regulator RcsB; Provisional; Region: PRK10840 1380908004963 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 1380908004964 active site 1380908004965 phosphorylation site [posttranslational modification] 1380908004966 intermolecular recognition site; other site 1380908004967 dimerization interface [polypeptide binding]; other site 1380908004968 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 1380908004969 DNA binding residues [nucleotide binding] 1380908004970 dimerization interface [polypeptide binding]; other site 1380908004971 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 1380908004972 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 1380908004973 ATP binding site [chemical binding]; other site 1380908004974 Mg2+ binding site [ion binding]; other site 1380908004975 G-X-G motif; other site 1380908004976 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 1380908004977 putative binding surface; other site 1380908004978 active site 1380908004979 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1380908004980 outer membrane porin protein C; Provisional; Region: PRK10554 1380908004981 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 1380908004982 ApbE family; Region: ApbE; pfam02424 1380908004983 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1380908004984 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1380908004985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908004986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908004987 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1380908004988 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 1380908004989 DNA binding site [nucleotide binding] 1380908004990 active site 1380908004991 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1380908004992 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 1380908004993 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1380908004994 Walker A/P-loop; other site 1380908004995 ATP binding site [chemical binding]; other site 1380908004996 Q-loop/lid; other site 1380908004997 ABC transporter signature motif; other site 1380908004998 Walker B; other site 1380908004999 D-loop; other site 1380908005000 H-loop/switch region; other site 1380908005001 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1380908005002 MgtE intracellular N domain; Region: MgtE_N; smart00924 1380908005003 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 1380908005004 Divalent cation transporter; Region: MgtE; cl00786 1380908005005 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1380908005006 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1380908005007 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1380908005008 malate:quinone oxidoreductase; Validated; Region: PRK05257 1380908005009 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1380908005010 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 1380908005011 secondary substrate binding site; other site 1380908005012 primary substrate binding site; other site 1380908005013 inhibition loop; other site 1380908005014 dimerization interface [polypeptide binding]; other site 1380908005015 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1380908005016 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1380908005017 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1380908005018 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1380908005019 Sulfatase; Region: Sulfatase; cl17466 1380908005020 hypothetical protein; Provisional; Region: PRK13689 1380908005021 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1380908005022 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1380908005023 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908005024 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908005025 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908005026 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1380908005027 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 1380908005028 dimer interface [polypeptide binding]; other site 1380908005029 ADP-ribose binding site [chemical binding]; other site 1380908005030 active site 1380908005031 nudix motif; other site 1380908005032 metal binding site [ion binding]; metal-binding site 1380908005033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908005034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005035 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 1380908005036 dimerization interface [polypeptide binding]; other site 1380908005037 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1380908005038 5S rRNA interface [nucleotide binding]; other site 1380908005039 CTC domain interface [polypeptide binding]; other site 1380908005040 L16 interface [polypeptide binding]; other site 1380908005041 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1380908005042 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 1380908005043 ATP binding site [chemical binding]; other site 1380908005044 putative Mg++ binding site [ion binding]; other site 1380908005045 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 1380908005046 nucleotide binding region [chemical binding]; other site 1380908005047 ATP-binding site [chemical binding]; other site 1380908005048 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1380908005049 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 1380908005050 RNA binding surface [nucleotide binding]; other site 1380908005051 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1380908005052 active site 1380908005053 uracil binding [chemical binding]; other site 1380908005054 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 1380908005055 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1380908005056 putative substrate translocation pore; other site 1380908005057 hypothetical protein; Provisional; Region: PRK11835 1380908005058 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 1380908005059 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908005060 Walker A/P-loop; other site 1380908005061 ATP binding site [chemical binding]; other site 1380908005062 Q-loop/lid; other site 1380908005063 ABC transporter signature motif; other site 1380908005064 Walker B; other site 1380908005065 D-loop; other site 1380908005066 H-loop/switch region; other site 1380908005067 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908005068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908005069 Walker A/P-loop; other site 1380908005070 ATP binding site [chemical binding]; other site 1380908005071 Q-loop/lid; other site 1380908005072 ABC transporter signature motif; other site 1380908005073 Walker B; other site 1380908005074 D-loop; other site 1380908005075 H-loop/switch region; other site 1380908005076 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908005077 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1380908005078 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 1380908005079 dimer interface [polypeptide binding]; other site 1380908005080 conserved gate region; other site 1380908005081 putative PBP binding loops; other site 1380908005082 ABC-ATPase subunit interface; other site 1380908005083 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1380908005084 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 1380908005085 phage resistance protein; Provisional; Region: PRK10551 1380908005086 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1380908005087 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 1380908005088 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1380908005089 NlpC/P60 family; Region: NLPC_P60; pfam00877 1380908005090 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1380908005091 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 1380908005092 active site 1380908005093 mannonate dehydratase; Provisional; Region: PRK03906 1380908005094 mannonate dehydratase; Region: uxuA; TIGR00695 1380908005095 elongation factor P; Provisional; Region: PRK04542 1380908005096 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1380908005097 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 1380908005098 RNA binding site [nucleotide binding]; other site 1380908005099 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 1380908005100 RNA binding site [nucleotide binding]; other site 1380908005101 sugar efflux transporter B; Provisional; Region: PRK15011 1380908005102 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 1380908005103 putative substrate translocation pore; other site 1380908005104 endonuclease IV; Provisional; Region: PRK01060 1380908005105 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1380908005106 DNA interaction; other site 1380908005107 Metal-binding active site; metal-binding site 1380908005108 AP (apurinic/apyrimidinic) site pocket; other site 1380908005109 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1380908005110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005111 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 1380908005112 putative dimerization interface [polypeptide binding]; other site 1380908005113 lysine transporter; Provisional; Region: PRK10836 1380908005114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908005115 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908005116 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908005117 putative transposase OrfB; Reviewed; Region: PHA02517 1380908005118 HTH-like domain; Region: HTH_21; pfam13276 1380908005119 Integrase core domain; Region: rve; pfam00665 1380908005120 Integrase core domain; Region: rve_2; pfam13333 1380908005121 GTP cyclohydrolase I; Provisional; Region: PLN03044 1380908005122 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 1380908005123 active site 1380908005124 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1380908005125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908005126 DNA binding site [nucleotide binding] 1380908005127 domain linker motif; other site 1380908005128 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1380908005129 dimerization interface (closed form) [polypeptide binding]; other site 1380908005130 ligand binding site [chemical binding]; other site 1380908005131 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1380908005132 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1380908005133 ligand binding site [chemical binding]; other site 1380908005134 calcium binding site [ion binding]; other site 1380908005135 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908005136 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1380908005137 Walker A/P-loop; other site 1380908005138 ATP binding site [chemical binding]; other site 1380908005139 Q-loop/lid; other site 1380908005140 ABC transporter signature motif; other site 1380908005141 Walker B; other site 1380908005142 D-loop; other site 1380908005143 H-loop/switch region; other site 1380908005144 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908005145 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908005146 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 1380908005147 TM-ABC transporter signature motif; other site 1380908005148 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 1380908005149 putative active site [active] 1380908005150 hypothetical protein; Provisional; Region: PRK10711 1380908005151 hypothetical protein; Provisional; Region: PRK01821 1380908005152 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1380908005153 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 1380908005154 FMN binding site [chemical binding]; other site 1380908005155 active site 1380908005156 catalytic residues [active] 1380908005157 substrate binding site [chemical binding]; other site 1380908005158 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1380908005159 CAT RNA binding domain; Region: CAT_RBD; smart01061 1380908005160 PRD domain; Region: PRD; pfam00874 1380908005161 PRD domain; Region: PRD; pfam00874 1380908005162 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 1380908005163 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1380908005164 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1380908005165 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1380908005166 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1380908005167 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1380908005168 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1380908005169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908005170 Coenzyme A binding pocket [chemical binding]; other site 1380908005171 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1380908005172 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1380908005173 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1380908005174 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 1380908005175 dimer interface [polypeptide binding]; other site 1380908005176 conserved gate region; other site 1380908005177 putative PBP binding loops; other site 1380908005178 ABC-ATPase subunit interface; other site 1380908005179 hypothetical protein; Provisional; Region: PRK13681 1380908005180 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1380908005181 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1380908005182 GAF domain; Region: GAF; pfam01590 1380908005183 Histidine kinase; Region: His_kinase; pfam06580 1380908005184 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 1380908005185 ATP binding site [chemical binding]; other site 1380908005186 Mg2+ binding site [ion binding]; other site 1380908005187 G-X-G motif; other site 1380908005188 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1380908005189 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 1380908005190 active site 1380908005191 phosphorylation site [posttranslational modification] 1380908005192 intermolecular recognition site; other site 1380908005193 dimerization interface [polypeptide binding]; other site 1380908005194 LytTr DNA-binding domain; Region: LytTR; pfam04397 1380908005195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1380908005196 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1380908005197 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1380908005198 antiporter inner membrane protein; Provisional; Region: PRK11670 1380908005199 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 1380908005200 Walker A motif; other site 1380908005201 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908005202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908005203 Coenzyme A binding pocket [chemical binding]; other site 1380908005204 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1380908005205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908005206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005207 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 1380908005208 putative effector binding pocket; other site 1380908005209 dimerization interface [polypeptide binding]; other site 1380908005210 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1380908005211 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1380908005212 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1380908005213 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1380908005214 active site 1380908005215 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1380908005216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908005217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005218 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 1380908005219 dimerization interface [polypeptide binding]; other site 1380908005220 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 1380908005221 Ligand Binding Site [chemical binding]; other site 1380908005222 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1380908005223 substrate binding site [chemical binding]; other site 1380908005224 multimerization interface [polypeptide binding]; other site 1380908005225 ATP binding site [chemical binding]; other site 1380908005226 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 1380908005227 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1380908005228 putative active site; other site 1380908005229 catalytic residue [active] 1380908005230 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1380908005231 classical (c) SDRs; Region: SDR_c; cd05233 1380908005232 NAD(P) binding site [chemical binding]; other site 1380908005233 active site 1380908005234 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1380908005235 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1380908005236 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1380908005237 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1380908005238 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 1380908005239 putative active site pocket [active] 1380908005240 metal binding site [ion binding]; metal-binding site 1380908005241 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1380908005242 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908005243 Walker A/P-loop; other site 1380908005244 ATP binding site [chemical binding]; other site 1380908005245 Q-loop/lid; other site 1380908005246 ABC transporter signature motif; other site 1380908005247 Walker B; other site 1380908005248 D-loop; other site 1380908005249 H-loop/switch region; other site 1380908005250 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908005251 lipid kinase; Reviewed; Region: PRK13054 1380908005252 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1380908005253 putative protease; Provisional; Region: PRK15452 1380908005254 Peptidase family U32; Region: Peptidase_U32; pfam01136 1380908005255 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1380908005256 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 1380908005257 active site 1380908005258 phosphorylation site [posttranslational modification] 1380908005259 intermolecular recognition site; other site 1380908005260 dimerization interface [polypeptide binding]; other site 1380908005261 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 1380908005262 DNA binding site [nucleotide binding] 1380908005263 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1380908005264 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 1380908005265 dimerization interface [polypeptide binding]; other site 1380908005266 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 1380908005267 dimer interface [polypeptide binding]; other site 1380908005268 phosphorylation site [posttranslational modification] 1380908005269 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 1380908005270 ATP binding site [chemical binding]; other site 1380908005271 Mg2+ binding site [ion binding]; other site 1380908005272 G-X-G motif; other site 1380908005273 putative transporter; Provisional; Region: PRK10504 1380908005274 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 1380908005275 putative substrate translocation pore; other site 1380908005276 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 1380908005277 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1380908005278 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908005279 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908005280 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1380908005281 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1380908005282 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1380908005283 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 1380908005284 ATP-binding site [chemical binding]; other site 1380908005285 Sugar specificity; other site 1380908005286 Pyrimidine base specificity; other site 1380908005287 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1380908005288 trimer interface [polypeptide binding]; other site 1380908005289 active site 1380908005290 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1380908005291 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1380908005292 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1380908005293 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1380908005294 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1380908005295 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1380908005296 Substrate binding site; other site 1380908005297 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1380908005298 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1380908005299 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1380908005300 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1380908005301 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1380908005302 Walker A/P-loop; other site 1380908005303 ATP binding site [chemical binding]; other site 1380908005304 Q-loop/lid; other site 1380908005305 ABC transporter signature motif; other site 1380908005306 Walker B; other site 1380908005307 D-loop; other site 1380908005308 H-loop/switch region; other site 1380908005309 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1380908005310 putative carbohydrate binding site [chemical binding]; other site 1380908005311 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1380908005312 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_4; cd03795 1380908005313 putative ADP-binding pocket [chemical binding]; other site 1380908005314 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 1380908005315 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1380908005316 catalytic residues [active] 1380908005317 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1380908005318 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1380908005319 putative active site [active] 1380908005320 oxyanion strand; other site 1380908005321 catalytic triad [active] 1380908005322 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1380908005323 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 1380908005324 active site 1380908005325 motif I; other site 1380908005326 motif II; other site 1380908005327 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1380908005328 putative active site pocket [active] 1380908005329 4-fold oligomerization interface [polypeptide binding]; other site 1380908005330 metal binding residues [ion binding]; metal-binding site 1380908005331 3-fold/trimer interface [polypeptide binding]; other site 1380908005332 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1380908005333 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 1380908005334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908005335 homodimer interface [polypeptide binding]; other site 1380908005336 catalytic residue [active] 1380908005337 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1380908005338 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 1380908005339 NAD binding site [chemical binding]; other site 1380908005340 dimerization interface [polypeptide binding]; other site 1380908005341 product binding site; other site 1380908005342 substrate binding site [chemical binding]; other site 1380908005343 zinc binding site [ion binding]; other site 1380908005344 catalytic residues [active] 1380908005345 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1380908005346 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1380908005347 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1380908005348 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1380908005349 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1380908005350 putative NAD(P) binding site [chemical binding]; other site 1380908005351 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 1380908005352 dimerization interface [polypeptide binding]; other site 1380908005353 putative DNA binding site [nucleotide binding]; other site 1380908005354 putative Zn2+ binding site [ion binding]; other site 1380908005355 exonuclease I; Provisional; Region: sbcB; PRK11779 1380908005356 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1380908005357 active site 1380908005358 catalytic site [active] 1380908005359 substrate binding site [chemical binding]; other site 1380908005360 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1380908005361 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1380908005362 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1380908005363 putative active site [active] 1380908005364 putative NTP binding site [chemical binding]; other site 1380908005365 putative nucleic acid binding site [nucleotide binding]; other site 1380908005366 Predicted membrane protein [Function unknown]; Region: COG1289 1380908005367 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1380908005368 hypothetical protein; Provisional; Region: PRK05423 1380908005369 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1380908005370 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1380908005371 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1380908005372 putative dimer interface [polypeptide binding]; other site 1380908005373 active site pocket [active] 1380908005374 putative cataytic base [active] 1380908005375 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1380908005376 NAD binding site [chemical binding]; other site 1380908005377 HPP family; Region: HPP; pfam04982 1380908005378 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1380908005379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908005380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005381 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 1380908005382 putative effector binding pocket; other site 1380908005383 dimerization interface [polypeptide binding]; other site 1380908005384 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1380908005385 shikimate transporter; Provisional; Region: PRK09952 1380908005386 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 1380908005387 putative substrate translocation pore; other site 1380908005388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908005389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908005390 metal binding site [ion binding]; metal-binding site 1380908005391 active site 1380908005392 I-site; other site 1380908005393 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 1380908005394 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 1380908005395 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1380908005396 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1380908005397 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1380908005398 GAF domain; Region: GAF; pfam01590 1380908005399 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908005400 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908005401 metal binding site [ion binding]; metal-binding site 1380908005402 active site 1380908005403 I-site; other site 1380908005404 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1380908005405 active site 1380908005406 substrate binding site [chemical binding]; other site 1380908005407 ATP binding site [chemical binding]; other site 1380908005408 AMP nucleosidase; Provisional; Region: PRK08292 1380908005409 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1380908005410 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1380908005411 signal transduction protein PmrD; Provisional; Region: PRK15450 1380908005412 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1380908005413 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1380908005414 NADP binding site [chemical binding]; other site 1380908005415 dimer interface [polypeptide binding]; other site 1380908005416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908005417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908005418 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1380908005419 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1380908005420 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1380908005421 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 1380908005422 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 1380908005423 dimerization interface [polypeptide binding]; other site 1380908005424 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 1380908005425 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1380908005426 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908005427 Zn2+ binding site [ion binding]; other site 1380908005428 Mg2+ binding site [ion binding]; other site 1380908005429 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1380908005430 EamA-like transporter family; Region: EamA; pfam00892 1380908005431 hypothetical protein; Provisional; Region: PRK10062 1380908005432 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 1380908005433 lipoprotein; Provisional; Region: PRK10397 1380908005434 cystine transporter subunit; Provisional; Region: PRK11260 1380908005435 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 1380908005436 substrate binding pocket [chemical binding]; other site 1380908005437 membrane-bound complex binding site; other site 1380908005438 hinge residues; other site 1380908005439 D-cysteine desulfhydrase; Validated; Region: PRK03910 1380908005440 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1380908005441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908005442 catalytic residue [active] 1380908005443 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908005444 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 1380908005445 dimer interface [polypeptide binding]; other site 1380908005446 conserved gate region; other site 1380908005447 putative PBP binding loops; other site 1380908005448 ABC-ATPase subunit interface; other site 1380908005449 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1380908005450 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908005451 Walker A/P-loop; other site 1380908005452 ATP binding site [chemical binding]; other site 1380908005453 Q-loop/lid; other site 1380908005454 ABC transporter signature motif; other site 1380908005455 Walker B; other site 1380908005456 D-loop; other site 1380908005457 H-loop/switch region; other site 1380908005458 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1380908005459 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1380908005460 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 1380908005461 DNA binding residues [nucleotide binding] 1380908005462 dimerization interface [polypeptide binding]; other site 1380908005463 hypothetical protein; Provisional; Region: PRK10613 1380908005464 response regulator; Provisional; Region: PRK09483 1380908005465 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 1380908005466 active site 1380908005467 phosphorylation site [posttranslational modification] 1380908005468 intermolecular recognition site; other site 1380908005469 dimerization interface [polypeptide binding]; other site 1380908005470 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 1380908005471 DNA binding residues [nucleotide binding] 1380908005472 dimerization interface [polypeptide binding]; other site 1380908005473 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1380908005474 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1380908005475 GIY-YIG motif/motif A; other site 1380908005476 active site 1380908005477 catalytic site [active] 1380908005478 putative DNA binding site [nucleotide binding]; other site 1380908005479 metal binding site [ion binding]; metal-binding site 1380908005480 UvrB/uvrC motif; Region: UVR; pfam02151 1380908005481 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1380908005482 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 1380908005483 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1380908005484 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1380908005485 active site 1380908005486 inhibitor site; inhibition site 1380908005487 dimer interface [polypeptide binding]; other site 1380908005488 catalytic residue [active] 1380908005489 hypothetical protein; Provisional; Region: PRK10396 1380908005490 yecA family protein; Region: ygfB_yecA; TIGR02292 1380908005491 SEC-C motif; Region: SEC-C; pfam02810 1380908005492 probable metal-binding protein; Region: matur_matur; TIGR03853 1380908005493 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1380908005494 Ferritin-like domain; Region: Ferritin; pfam00210 1380908005495 ferroxidase diiron center [ion binding]; other site 1380908005496 hypothetical protein; Provisional; Region: PRK09273 1380908005497 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1380908005498 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1380908005499 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 1380908005500 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908005501 putative substrate translocation pore; other site 1380908005502 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 1380908005503 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908005504 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1380908005505 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1380908005506 Ferritin-like domain; Region: Ferritin; pfam00210 1380908005507 ferroxidase diiron center [ion binding]; other site 1380908005508 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1380908005509 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1380908005510 ligand binding site [chemical binding]; other site 1380908005511 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1380908005512 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908005513 Walker A/P-loop; other site 1380908005514 ATP binding site [chemical binding]; other site 1380908005515 Q-loop/lid; other site 1380908005516 ABC transporter signature motif; other site 1380908005517 Walker B; other site 1380908005518 D-loop; other site 1380908005519 H-loop/switch region; other site 1380908005520 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908005521 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 1380908005522 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908005523 TM-ABC transporter signature motif; other site 1380908005524 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1380908005525 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1380908005526 active site 1380908005527 homotetramer interface [polypeptide binding]; other site 1380908005528 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908005529 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 1380908005530 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1380908005531 arginyl-tRNA synthetase; Region: argS; TIGR00456 1380908005532 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1380908005533 active site 1380908005534 HIGH motif; other site 1380908005535 KMSK motif region; other site 1380908005536 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1380908005537 tRNA binding surface [nucleotide binding]; other site 1380908005538 anticodon binding site; other site 1380908005539 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 1380908005540 putative metal binding site [ion binding]; other site 1380908005541 copper homeostasis protein CutC; Provisional; Region: PRK11572 1380908005542 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1380908005543 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 1380908005544 S-adenosylmethionine binding site [chemical binding]; other site 1380908005545 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 1380908005546 hypothetical protein; Provisional; Region: PRK10302 1380908005547 Isochorismatase family; Region: Isochorismatase; pfam00857 1380908005548 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1380908005549 catalytic triad [active] 1380908005550 conserved cis-peptide bond; other site 1380908005551 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 1380908005552 nudix motif; other site 1380908005553 hypothetical protein; Validated; Region: PRK00110 1380908005554 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 1380908005555 active site 1380908005556 putative DNA-binding cleft [nucleotide binding]; other site 1380908005557 dimer interface [polypeptide binding]; other site 1380908005558 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1380908005559 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 1380908005560 Walker A motif; other site 1380908005561 ATP binding site [chemical binding]; other site 1380908005562 Walker B motif; other site 1380908005563 arginine finger; other site 1380908005564 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1380908005565 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1380908005566 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908005567 ABC-ATPase subunit interface; other site 1380908005568 dimer interface [polypeptide binding]; other site 1380908005569 putative PBP binding regions; other site 1380908005570 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1380908005571 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1380908005572 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 1380908005573 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1380908005574 metal binding site [ion binding]; metal-binding site 1380908005575 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1380908005576 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1380908005577 putative acyl-acceptor binding pocket; other site 1380908005578 pyruvate kinase; Provisional; Region: PRK05826 1380908005579 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 1380908005580 domain interfaces; other site 1380908005581 active site 1380908005582 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1380908005583 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908005584 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 1380908005585 putative active site [active] 1380908005586 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1380908005587 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1380908005588 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1380908005589 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1380908005590 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1380908005591 active site 1380908005592 intersubunit interface [polypeptide binding]; other site 1380908005593 catalytic residue [active] 1380908005594 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1380908005595 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1380908005596 ATP-grasp domain; Region: ATP-grasp; pfam02222 1380908005597 YebG protein; Region: YebG; pfam07130 1380908005598 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1380908005599 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1380908005600 putative metal binding site [ion binding]; other site 1380908005601 exodeoxyribonuclease X; Provisional; Region: PRK07983 1380908005602 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1380908005603 active site 1380908005604 catalytic site [active] 1380908005605 substrate binding site [chemical binding]; other site 1380908005606 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 1380908005607 CopC domain; Region: CopC; cl01012 1380908005608 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 1380908005609 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1380908005610 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 1380908005611 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1380908005612 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 1380908005613 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 1380908005614 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1380908005615 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 1380908005616 S-adenosylmethionine binding site [chemical binding]; other site 1380908005617 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1380908005618 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1380908005619 mce related protein; Region: MCE; pfam02470 1380908005620 mce related protein; Region: MCE; pfam02470 1380908005621 mce related protein; Region: MCE; pfam02470 1380908005622 mce related protein; Region: MCE; pfam02470 1380908005623 mce related protein; Region: MCE; pfam02470 1380908005624 mce related protein; Region: MCE; pfam02470 1380908005625 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1380908005626 Paraquat-inducible protein A; Region: PqiA; pfam04403 1380908005627 Paraquat-inducible protein A; Region: PqiA; pfam04403 1380908005628 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1380908005629 GAF domain; Region: GAF_2; pfam13185 1380908005630 ProP expression regulator; Provisional; Region: PRK04950 1380908005631 ProQ/FINO family; Region: ProQ; pfam04352 1380908005632 heat shock protein HtpX; Provisional; Region: PRK05457 1380908005633 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 1380908005634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908005635 putative substrate translocation pore; other site 1380908005636 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1380908005637 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 1380908005638 dimerization interface [polypeptide binding]; other site 1380908005639 putative Zn2+ binding site [ion binding]; other site 1380908005640 putative DNA binding site [nucleotide binding]; other site 1380908005641 Bacterial transcriptional regulator; Region: IclR; pfam01614 1380908005642 YebO-like protein; Region: YebO; pfam13974 1380908005643 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 1380908005644 DNA-binding site [nucleotide binding]; DNA binding site 1380908005645 RNA-binding motif; other site 1380908005646 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1380908005647 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1380908005648 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1380908005649 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1380908005650 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 1380908005651 S-adenosylmethionine binding site [chemical binding]; other site 1380908005652 hypothetical protein; Provisional; Region: PRK11469 1380908005653 Domain of unknown function DUF; Region: DUF204; pfam02659 1380908005654 Domain of unknown function DUF; Region: DUF204; pfam02659 1380908005655 hypothetical protein; Provisional; Region: PRK02913 1380908005656 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 1380908005657 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1380908005658 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1380908005659 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 1380908005660 active pocket/dimerization site; other site 1380908005661 active site 1380908005662 phosphorylation site [posttranslational modification] 1380908005663 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1380908005664 active site 1380908005665 phosphorylation site [posttranslational modification] 1380908005666 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1380908005667 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1380908005668 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 1380908005669 Transporter associated domain; Region: CorC_HlyC; smart01091 1380908005670 phage resistance protein; Provisional; Region: PRK10551 1380908005671 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1380908005672 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 1380908005673 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 1380908005674 putative active site [active] 1380908005675 putative CoA binding site [chemical binding]; other site 1380908005676 nudix motif; other site 1380908005677 metal binding site [ion binding]; metal-binding site 1380908005678 hypothetical protein; Provisional; Region: PRK05114 1380908005679 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1380908005680 Glycoprotease family; Region: Peptidase_M22; pfam00814 1380908005681 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 1380908005682 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1380908005683 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1380908005684 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1380908005685 acyl-activating enzyme (AAE) consensus motif; other site 1380908005686 putative AMP binding site [chemical binding]; other site 1380908005687 putative active site [active] 1380908005688 putative CoA binding site [chemical binding]; other site 1380908005689 ribonuclease D; Provisional; Region: PRK10829 1380908005690 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1380908005691 catalytic site [active] 1380908005692 putative active site [active] 1380908005693 putative substrate binding site [chemical binding]; other site 1380908005694 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1380908005695 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1380908005696 cell division inhibitor MinD; Provisional; Region: PRK10818 1380908005697 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 1380908005698 Switch I; other site 1380908005699 Switch II; other site 1380908005700 septum formation inhibitor; Reviewed; Region: minC; PRK03511 1380908005701 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1380908005702 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1380908005703 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 1380908005704 hypothetical protein; Provisional; Region: PRK10691 1380908005705 hypothetical protein; Provisional; Region: PRK05170 1380908005706 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1380908005707 disulfide bond formation protein B; Provisional; Region: PRK01749 1380908005708 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1380908005709 transmembrane helices; other site 1380908005710 fatty acid metabolism regulator; Provisional; Region: PRK04984 1380908005711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908005712 DNA-binding site [nucleotide binding]; DNA binding site 1380908005713 FadR C-terminal domain; Region: FadR_C; pfam07840 1380908005714 SpoVR family protein; Provisional; Region: PRK11767 1380908005715 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1380908005716 alanine racemase; Reviewed; Region: dadX; PRK03646 1380908005717 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1380908005718 active site 1380908005719 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1380908005720 substrate binding site [chemical binding]; other site 1380908005721 catalytic residues [active] 1380908005722 dimer interface [polypeptide binding]; other site 1380908005723 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1380908005724 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1380908005725 TrkA-C domain; Region: TrkA_C; pfam02080 1380908005726 Transporter associated domain; Region: CorC_HlyC; smart01091 1380908005727 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1380908005728 dimer interface [polypeptide binding]; other site 1380908005729 catalytic triad [active] 1380908005730 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1380908005731 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 1380908005732 N-terminal plug; other site 1380908005733 ligand-binding site [chemical binding]; other site 1380908005734 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1380908005735 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1380908005736 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1380908005737 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1380908005738 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1380908005739 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 1380908005740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005741 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 1380908005742 dimerization interface [polypeptide binding]; other site 1380908005743 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1380908005744 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 1380908005745 tetramer interface [polypeptide binding]; other site 1380908005746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908005747 catalytic residue [active] 1380908005748 threonine/serine transporter TdcC; Provisional; Region: PRK13629 1380908005749 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1380908005750 propionate/acetate kinase; Provisional; Region: PRK12379 1380908005751 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1380908005752 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1380908005753 Pyruvate formate lyase 1; Region: PFL1; cd01678 1380908005754 coenzyme A binding site [chemical binding]; other site 1380908005755 active site 1380908005756 catalytic residues [active] 1380908005757 glycine loop; other site 1380908005758 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1380908005759 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 1380908005760 dimerization interface [polypeptide binding]; other site 1380908005761 ligand binding site [chemical binding]; other site 1380908005762 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908005763 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 1380908005764 TM-ABC transporter signature motif; other site 1380908005765 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1380908005766 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1380908005767 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 1380908005768 TM-ABC transporter signature motif; other site 1380908005769 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1380908005770 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1380908005771 Walker A/P-loop; other site 1380908005772 ATP binding site [chemical binding]; other site 1380908005773 Q-loop/lid; other site 1380908005774 ABC transporter signature motif; other site 1380908005775 Walker B; other site 1380908005776 D-loop; other site 1380908005777 H-loop/switch region; other site 1380908005778 cell density-dependent motility repressor; Provisional; Region: PRK10082 1380908005779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005780 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 1380908005781 dimerization interface [polypeptide binding]; other site 1380908005782 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1380908005783 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1380908005784 active site 1380908005785 substrate-binding site [chemical binding]; other site 1380908005786 metal-binding site [ion binding] 1380908005787 ATP binding site [chemical binding]; other site 1380908005788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908005789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908005790 Coenzyme A binding pocket [chemical binding]; other site 1380908005791 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1380908005792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005793 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 1380908005794 dimerization interface [polypeptide binding]; other site 1380908005795 citrate-proton symporter; Provisional; Region: PRK15075 1380908005796 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 1380908005797 putative substrate translocation pore; other site 1380908005798 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1380908005799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908005800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908005801 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 1380908005802 putative dimerization interface [polypeptide binding]; other site 1380908005803 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 1380908005804 DNA-binding site [nucleotide binding]; DNA binding site 1380908005805 RNA-binding motif; other site 1380908005806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 1380908005807 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1380908005808 putative active site pocket [active] 1380908005809 dimerization interface [polypeptide binding]; other site 1380908005810 putative catalytic residue [active] 1380908005811 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1380908005812 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1380908005813 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1380908005814 ligand binding site [chemical binding]; other site 1380908005815 S-type Pyocin; Region: Pyocin_S; pfam06958 1380908005816 S-type Pyocin; Region: Pyocin_S; pfam06958 1380908005817 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1380908005818 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1380908005819 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1380908005820 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1380908005821 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1380908005822 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1380908005823 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1380908005824 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1380908005825 PAAR motif; Region: PAAR_motif; pfam05488 1380908005826 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1380908005827 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1380908005828 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1380908005829 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1380908005830 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1380908005831 ImpA domain protein; Region: DUF3702; pfam12486 1380908005832 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1380908005833 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1380908005834 putative ligand binding site [chemical binding]; other site 1380908005835 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 1380908005836 GTP-binding protein YchF; Reviewed; Region: PRK09601 1380908005837 YchF GTPase; Region: YchF; cd01900 1380908005838 G1 box; other site 1380908005839 GTP/Mg2+ binding site [chemical binding]; other site 1380908005840 Switch I region; other site 1380908005841 G2 box; other site 1380908005842 Switch II region; other site 1380908005843 G3 box; other site 1380908005844 G4 box; other site 1380908005845 G5 box; other site 1380908005846 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 1380908005847 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 1380908005848 putative active site [active] 1380908005849 catalytic residue [active] 1380908005850 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 1380908005851 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1380908005852 DNA binding residues [nucleotide binding] 1380908005853 putative dimer interface [polypeptide binding]; other site 1380908005854 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1380908005855 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1380908005856 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1380908005857 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1380908005858 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908005859 active site 1380908005860 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1380908005861 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1380908005862 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1380908005863 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1380908005864 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1380908005865 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1380908005866 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1380908005867 tRNA; other site 1380908005868 putative tRNA binding site [nucleotide binding]; other site 1380908005869 putative NADP binding site [chemical binding]; other site 1380908005870 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1380908005871 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1380908005872 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1380908005873 RF-1 domain; Region: RF-1; pfam00472 1380908005874 hypothetical protein; Provisional; Region: PRK10941 1380908005875 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1380908005876 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1380908005877 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1380908005878 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1380908005879 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1380908005880 cation transport regulator; Reviewed; Region: chaB; PRK09582 1380908005881 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1380908005882 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1380908005883 putative active site pocket [active] 1380908005884 dimerization interface [polypeptide binding]; other site 1380908005885 putative catalytic residue [active] 1380908005886 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1380908005887 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1380908005888 Nitrate and nitrite sensing; Region: NIT; pfam08376 1380908005889 ANTAR domain; Region: ANTAR; pfam03861 1380908005890 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1380908005891 NMT1-like family; Region: NMT1_2; pfam13379 1380908005892 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1380908005893 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 1380908005894 dimer interface [polypeptide binding]; other site 1380908005895 conserved gate region; other site 1380908005896 putative PBP binding loops; other site 1380908005897 ABC-ATPase subunit interface; other site 1380908005898 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1380908005899 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1380908005900 Walker A/P-loop; other site 1380908005901 ATP binding site [chemical binding]; other site 1380908005902 Q-loop/lid; other site 1380908005903 ABC transporter signature motif; other site 1380908005904 Walker B; other site 1380908005905 D-loop; other site 1380908005906 H-loop/switch region; other site 1380908005907 putative invasin; Provisional; Region: PRK10177 1380908005908 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1380908005909 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 1380908005910 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1380908005911 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 1380908005912 dimerization interface [polypeptide binding]; other site 1380908005913 Histidine kinase; Region: HisKA_3; pfam07730 1380908005914 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 1380908005915 ATP binding site [chemical binding]; other site 1380908005916 Mg2+ binding site [ion binding]; other site 1380908005917 G-X-G motif; other site 1380908005918 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1380908005919 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1380908005920 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 1380908005921 [4Fe-4S] binding site [ion binding]; other site 1380908005922 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 1380908005923 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 1380908005924 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 1380908005925 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 1380908005926 molybdopterin cofactor binding site; other site 1380908005927 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1380908005928 4Fe-4S binding domain; Region: Fer4; cl02805 1380908005929 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 1380908005930 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1380908005931 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1380908005932 AsnC family; Region: AsnC_trans_reg; pfam01037 1380908005933 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1380908005934 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1380908005935 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1380908005936 putative active site [active] 1380908005937 putative substrate binding site [chemical binding]; other site 1380908005938 putative cosubstrate binding site; other site 1380908005939 catalytic site [active] 1380908005940 hypothetical protein; Provisional; Region: PRK10279 1380908005941 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1380908005942 nucleophile elbow; other site 1380908005943 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1380908005944 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1380908005945 active site 1380908005946 tetramer interface; other site 1380908005947 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 1380908005948 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1380908005949 thymidine kinase; Provisional; Region: PRK04296 1380908005950 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1380908005951 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1380908005952 putative catalytic cysteine [active] 1380908005953 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1380908005954 putative active site [active] 1380908005955 metal binding site [ion binding]; metal-binding site 1380908005956 hypothetical protein; Provisional; Region: PRK11111 1380908005957 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1380908005958 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1380908005959 peptide binding site [polypeptide binding]; other site 1380908005960 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1380908005961 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 1380908005962 dimer interface [polypeptide binding]; other site 1380908005963 conserved gate region; other site 1380908005964 putative PBP binding loops; other site 1380908005965 ABC-ATPase subunit interface; other site 1380908005966 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1380908005967 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1380908005968 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 1380908005969 dimer interface [polypeptide binding]; other site 1380908005970 conserved gate region; other site 1380908005971 ABC-ATPase subunit interface; other site 1380908005972 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1380908005973 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908005974 Walker A/P-loop; other site 1380908005975 ATP binding site [chemical binding]; other site 1380908005976 Q-loop/lid; other site 1380908005977 ABC transporter signature motif; other site 1380908005978 Walker B; other site 1380908005979 D-loop; other site 1380908005980 H-loop/switch region; other site 1380908005981 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1380908005982 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1380908005983 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908005984 Walker A/P-loop; other site 1380908005985 ATP binding site [chemical binding]; other site 1380908005986 Q-loop/lid; other site 1380908005987 ABC transporter signature motif; other site 1380908005988 Walker B; other site 1380908005989 D-loop; other site 1380908005990 H-loop/switch region; other site 1380908005991 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1380908005992 Ion transport protein; Region: Ion_trans; pfam00520 1380908005993 Ion channel; Region: Ion_trans_2; pfam07885 1380908005994 dsDNA-mimic protein; Reviewed; Region: PRK05094 1380908005995 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1380908005996 YciI-like protein; Reviewed; Region: PRK11370 1380908005997 transport protein TonB; Provisional; Region: PRK10819 1380908005998 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1380908005999 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 1380908006000 6-phosphofructokinase 2; Provisional; Region: PRK10294 1380908006001 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 1380908006002 putative substrate binding site [chemical binding]; other site 1380908006003 putative ATP binding site [chemical binding]; other site 1380908006004 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 1380908006005 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1380908006006 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1380908006007 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 1380908006008 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1380908006009 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 1380908006010 active site 1380908006011 dimer interface [polypeptide binding]; other site 1380908006012 motif 1; other site 1380908006013 motif 2; other site 1380908006014 motif 3; other site 1380908006015 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 1380908006016 anticodon binding site; other site 1380908006017 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1380908006018 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1380908006019 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1380908006020 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1380908006021 23S rRNA binding site [nucleotide binding]; other site 1380908006022 L21 binding site [polypeptide binding]; other site 1380908006023 L13 binding site [polypeptide binding]; other site 1380908006024 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1380908006025 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1380908006026 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 1380908006027 dimer interface [polypeptide binding]; other site 1380908006028 motif 1; other site 1380908006029 active site 1380908006030 motif 2; other site 1380908006031 motif 3; other site 1380908006032 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1380908006033 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 1380908006034 putative tRNA-binding site [nucleotide binding]; other site 1380908006035 B3/4 domain; Region: B3_4; pfam03483 1380908006036 tRNA synthetase B5 domain; Region: B5; smart00874 1380908006037 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 1380908006038 dimer interface [polypeptide binding]; other site 1380908006039 motif 1; other site 1380908006040 motif 3; other site 1380908006041 motif 2; other site 1380908006042 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1380908006043 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 1380908006044 IHF dimer interface [polypeptide binding]; other site 1380908006045 IHF - DNA interface [nucleotide binding]; other site 1380908006046 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 1380908006047 homotrimer interaction site [polypeptide binding]; other site 1380908006048 putative active site [active] 1380908006049 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1380908006050 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908006051 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006053 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 1380908006054 dimerization interface [polypeptide binding]; other site 1380908006055 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1380908006056 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908006057 ABC-ATPase subunit interface; other site 1380908006058 dimer interface [polypeptide binding]; other site 1380908006059 putative PBP binding regions; other site 1380908006060 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1380908006061 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1380908006062 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 1380908006063 catalytic residues [active] 1380908006064 dimer interface [polypeptide binding]; other site 1380908006065 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 1380908006066 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908006067 Walker A/P-loop; other site 1380908006068 ATP binding site [chemical binding]; other site 1380908006069 Q-loop/lid; other site 1380908006070 ABC transporter signature motif; other site 1380908006071 Walker B; other site 1380908006072 D-loop; other site 1380908006073 H-loop/switch region; other site 1380908006074 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 1380908006075 NlpC/P60 family; Region: NLPC_P60; pfam00877 1380908006076 hypothetical protein; Provisional; Region: PRK10183 1380908006077 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1380908006078 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1380908006079 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1380908006080 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1380908006081 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1380908006082 putative inner membrane protein; Provisional; Region: PRK10983 1380908006083 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1380908006084 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 1380908006085 CoenzymeA binding site [chemical binding]; other site 1380908006086 subunit interaction site [polypeptide binding]; other site 1380908006087 PHB binding site; other site 1380908006088 hypothetical protein; Provisional; Region: PRK10457 1380908006089 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1380908006090 methionine synthase; Provisional; Region: PRK01207 1380908006091 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 1380908006092 substrate binding site [chemical binding]; other site 1380908006093 THF binding site; other site 1380908006094 zinc-binding site [ion binding]; other site 1380908006095 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 1380908006096 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1380908006097 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908006098 ABC-ATPase subunit interface; other site 1380908006099 dimer interface [polypeptide binding]; other site 1380908006100 putative PBP binding regions; other site 1380908006101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006103 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 1380908006104 dimerization interface [polypeptide binding]; other site 1380908006105 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1380908006106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908006107 NAD(P) binding site [chemical binding]; other site 1380908006108 active site 1380908006109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908006110 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908006111 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1380908006112 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908006113 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1380908006114 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1380908006115 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 1380908006116 phosphate binding site [ion binding]; other site 1380908006117 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908006118 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908006119 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1380908006120 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 1380908006121 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1380908006122 putative ABC transporter; Region: ycf24; CHL00085 1380908006123 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 1380908006124 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1380908006125 Walker A/P-loop; other site 1380908006126 ATP binding site [chemical binding]; other site 1380908006127 Q-loop/lid; other site 1380908006128 ABC transporter signature motif; other site 1380908006129 Walker B; other site 1380908006130 D-loop; other site 1380908006131 H-loop/switch region; other site 1380908006132 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 1380908006133 FeS assembly protein SufD; Region: sufD; TIGR01981 1380908006134 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1380908006135 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 1380908006136 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908006137 catalytic residue [active] 1380908006138 cysteine desufuration protein SufE; Provisional; Region: PRK09296 1380908006139 murein lipoprotein; Provisional; Region: PRK15396 1380908006140 pyruvate kinase; Provisional; Region: PRK09206 1380908006141 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 1380908006142 domain interfaces; other site 1380908006143 active site 1380908006144 Protein of unknown function (DUF2767); Region: DUF2767; pfam10965 1380908006145 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 1380908006146 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908006147 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1380908006148 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1380908006149 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1380908006150 active site 1380908006151 Fe binding site [ion binding]; other site 1380908006152 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1380908006153 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1380908006154 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1380908006155 shikimate binding site; other site 1380908006156 NAD(P) binding site [chemical binding]; other site 1380908006157 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1380908006158 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1380908006159 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1380908006160 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908006161 Walker A/P-loop; other site 1380908006162 ATP binding site [chemical binding]; other site 1380908006163 Q-loop/lid; other site 1380908006164 ABC transporter signature motif; other site 1380908006165 Walker B; other site 1380908006166 D-loop; other site 1380908006167 H-loop/switch region; other site 1380908006168 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1380908006169 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908006170 ABC-ATPase subunit interface; other site 1380908006171 dimer interface [polypeptide binding]; other site 1380908006172 putative PBP binding regions; other site 1380908006173 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 1380908006174 putative ligand binding residues [chemical binding]; other site 1380908006175 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1380908006176 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 1380908006177 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1380908006178 Bacterial transcriptional regulator; Region: IclR; pfam01614 1380908006179 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 1380908006180 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1380908006181 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 1380908006182 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1380908006183 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1380908006184 active site 1380908006185 catalytic residues [active] 1380908006186 metal binding site [ion binding]; metal-binding site 1380908006187 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1380908006188 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1380908006189 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 1380908006190 active site residue [active] 1380908006191 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1380908006192 active site residue [active] 1380908006193 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1380908006194 active site residue [active] 1380908006195 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1380908006196 active site residue [active] 1380908006197 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1380908006198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006200 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 1380908006201 dimerization interface [polypeptide binding]; other site 1380908006202 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1380908006203 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1380908006204 dimer interface [polypeptide binding]; other site 1380908006205 active site 1380908006206 non-prolyl cis peptide bond; other site 1380908006207 insertion regions; other site 1380908006208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1380908006209 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1380908006210 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1380908006211 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 1380908006212 NMT1/THI5 like; Region: NMT1; pfam09084 1380908006213 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1380908006214 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 1380908006215 dimer interface [polypeptide binding]; other site 1380908006216 conserved gate region; other site 1380908006217 putative PBP binding loops; other site 1380908006218 ABC-ATPase subunit interface; other site 1380908006219 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1380908006220 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1380908006221 Walker A/P-loop; other site 1380908006222 ATP binding site [chemical binding]; other site 1380908006223 Q-loop/lid; other site 1380908006224 ABC transporter signature motif; other site 1380908006225 Walker B; other site 1380908006226 D-loop; other site 1380908006227 H-loop/switch region; other site 1380908006228 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1380908006229 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 1380908006230 N-terminal plug; other site 1380908006231 ligand-binding site [chemical binding]; other site 1380908006232 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1380908006233 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908006234 Walker A/P-loop; other site 1380908006235 ATP binding site [chemical binding]; other site 1380908006236 Q-loop/lid; other site 1380908006237 ABC transporter signature motif; other site 1380908006238 Walker B; other site 1380908006239 D-loop; other site 1380908006240 H-loop/switch region; other site 1380908006241 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1380908006242 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908006243 ABC-ATPase subunit interface; other site 1380908006244 dimer interface [polypeptide binding]; other site 1380908006245 putative PBP binding regions; other site 1380908006246 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1380908006247 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908006248 ABC-ATPase subunit interface; other site 1380908006249 dimer interface [polypeptide binding]; other site 1380908006250 putative PBP binding regions; other site 1380908006251 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908006252 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908006253 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cd04795 1380908006254 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908006255 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 1380908006256 dimer interface [polypeptide binding]; other site 1380908006257 conserved gate region; other site 1380908006258 putative PBP binding loops; other site 1380908006259 ABC-ATPase subunit interface; other site 1380908006260 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908006261 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908006262 Walker A/P-loop; other site 1380908006263 ATP binding site [chemical binding]; other site 1380908006264 Q-loop/lid; other site 1380908006265 ABC transporter signature motif; other site 1380908006266 Walker B; other site 1380908006267 D-loop; other site 1380908006268 H-loop/switch region; other site 1380908006269 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 1380908006270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908006271 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1380908006272 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1380908006273 metal binding site [ion binding]; metal-binding site 1380908006274 putative dimer interface [polypeptide binding]; other site 1380908006275 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1380908006276 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 1380908006277 [4Fe-4S] binding site [ion binding]; other site 1380908006278 molybdopterin cofactor binding site; other site 1380908006279 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1380908006280 molybdopterin cofactor binding site; other site 1380908006281 putative dehydrogenase; Provisional; Region: PRK10098 1380908006282 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1380908006283 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1380908006284 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1380908006285 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 1380908006286 dimer interface [polypeptide binding]; other site 1380908006287 conserved gate region; other site 1380908006288 ABC-ATPase subunit interface; other site 1380908006289 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 1380908006290 dimer interface [polypeptide binding]; other site 1380908006291 conserved gate region; other site 1380908006292 putative PBP binding loops; other site 1380908006293 ABC-ATPase subunit interface; other site 1380908006294 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1380908006295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908006296 Walker A/P-loop; other site 1380908006297 ATP binding site [chemical binding]; other site 1380908006298 Q-loop/lid; other site 1380908006299 ABC transporter signature motif; other site 1380908006300 Walker B; other site 1380908006301 D-loop; other site 1380908006302 H-loop/switch region; other site 1380908006303 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 1380908006304 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908006305 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1380908006306 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1380908006307 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1380908006308 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1380908006309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908006310 Walker A/P-loop; other site 1380908006311 ATP binding site [chemical binding]; other site 1380908006312 Q-loop/lid; other site 1380908006313 ABC transporter signature motif; other site 1380908006314 Walker B; other site 1380908006315 D-loop; other site 1380908006316 H-loop/switch region; other site 1380908006317 heme exporter protein CcmC; Region: ccmC; TIGR01191 1380908006318 Heme exporter protein D (CcmD); Region: CcmD; cl11475 1380908006319 CcmE; Region: CcmE; cl00994 1380908006320 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1380908006321 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1380908006322 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1380908006323 catalytic residues [active] 1380908006324 central insert; other site 1380908006325 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1380908006326 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1380908006327 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1380908006328 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1380908006329 putative dimer interface [polypeptide binding]; other site 1380908006330 catalytic triad [active] 1380908006331 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 1380908006332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1380908006333 HAMP domain; Region: HAMP; pfam00672 1380908006334 dimerization interface [polypeptide binding]; other site 1380908006335 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 1380908006336 dimer interface [polypeptide binding]; other site 1380908006337 phosphorylation site [posttranslational modification] 1380908006338 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 1380908006339 ATP binding site [chemical binding]; other site 1380908006340 Mg2+ binding site [ion binding]; other site 1380908006341 G-X-G motif; other site 1380908006342 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1380908006343 acetoin reductase; Validated; Region: PRK08643 1380908006344 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1380908006345 NAD binding site [chemical binding]; other site 1380908006346 homotetramer interface [polypeptide binding]; other site 1380908006347 homodimer interface [polypeptide binding]; other site 1380908006348 active site 1380908006349 substrate binding site [chemical binding]; other site 1380908006350 acetolactate synthase; Reviewed; Region: PRK08617 1380908006351 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908006352 PYR/PP interface [polypeptide binding]; other site 1380908006353 dimer interface [polypeptide binding]; other site 1380908006354 TPP binding site [chemical binding]; other site 1380908006355 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908006356 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1380908006357 TPP-binding site [chemical binding]; other site 1380908006358 dimer interface [polypeptide binding]; other site 1380908006359 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1380908006360 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1380908006361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006362 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 1380908006363 putative dimerization interface [polypeptide binding]; other site 1380908006364 putative substrate binding pocket [chemical binding]; other site 1380908006365 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1380908006366 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1380908006367 NAD binding site [chemical binding]; other site 1380908006368 homotetramer interface [polypeptide binding]; other site 1380908006369 homodimer interface [polypeptide binding]; other site 1380908006370 substrate binding site [chemical binding]; other site 1380908006371 active site 1380908006372 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 1380908006373 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1380908006374 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908006375 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1380908006376 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1380908006377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006379 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 1380908006380 putative dimerization interface [polypeptide binding]; other site 1380908006381 Protein of unknown function (DUF535); Region: DUF535; cl01128 1380908006382 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1380908006383 FAD binding domain; Region: FAD_binding_4; pfam01565 1380908006384 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1380908006385 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 1380908006386 dimer interface [polypeptide binding]; other site 1380908006387 conserved gate region; other site 1380908006388 putative PBP binding loops; other site 1380908006389 ABC-ATPase subunit interface; other site 1380908006390 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1380908006391 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1380908006392 Walker A/P-loop; other site 1380908006393 ATP binding site [chemical binding]; other site 1380908006394 Q-loop/lid; other site 1380908006395 ABC transporter signature motif; other site 1380908006396 Walker B; other site 1380908006397 D-loop; other site 1380908006398 H-loop/switch region; other site 1380908006399 NMT1/THI5 like; Region: NMT1; pfam09084 1380908006400 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1380908006401 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 1380908006402 homotrimer interaction site [polypeptide binding]; other site 1380908006403 putative active site [active] 1380908006404 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1380908006405 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1380908006406 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1380908006407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006408 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 1380908006409 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1380908006410 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1380908006411 putative NAD(P) binding site [chemical binding]; other site 1380908006412 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 1380908006413 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908006414 putative substrate translocation pore; other site 1380908006415 DinB family; Region: DinB; cl17821 1380908006416 DinB superfamily; Region: DinB_2; pfam12867 1380908006417 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1380908006418 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1380908006419 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908006420 Walker A/P-loop; other site 1380908006421 ATP binding site [chemical binding]; other site 1380908006422 Q-loop/lid; other site 1380908006423 ABC transporter signature motif; other site 1380908006424 Walker B; other site 1380908006425 D-loop; other site 1380908006426 H-loop/switch region; other site 1380908006427 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1380908006428 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1380908006429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908006430 Walker A/P-loop; other site 1380908006431 ATP binding site [chemical binding]; other site 1380908006432 Q-loop/lid; other site 1380908006433 ABC transporter signature motif; other site 1380908006434 Walker B; other site 1380908006435 D-loop; other site 1380908006436 H-loop/switch region; other site 1380908006437 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908006438 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1380908006439 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1380908006440 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 1380908006441 dimer interface [polypeptide binding]; other site 1380908006442 conserved gate region; other site 1380908006443 putative PBP binding loops; other site 1380908006444 ABC-ATPase subunit interface; other site 1380908006445 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1380908006446 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 1380908006447 dimer interface [polypeptide binding]; other site 1380908006448 conserved gate region; other site 1380908006449 putative PBP binding loops; other site 1380908006450 ABC-ATPase subunit interface; other site 1380908006451 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908006452 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1380908006453 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 1380908006454 Chloramphenicol acetyltransferase; Region: CAT; cl02008 1380908006455 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_3; cd07241 1380908006456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908006457 putative metal binding site [ion binding]; other site 1380908006458 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908006459 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908006460 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908006461 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 1380908006462 active site clefts [active] 1380908006463 zinc binding site [ion binding]; other site 1380908006464 dimer interface [polypeptide binding]; other site 1380908006465 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1380908006466 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; cl17355 1380908006467 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1380908006468 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1380908006469 multidrug efflux protein; Reviewed; Region: PRK01766 1380908006470 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1380908006471 cation binding site [ion binding]; other site 1380908006472 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1380908006473 Lumazine binding domain; Region: Lum_binding; pfam00677 1380908006474 Lumazine binding domain; Region: Lum_binding; pfam00677 1380908006475 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1380908006476 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 1380908006477 S-adenosylmethionine binding site [chemical binding]; other site 1380908006478 putative transporter; Provisional; Region: PRK11043 1380908006479 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 1380908006480 putative substrate translocation pore; other site 1380908006481 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1380908006482 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 1380908006483 putative substrate translocation pore; other site 1380908006484 superoxide dismutase; Provisional; Region: PRK10543 1380908006485 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1380908006486 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1380908006487 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1380908006488 NlpC/P60 family; Region: NLPC_P60; pfam00877 1380908006489 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1380908006490 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1380908006491 dimer interface [polypeptide binding]; other site 1380908006492 catalytic site [active] 1380908006493 putative active site [active] 1380908006494 putative substrate binding site [chemical binding]; other site 1380908006495 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1380908006496 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 1380908006497 FMN binding site [chemical binding]; other site 1380908006498 active site 1380908006499 substrate binding site [chemical binding]; other site 1380908006500 catalytic residue [active] 1380908006501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908006502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908006503 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1380908006504 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 1380908006505 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908006506 active site 1380908006507 catalytic tetrad [active] 1380908006508 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1380908006509 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1380908006510 E-class dimer interface [polypeptide binding]; other site 1380908006511 P-class dimer interface [polypeptide binding]; other site 1380908006512 active site 1380908006513 Cu2+ binding site [ion binding]; other site 1380908006514 Zn2+ binding site [ion binding]; other site 1380908006515 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1380908006516 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1380908006517 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1380908006518 transcriptional regulator SlyA; Provisional; Region: PRK03573 1380908006519 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1380908006520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908006521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908006522 metal binding site [ion binding]; metal-binding site 1380908006523 active site 1380908006524 I-site; other site 1380908006525 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1380908006526 lysozyme inhibitor; Provisional; Region: PRK11372 1380908006527 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1380908006528 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1380908006529 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1380908006530 active site 1380908006531 HIGH motif; other site 1380908006532 dimer interface [polypeptide binding]; other site 1380908006533 KMSKS motif; other site 1380908006534 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 1380908006535 RNA binding surface [nucleotide binding]; other site 1380908006536 pyridoxamine kinase; Validated; Region: PRK05756 1380908006537 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1380908006538 dimer interface [polypeptide binding]; other site 1380908006539 pyridoxal binding site [chemical binding]; other site 1380908006540 ATP binding site [chemical binding]; other site 1380908006541 glutathionine S-transferase; Provisional; Region: PRK10542 1380908006542 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1380908006543 C-terminal domain interface [polypeptide binding]; other site 1380908006544 GSH binding site (G-site) [chemical binding]; other site 1380908006545 dimer interface [polypeptide binding]; other site 1380908006546 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1380908006547 N-terminal domain interface [polypeptide binding]; other site 1380908006548 dimer interface [polypeptide binding]; other site 1380908006549 substrate binding pocket (H-site) [chemical binding]; other site 1380908006550 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1380908006551 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 1380908006552 putative substrate translocation pore; other site 1380908006553 POT family; Region: PTR2; pfam00854 1380908006554 endonuclease III; Provisional; Region: PRK10702 1380908006555 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1380908006556 minor groove reading motif; other site 1380908006557 helix-hairpin-helix signature motif; other site 1380908006558 substrate binding pocket [chemical binding]; other site 1380908006559 active site 1380908006560 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1380908006561 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1380908006562 electron transport complex protein RnfG; Validated; Region: PRK01908 1380908006563 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1380908006564 ferredoxin; Provisional; Region: PRK08764 1380908006565 Putative Fe-S cluster; Region: FeS; cl17515 1380908006566 4Fe-4S binding domain; Region: Fer4; cl02805 1380908006567 electron transport complex protein RsxA; Provisional; Region: PRK05151 1380908006568 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1380908006569 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 1380908006570 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1380908006571 beta-galactosidase; Region: BGL; TIGR03356 1380908006572 putative oxidoreductase; Provisional; Region: PRK11579 1380908006573 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908006574 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908006575 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1380908006576 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 1380908006577 active site 1380908006578 purine riboside binding site [chemical binding]; other site 1380908006579 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1380908006580 Predicted transcriptional regulators [Transcription]; Region: COG1733 1380908006581 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1380908006582 cytochrome b561; Provisional; Region: PRK11513 1380908006583 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1380908006584 putative metal binding site [ion binding]; other site 1380908006585 putative homodimer interface [polypeptide binding]; other site 1380908006586 putative homotetramer interface [polypeptide binding]; other site 1380908006587 putative homodimer-homodimer interface [polypeptide binding]; other site 1380908006588 putative allosteric switch controlling residues; other site 1380908006589 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1380908006590 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1380908006591 substrate binding site [chemical binding]; other site 1380908006592 catalytic Zn binding site [ion binding]; other site 1380908006593 NAD binding site [chemical binding]; other site 1380908006594 structural Zn binding site [ion binding]; other site 1380908006595 dimer interface [polypeptide binding]; other site 1380908006596 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1380908006597 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1380908006598 Trp docking motif [polypeptide binding]; other site 1380908006599 putative active site [active] 1380908006600 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1380908006601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006602 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1380908006603 putative dimerization interface [polypeptide binding]; other site 1380908006604 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1380908006605 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 1380908006606 heterodimer interface [polypeptide binding]; other site 1380908006607 active site 1380908006608 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 1380908006609 heterodimer interface [polypeptide binding]; other site 1380908006610 multimer interface [polypeptide binding]; other site 1380908006611 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1380908006612 active site 1380908006613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1380908006614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1380908006615 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1380908006616 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1380908006617 substrate binding pocket [chemical binding]; other site 1380908006618 catalytic triad [active] 1380908006619 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1380908006620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908006621 Coenzyme A binding pocket [chemical binding]; other site 1380908006622 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 1380908006623 putative trimer interface [polypeptide binding]; other site 1380908006624 putative CoA binding site [chemical binding]; other site 1380908006625 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; cd00208 1380908006626 putative trimer interface [polypeptide binding]; other site 1380908006627 putative CoA binding site [chemical binding]; other site 1380908006628 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1380908006629 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1380908006630 gating phenylalanine in ion channel; other site 1380908006631 tellurite resistance protein TehB; Provisional; Region: PRK11207 1380908006632 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 1380908006633 S-adenosylmethionine binding site [chemical binding]; other site 1380908006634 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1380908006635 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908006636 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908006637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908006638 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1380908006639 benzoate transporter; Region: benE; TIGR00843 1380908006640 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908006641 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 1380908006642 non-specific DNA binding site [nucleotide binding]; other site 1380908006643 salt bridge; other site 1380908006644 sequence-specific DNA binding site [nucleotide binding]; other site 1380908006645 Cupin domain; Region: Cupin_2; pfam07883 1380908006646 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 1380908006647 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 1380908006648 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1380908006649 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1380908006650 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1380908006651 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1380908006652 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1380908006653 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 1380908006654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908006655 DNA-binding site [nucleotide binding]; DNA binding site 1380908006656 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 1380908006657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908006658 homodimer interface [polypeptide binding]; other site 1380908006659 catalytic residue [active] 1380908006660 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1380908006661 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1380908006662 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1380908006663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908006664 Walker A/P-loop; other site 1380908006665 ATP binding site [chemical binding]; other site 1380908006666 Q-loop/lid; other site 1380908006667 ABC transporter signature motif; other site 1380908006668 Walker B; other site 1380908006669 D-loop; other site 1380908006670 H-loop/switch region; other site 1380908006671 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 1380908006672 dimer interface [polypeptide binding]; other site 1380908006673 conserved gate region; other site 1380908006674 putative PBP binding loops; other site 1380908006675 ABC-ATPase subunit interface; other site 1380908006676 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1380908006677 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 1380908006678 putative PBP binding loops; other site 1380908006679 dimer interface [polypeptide binding]; other site 1380908006680 ABC-ATPase subunit interface; other site 1380908006681 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 1380908006682 PGAP1-like protein; Region: PGAP1; pfam07819 1380908006683 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1380908006684 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1380908006685 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1380908006686 NAD(P) binding site [chemical binding]; other site 1380908006687 catalytic residues [active] 1380908006688 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908006689 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1380908006690 peptide binding site [polypeptide binding]; other site 1380908006691 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 1380908006692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1380908006693 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1380908006694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908006695 Coenzyme A binding pocket [chemical binding]; other site 1380908006696 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908006697 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 1380908006698 sequence-specific DNA binding site [nucleotide binding]; other site 1380908006699 salt bridge; other site 1380908006700 Cupin domain; Region: Cupin_2; pfam07883 1380908006701 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1380908006702 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1380908006703 NAD(P) binding site [chemical binding]; other site 1380908006704 substrate binding site [chemical binding]; other site 1380908006705 dimer interface [polypeptide binding]; other site 1380908006706 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 1380908006707 active site 1380908006708 tetramer interface [polypeptide binding]; other site 1380908006709 hypothetical protein; Provisional; Region: PRK09981 1380908006710 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1380908006711 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 1380908006712 active site 1380908006713 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1380908006714 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 1380908006715 N-terminal plug; other site 1380908006716 ligand-binding site [chemical binding]; other site 1380908006717 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1380908006718 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1380908006719 L-asparagine permease; Provisional; Region: PRK15049 1380908006720 AAA domain; Region: AAA_17; pfam13207 1380908006721 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1380908006722 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1380908006723 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1380908006724 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 1380908006725 metal binding site [ion binding]; metal-binding site 1380908006726 dimer interface [polypeptide binding]; other site 1380908006727 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908006728 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 1380908006729 substrate binding pocket [chemical binding]; other site 1380908006730 membrane-bound complex binding site; other site 1380908006731 hinge residues; other site 1380908006732 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908006733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908006734 Coenzyme A binding pocket [chemical binding]; other site 1380908006735 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 1380908006736 dimer interface [polypeptide binding]; other site 1380908006737 conserved gate region; other site 1380908006738 putative PBP binding loops; other site 1380908006739 ABC-ATPase subunit interface; other site 1380908006740 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908006741 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 1380908006742 substrate binding pocket [chemical binding]; other site 1380908006743 membrane-bound complex binding site; other site 1380908006744 hinge residues; other site 1380908006745 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1380908006746 C-terminal domain interface [polypeptide binding]; other site 1380908006747 GSH binding site (G-site) [chemical binding]; other site 1380908006748 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1380908006749 dimer interface [polypeptide binding]; other site 1380908006750 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1380908006751 dimer interface [polypeptide binding]; other site 1380908006752 N-terminal domain interface [polypeptide binding]; other site 1380908006753 substrate binding pocket (H-site) [chemical binding]; other site 1380908006754 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 1380908006755 active site 1 [active] 1380908006756 dimer interface [polypeptide binding]; other site 1380908006757 hexamer interface [polypeptide binding]; other site 1380908006758 active site 2 [active] 1380908006759 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 1380908006760 non-specific DNA binding site [nucleotide binding]; other site 1380908006761 salt bridge; other site 1380908006762 sequence-specific DNA binding site [nucleotide binding]; other site 1380908006763 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1380908006764 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 1380908006765 trimer interface; other site 1380908006766 sugar binding site [chemical binding]; other site 1380908006767 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908006768 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1380908006769 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1380908006770 transcriptional activator RhaR; Provisional; Region: PRK13501 1380908006771 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908006772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908006773 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1380908006774 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1380908006775 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1380908006776 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 1380908006777 dimer interface [polypeptide binding]; other site 1380908006778 conserved gate region; other site 1380908006779 putative PBP binding loops; other site 1380908006780 ABC-ATPase subunit interface; other site 1380908006781 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 1380908006782 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 1380908006783 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 1380908006784 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1380908006785 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1380908006786 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 1380908006787 [4Fe-4S] binding site [ion binding]; other site 1380908006788 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 1380908006789 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 1380908006790 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 1380908006791 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 1380908006792 molybdopterin cofactor binding site; other site 1380908006793 TetR family transcriptional regulator; Provisional; Region: PRK14996 1380908006794 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908006795 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1380908006796 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 1380908006797 putative substrate translocation pore; other site 1380908006798 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 1380908006799 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1380908006800 octamer interface [polypeptide binding]; other site 1380908006801 active site 1380908006802 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1380908006803 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1380908006804 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 1380908006805 dimer interface [polypeptide binding]; other site 1380908006806 active site 1380908006807 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1380908006808 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 1380908006809 iron-sulfur cluster [ion binding]; other site 1380908006810 [2Fe-2S] cluster binding site [ion binding]; other site 1380908006811 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 1380908006812 putative alpha subunit interface [polypeptide binding]; other site 1380908006813 putative active site [active] 1380908006814 putative substrate binding site [chemical binding]; other site 1380908006815 Fe binding site [ion binding]; other site 1380908006816 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 1380908006817 inter-subunit interface; other site 1380908006818 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1380908006819 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 1380908006820 catalytic loop [active] 1380908006821 iron binding site [ion binding]; other site 1380908006822 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 1380908006823 FAD binding pocket [chemical binding]; other site 1380908006824 FAD binding motif [chemical binding]; other site 1380908006825 phosphate binding motif [ion binding]; other site 1380908006826 beta-alpha-beta structure motif; other site 1380908006827 NAD binding pocket [chemical binding]; other site 1380908006828 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1380908006829 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1380908006830 putative NAD(P) binding site [chemical binding]; other site 1380908006831 active site 1380908006832 aromatic amino acid exporter; Provisional; Region: PRK11689 1380908006833 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1380908006834 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1380908006835 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 1380908006836 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1380908006837 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908006838 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 1380908006839 active site 1380908006840 metal binding site [ion binding]; metal-binding site 1380908006841 MFS transport protein AraJ; Provisional; Region: PRK10091 1380908006842 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 1380908006843 putative substrate translocation pore; other site 1380908006844 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 1380908006845 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 1380908006846 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1380908006847 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 1380908006848 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1380908006849 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1380908006850 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908006851 Walker A/P-loop; other site 1380908006852 ATP binding site [chemical binding]; other site 1380908006853 Q-loop/lid; other site 1380908006854 ABC transporter signature motif; other site 1380908006855 Walker B; other site 1380908006856 D-loop; other site 1380908006857 H-loop/switch region; other site 1380908006858 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908006859 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908006860 Walker A/P-loop; other site 1380908006861 ATP binding site [chemical binding]; other site 1380908006862 Q-loop/lid; other site 1380908006863 ABC transporter signature motif; other site 1380908006864 Walker B; other site 1380908006865 D-loop; other site 1380908006866 H-loop/switch region; other site 1380908006867 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908006868 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1380908006869 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 1380908006870 ABC-ATPase subunit interface; other site 1380908006871 putative PBP binding loops; other site 1380908006872 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1380908006873 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 1380908006874 dimer interface [polypeptide binding]; other site 1380908006875 conserved gate region; other site 1380908006876 ABC-ATPase subunit interface; other site 1380908006877 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908006878 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 1380908006879 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1380908006880 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1380908006881 NAD binding site [chemical binding]; other site 1380908006882 substrate binding site [chemical binding]; other site 1380908006883 catalytic Zn binding site [ion binding]; other site 1380908006884 tetramer interface [polypeptide binding]; other site 1380908006885 structural Zn binding site [ion binding]; other site 1380908006886 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 1380908006887 dimer interface [polypeptide binding]; other site 1380908006888 substrate binding site [chemical binding]; other site 1380908006889 metal binding sites [ion binding]; metal-binding site 1380908006890 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1380908006891 malate dehydrogenase; Provisional; Region: PRK13529 1380908006892 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1380908006893 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1380908006894 NAD(P) binding site [chemical binding]; other site 1380908006895 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 1380908006896 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1380908006897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006899 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 1380908006900 putative effector binding pocket; other site 1380908006901 dimerization interface [polypeptide binding]; other site 1380908006902 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 1380908006903 oxidoreductase; Provisional; Region: PRK06128 1380908006904 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1380908006905 NAD binding site [chemical binding]; other site 1380908006906 metal binding site [ion binding]; metal-binding site 1380908006907 active site 1380908006908 Domain of unknown function (DUF892); Region: DUF892; pfam05974 1380908006909 hypothetical protein; Provisional; Region: PRK10053 1380908006910 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1380908006911 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1380908006912 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908006913 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 1380908006914 substrate binding pocket [chemical binding]; other site 1380908006915 membrane-bound complex binding site; other site 1380908006916 hinge residues; other site 1380908006917 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1380908006918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006920 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 1380908006921 dimerization interface [polypeptide binding]; other site 1380908006922 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1380908006923 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908006924 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 1380908006925 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 1380908006926 Cupin domain; Region: Cupin_2; cl17218 1380908006927 Helix-turn-helix domain; Region: HTH_18; pfam12833 1380908006928 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908006929 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1380908006930 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1380908006931 substrate binding pocket [chemical binding]; other site 1380908006932 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1380908006933 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1380908006934 active site 1380908006935 P-loop; other site 1380908006936 phosphorylation site [posttranslational modification] 1380908006937 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1380908006938 methionine cluster; other site 1380908006939 active site 1380908006940 phosphorylation site [posttranslational modification] 1380908006941 metal binding site [ion binding]; metal-binding site 1380908006942 Predicted ATPase [General function prediction only]; Region: COG1485 1380908006943 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1380908006944 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1380908006945 heme binding site [chemical binding]; other site 1380908006946 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1380908006947 heme binding site [chemical binding]; other site 1380908006948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006950 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 1380908006951 putative effector binding pocket; other site 1380908006952 dimerization interface [polypeptide binding]; other site 1380908006953 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1380908006954 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1380908006955 catalytic triad [active] 1380908006956 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1380908006957 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1380908006958 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1380908006959 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 1380908006960 FeS/SAM binding site; other site 1380908006961 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1380908006962 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1380908006963 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1380908006964 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1380908006965 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1380908006966 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 1380908006967 active site 1380908006968 dimer interface [polypeptide binding]; other site 1380908006969 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1380908006970 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1380908006971 HAMP domain; Region: HAMP; pfam00672 1380908006972 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 1380908006973 dimer interface [polypeptide binding]; other site 1380908006974 phosphorylation site [posttranslational modification] 1380908006975 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 1380908006976 ATP binding site [chemical binding]; other site 1380908006977 Mg2+ binding site [ion binding]; other site 1380908006978 G-X-G motif; other site 1380908006979 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1380908006980 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1380908006981 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 1380908006982 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1380908006983 catalytic residues [active] 1380908006984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908006985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908006986 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 1380908006987 dimerization interface [polypeptide binding]; other site 1380908006988 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1380908006989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908006990 catalytic residue [active] 1380908006991 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1380908006992 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 1380908006993 inhibitor-cofactor binding pocket; inhibition site 1380908006994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908006995 catalytic residue [active] 1380908006996 NMT1/THI5 like; Region: NMT1; pfam09084 1380908006997 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1380908006998 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1380908006999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908007000 Walker A/P-loop; other site 1380908007001 ATP binding site [chemical binding]; other site 1380908007002 Q-loop/lid; other site 1380908007003 ABC transporter signature motif; other site 1380908007004 Walker B; other site 1380908007005 D-loop; other site 1380908007006 H-loop/switch region; other site 1380908007007 Putative transcription activator [Transcription]; Region: TenA; COG0819 1380908007008 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 1380908007009 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908007010 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908007011 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908007012 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1380908007013 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908007014 DNA binding site [nucleotide binding] 1380908007015 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1380908007016 PAS domain S-box; Region: sensory_box; TIGR00229 1380908007017 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 1380908007018 putative active site [active] 1380908007019 heme pocket [chemical binding]; other site 1380908007020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908007021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908007022 metal binding site [ion binding]; metal-binding site 1380908007023 active site 1380908007024 I-site; other site 1380908007025 guanine deaminase; Provisional; Region: PRK09228 1380908007026 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 1380908007027 active site 1380908007028 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1380908007029 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1380908007030 Na binding site [ion binding]; other site 1380908007031 putative substrate binding site [chemical binding]; other site 1380908007032 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1380908007033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908007034 DNA-binding site [nucleotide binding]; DNA binding site 1380908007035 FCD domain; Region: FCD; pfam07729 1380908007036 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1380908007037 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1380908007038 active site 1380908007039 catalytic site [active] 1380908007040 tetramer interface [polypeptide binding]; other site 1380908007041 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1380908007042 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 1380908007043 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 1380908007044 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1380908007045 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1380908007046 catalytic triad [active] 1380908007047 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 1380908007048 Protein of unknown function, DUF606; Region: DUF606; cl01273 1380908007049 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 1380908007050 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 1380908007051 dimer interface [polypeptide binding]; other site 1380908007052 active site 1380908007053 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1380908007054 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 1380908007055 putative substrate translocation pore; other site 1380908007056 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 1380908007057 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1380908007058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908007059 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908007060 Predicted transcriptional regulators [Transcription]; Region: COG1733 1380908007061 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1380908007062 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1380908007063 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1380908007064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908007065 Coenzyme A binding pocket [chemical binding]; other site 1380908007066 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 1380908007067 amidase; Provisional; Region: PRK09201 1380908007068 Amidase; Region: Amidase; pfam01425 1380908007069 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 1380908007070 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1380908007071 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1380908007072 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908007073 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908007074 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1380908007075 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908007076 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 1380908007077 substrate binding pocket [chemical binding]; other site 1380908007078 membrane-bound complex binding site; other site 1380908007079 hinge residues; other site 1380908007080 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908007081 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 1380908007082 dimer interface [polypeptide binding]; other site 1380908007083 conserved gate region; other site 1380908007084 putative PBP binding loops; other site 1380908007085 ABC-ATPase subunit interface; other site 1380908007086 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 1380908007087 dimer interface [polypeptide binding]; other site 1380908007088 conserved gate region; other site 1380908007089 putative PBP binding loops; other site 1380908007090 ABC-ATPase subunit interface; other site 1380908007091 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908007092 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908007093 Walker A/P-loop; other site 1380908007094 ATP binding site [chemical binding]; other site 1380908007095 Q-loop/lid; other site 1380908007096 ABC transporter signature motif; other site 1380908007097 Walker B; other site 1380908007098 D-loop; other site 1380908007099 H-loop/switch region; other site 1380908007100 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1380908007101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908007102 catalytic residue [active] 1380908007103 allantoate amidohydrolase; Reviewed; Region: PRK09290 1380908007104 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1380908007105 active site 1380908007106 metal binding site [ion binding]; metal-binding site 1380908007107 dimer interface [polypeptide binding]; other site 1380908007108 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1380908007109 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 1380908007110 FMN binding site [chemical binding]; other site 1380908007111 substrate binding site [chemical binding]; other site 1380908007112 putative catalytic residue [active] 1380908007113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007115 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1380908007116 putative effector binding pocket; other site 1380908007117 putative dimerization interface [polypeptide binding]; other site 1380908007118 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1380908007119 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1380908007120 active site 1380908007121 FMN binding site [chemical binding]; other site 1380908007122 substrate binding site [chemical binding]; other site 1380908007123 homotetramer interface [polypeptide binding]; other site 1380908007124 catalytic residue [active] 1380908007125 hypothetical protein; Provisional; Region: PRK09897 1380908007126 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1380908007127 putative sialic acid transporter; Region: 2A0112; TIGR00891 1380908007128 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 1380908007129 putative substrate translocation pore; other site 1380908007130 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1380908007131 EamA-like transporter family; Region: EamA; cl17759 1380908007132 EamA-like transporter family; Region: EamA; pfam00892 1380908007133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908007134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908007135 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1380908007136 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 1380908007137 putative substrate translocation pore; other site 1380908007138 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908007139 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908007140 DNA binding site [nucleotide binding] 1380908007141 domain linker motif; other site 1380908007142 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 1380908007143 putative dimerization interface [polypeptide binding]; other site 1380908007144 putative ligand binding site [chemical binding]; other site 1380908007145 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1380908007146 active site 1380908007147 P-loop; other site 1380908007148 phosphorylation site [posttranslational modification] 1380908007149 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1380908007150 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 1380908007151 active site 1380908007152 phosphorylation site [posttranslational modification] 1380908007153 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 1380908007154 active site 1380908007155 P-loop; other site 1380908007156 phosphorylation site [posttranslational modification] 1380908007157 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1380908007158 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1380908007159 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1380908007160 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 1380908007161 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1380908007162 putative substrate translocation pore; other site 1380908007163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007165 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 1380908007166 putative effector binding pocket; other site 1380908007167 dimerization interface [polypeptide binding]; other site 1380908007168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007170 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 1380908007171 putative effector binding pocket; other site 1380908007172 dimerization interface [polypeptide binding]; other site 1380908007173 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1380908007174 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 1380908007175 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1380908007176 metal binding site [ion binding]; metal-binding site 1380908007177 dimer interface [polypeptide binding]; other site 1380908007178 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1380908007179 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1380908007180 active site 1380908007181 substrate binding pocket [chemical binding]; other site 1380908007182 homodimer interaction site [polypeptide binding]; other site 1380908007183 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908007184 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908007185 DNA binding site [nucleotide binding] 1380908007186 domain linker motif; other site 1380908007187 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_11; cd06293 1380908007188 putative dimerization interface [polypeptide binding]; other site 1380908007189 putative ligand binding site [chemical binding]; other site 1380908007190 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1380908007191 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1380908007192 ligand binding site [chemical binding]; other site 1380908007193 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908007194 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1380908007195 substrate binding site [chemical binding]; other site 1380908007196 ATP binding site [chemical binding]; other site 1380908007197 BtpA family; Region: BtpA; cl00440 1380908007198 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1380908007199 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1380908007200 BON domain; Region: BON; pfam04972 1380908007201 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1380908007202 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1380908007203 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 1380908007204 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 1380908007205 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 1380908007206 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 1380908007207 dimer interface [polypeptide binding]; other site 1380908007208 phosphorylation site [posttranslational modification] 1380908007209 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 1380908007210 ATP binding site [chemical binding]; other site 1380908007211 Mg2+ binding site [ion binding]; other site 1380908007212 G-X-G motif; other site 1380908007213 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1380908007214 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 1380908007215 active site 1380908007216 phosphorylation site [posttranslational modification] 1380908007217 intermolecular recognition site; other site 1380908007218 dimerization interface [polypeptide binding]; other site 1380908007219 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 1380908007220 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1380908007221 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 1380908007222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007224 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1380908007225 putative effector binding pocket; other site 1380908007226 putative dimerization interface [polypeptide binding]; other site 1380908007227 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 1380908007228 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908007229 active site 1380908007230 catalytic tetrad [active] 1380908007231 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 1380908007232 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908007233 active site 1380908007234 catalytic tetrad [active] 1380908007235 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1380908007236 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1380908007237 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1380908007238 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1380908007239 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1380908007240 conserved cys residue [active] 1380908007241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007243 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908007244 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908007245 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908007246 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1380908007247 intersubunit interface [polypeptide binding]; other site 1380908007248 active site 1380908007249 catalytic residue [active] 1380908007250 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908007251 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908007252 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908007253 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1380908007254 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 1380908007255 substrate binding site [chemical binding]; other site 1380908007256 hexamer interface [polypeptide binding]; other site 1380908007257 metal binding site [ion binding]; metal-binding site 1380908007258 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 1380908007259 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908007260 substrate binding site [chemical binding]; other site 1380908007261 dimer interface [polypeptide binding]; other site 1380908007262 ATP binding site [chemical binding]; other site 1380908007263 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908007264 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 1380908007265 active site 1380908007266 metal binding site [ion binding]; metal-binding site 1380908007267 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1380908007268 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1380908007269 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1380908007270 acyl-activating enzyme (AAE) consensus motif; other site 1380908007271 acyl-activating enzyme (AAE) consensus motif; other site 1380908007272 putative AMP binding site [chemical binding]; other site 1380908007273 putative active site [active] 1380908007274 putative CoA binding site [chemical binding]; other site 1380908007275 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1380908007276 Coenzyme A transferase; Region: CoA_trans; smart00882 1380908007277 Coenzyme A transferase; Region: CoA_trans; cl17247 1380908007278 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1380908007279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908007280 NAD(P) binding site [chemical binding]; other site 1380908007281 active site 1380908007282 putative acyltransferase; Provisional; Region: PRK05790 1380908007283 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 1380908007284 dimer interface [polypeptide binding]; other site 1380908007285 active site 1380908007286 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1380908007287 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 1380908007288 putative substrate translocation pore; other site 1380908007289 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1380908007290 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 1380908007291 putative substrate translocation pore; other site 1380908007292 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908007293 glycerate kinase; Region: TIGR00045 1380908007294 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1380908007295 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1380908007296 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1380908007297 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1380908007298 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1380908007299 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1380908007300 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1380908007301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908007302 DNA-binding site [nucleotide binding]; DNA binding site 1380908007303 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1380908007304 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1380908007305 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1380908007306 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908007307 active site turn [active] 1380908007308 phosphorylation site [posttranslational modification] 1380908007309 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1380908007310 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 1380908007311 NAD binding site [chemical binding]; other site 1380908007312 sugar binding site [chemical binding]; other site 1380908007313 divalent metal binding site [ion binding]; other site 1380908007314 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908007315 dimer interface [polypeptide binding]; other site 1380908007316 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1380908007317 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 1380908007318 putative substrate translocation pore; other site 1380908007319 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 1380908007320 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 1380908007321 active site 1380908007322 phosphorylation site [posttranslational modification] 1380908007323 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1380908007324 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 1380908007325 PAS domain; Region: PAS_9; pfam13426 1380908007326 putative active site [active] 1380908007327 heme pocket [chemical binding]; other site 1380908007328 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908007329 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908007330 metal binding site [ion binding]; metal-binding site 1380908007331 active site 1380908007332 I-site; other site 1380908007333 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 1380908007334 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1380908007335 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 1380908007336 active site 1380908007337 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908007338 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1380908007339 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908007340 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908007341 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908007342 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908007343 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908007344 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908007345 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908007346 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1380908007347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1380908007348 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1380908007349 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1380908007350 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1380908007351 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1380908007352 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 1380908007353 active site 1380908007354 homotetramer interface [polypeptide binding]; other site 1380908007355 OHCU decarboxylase; Region: UraD_2; TIGR03180 1380908007356 hypothetical protein; Provisional; Region: PRK07236 1380908007357 FAD binding domain; Region: FAD_binding_3; pfam01494 1380908007358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007359 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1380908007360 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 1380908007361 dimerization interface [polypeptide binding]; other site 1380908007362 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1380908007363 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 1380908007364 [2Fe-2S] cluster binding site [ion binding]; other site 1380908007365 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1380908007366 hydrophobic ligand binding site; other site 1380908007367 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1380908007368 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1380908007369 FMN-binding pocket [chemical binding]; other site 1380908007370 flavin binding motif; other site 1380908007371 phosphate binding motif [ion binding]; other site 1380908007372 beta-alpha-beta structure motif; other site 1380908007373 NAD binding pocket [chemical binding]; other site 1380908007374 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 1380908007375 catalytic loop [active] 1380908007376 iron binding site [ion binding]; other site 1380908007377 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1380908007378 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 1380908007379 putative substrate translocation pore; other site 1380908007380 Cupin; Region: Cupin_6; pfam12852 1380908007381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908007382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007384 Cupin domain; Region: Cupin_2; cl17218 1380908007385 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1380908007386 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1380908007387 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1380908007388 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1380908007389 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1380908007390 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1380908007391 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908007392 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1380908007393 Walker A/P-loop; other site 1380908007394 ATP binding site [chemical binding]; other site 1380908007395 Q-loop/lid; other site 1380908007396 ABC transporter signature motif; other site 1380908007397 Walker B; other site 1380908007398 D-loop; other site 1380908007399 H-loop/switch region; other site 1380908007400 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 1380908007401 dimer interface [polypeptide binding]; other site 1380908007402 conserved gate region; other site 1380908007403 ABC-ATPase subunit interface; other site 1380908007404 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1380908007405 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 1380908007406 FMN binding site [chemical binding]; other site 1380908007407 substrate binding site [chemical binding]; other site 1380908007408 putative catalytic residue [active] 1380908007409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007411 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 1380908007412 dimerization interface [polypeptide binding]; other site 1380908007413 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 1380908007414 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908007415 putative substrate translocation pore; other site 1380908007416 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1380908007417 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 1380908007418 S-adenosylmethionine binding site [chemical binding]; other site 1380908007419 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1380908007420 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1380908007421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908007422 Coenzyme A binding pocket [chemical binding]; other site 1380908007423 altronate oxidoreductase; Provisional; Region: PRK03643 1380908007424 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1380908007425 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1380908007426 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1380908007427 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908007428 Coenzyme A binding pocket [chemical binding]; other site 1380908007429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908007430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908007431 metal binding site [ion binding]; metal-binding site 1380908007432 active site 1380908007433 I-site; other site 1380908007434 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 1380908007435 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1380908007436 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1380908007437 NAD(P) binding site [chemical binding]; other site 1380908007438 catalytic residues [active] 1380908007439 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1380908007440 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1380908007441 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908007442 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1380908007443 NAD binding site [chemical binding]; other site 1380908007444 dimer interface [polypeptide binding]; other site 1380908007445 substrate binding site [chemical binding]; other site 1380908007446 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908007447 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908007448 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908007449 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1380908007450 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1380908007451 active site 1380908007452 NAD binding site [chemical binding]; other site 1380908007453 metal binding site [ion binding]; metal-binding site 1380908007454 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1380908007455 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1380908007456 Na binding site [ion binding]; other site 1380908007457 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1380908007458 BNR repeat-like domain; Region: BNR_2; pfam13088 1380908007459 Domain of unknown function (DUF386); Region: DUF386; cl01047 1380908007460 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1380908007461 putative arabinose transporter; Provisional; Region: PRK03545 1380908007462 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 1380908007463 putative substrate translocation pore; other site 1380908007464 inner membrane protein; Provisional; Region: PRK10995 1380908007465 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 1380908007466 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1380908007467 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 1380908007468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007470 MarB protein; Region: MarB; pfam13999 1380908007471 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1380908007472 putative transporter; Provisional; Region: PRK10054 1380908007473 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 1380908007474 putative substrate translocation pore; other site 1380908007475 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908007476 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 1380908007477 non-specific DNA binding site [nucleotide binding]; other site 1380908007478 salt bridge; other site 1380908007479 sequence-specific DNA binding site [nucleotide binding]; other site 1380908007480 2TM domain; Region: 2TM; pfam13239 1380908007481 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1380908007482 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1380908007483 Walker A/P-loop; other site 1380908007484 ATP binding site [chemical binding]; other site 1380908007485 Q-loop/lid; other site 1380908007486 ABC transporter signature motif; other site 1380908007487 Walker B; other site 1380908007488 D-loop; other site 1380908007489 H-loop/switch region; other site 1380908007490 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1380908007491 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1380908007492 Walker A/P-loop; other site 1380908007493 ATP binding site [chemical binding]; other site 1380908007494 Q-loop/lid; other site 1380908007495 ABC transporter signature motif; other site 1380908007496 Walker B; other site 1380908007497 D-loop; other site 1380908007498 H-loop/switch region; other site 1380908007499 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1380908007500 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 1380908007501 TM-ABC transporter signature motif; other site 1380908007502 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 1380908007503 substrate binding site [chemical binding]; other site 1380908007504 THF binding site; other site 1380908007505 zinc-binding site [ion binding]; other site 1380908007506 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 1380908007507 active site residue [active] 1380908007508 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1380908007509 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1380908007510 conserved cys residue [active] 1380908007511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908007514 Coenzyme A binding pocket [chemical binding]; other site 1380908007515 lac repressor; Reviewed; Region: lacI; PRK09526 1380908007516 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908007517 DNA binding site [nucleotide binding] 1380908007518 domain linker motif; other site 1380908007519 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 1380908007520 ligand binding site [chemical binding]; other site 1380908007521 dimerization interface (open form) [polypeptide binding]; other site 1380908007522 dimerization interface (closed form) [polypeptide binding]; other site 1380908007523 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1380908007524 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1380908007525 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1380908007526 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1380908007527 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1380908007528 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 1380908007529 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 1380908007530 Predicted ATPase [General function prediction only]; Region: COG4637 1380908007531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908007532 Walker A/P-loop; other site 1380908007533 ATP binding site [chemical binding]; other site 1380908007534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908007535 ABC transporter signature motif; other site 1380908007536 Walker B; other site 1380908007537 D-loop; other site 1380908007538 H-loop/switch region; other site 1380908007539 beta-lactamase TEM; Provisional; Region: PRK15442 1380908007540 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1380908007541 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908007542 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908007543 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908007544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1380908007545 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1380908007546 putative transporter; Provisional; Region: PRK09821 1380908007547 GntP family permease; Region: GntP_permease; pfam02447 1380908007548 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1380908007549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007550 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1380908007551 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 1380908007552 DNA binding residues [nucleotide binding] 1380908007553 dimerization interface [polypeptide binding]; other site 1380908007554 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1380908007555 Sensors of blue-light using FAD; Region: BLUF; smart01034 1380908007556 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 1380908007557 hypothetical protein; Validated; Region: PRK03657 1380908007558 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1380908007559 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1380908007560 putative dimer interface [polypeptide binding]; other site 1380908007561 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1380908007562 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 1380908007563 DNA binding residues [nucleotide binding] 1380908007564 dimerization interface [polypeptide binding]; other site 1380908007565 hypothetical protein; Provisional; Region: PRK09951 1380908007566 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 1380908007567 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1380908007568 active site 1380908007569 Zn binding site [ion binding]; other site 1380908007570 malonic semialdehyde reductase; Provisional; Region: PRK10538 1380908007571 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1380908007572 putative NAD(P) binding site [chemical binding]; other site 1380908007573 homodimer interface [polypeptide binding]; other site 1380908007574 homotetramer interface [polypeptide binding]; other site 1380908007575 active site 1380908007576 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1380908007577 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908007578 DNA-binding site [nucleotide binding]; DNA binding site 1380908007579 FCD domain; Region: FCD; pfam07729 1380908007580 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 1380908007581 Ligand Binding Site [chemical binding]; other site 1380908007582 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1380908007583 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1380908007584 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1380908007585 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 1380908007586 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908007587 putative substrate translocation pore; other site 1380908007588 hypothetical protein; Provisional; Region: PRK02237 1380908007589 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1380908007590 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908007591 Coenzyme A binding pocket [chemical binding]; other site 1380908007592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908007593 lipoprotein; Reviewed; Region: PRK02939 1380908007594 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1380908007595 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1380908007596 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1380908007597 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1380908007598 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 1380908007599 Cl- selectivity filter; other site 1380908007600 Cl- binding residues [ion binding]; other site 1380908007601 pore gating glutamate residue; other site 1380908007602 dimer interface [polypeptide binding]; other site 1380908007603 putative dithiobiotin synthetase; Provisional; Region: PRK12374 1380908007604 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1380908007605 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1380908007606 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908007607 nucleotide binding site [chemical binding]; other site 1380908007608 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1380908007609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007610 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 1380908007611 dimerization interface [polypeptide binding]; other site 1380908007612 substrate binding pocket [chemical binding]; other site 1380908007613 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1380908007614 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 1380908007615 putative substrate translocation pore; other site 1380908007616 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1380908007617 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1380908007618 active site 1380908007619 Zn binding site [ion binding]; other site 1380908007620 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1380908007621 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 1380908007622 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 1380908007623 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 1380908007624 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1380908007625 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1380908007626 Coenzyme A transferase; Region: CoA_trans; cl17247 1380908007627 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1380908007628 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1380908007629 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1380908007630 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1380908007631 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1380908007632 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1380908007633 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1380908007634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007636 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 1380908007637 putative dimerization interface [polypeptide binding]; other site 1380908007638 malate:quinone oxidoreductase; Validated; Region: PRK05257 1380908007639 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1380908007640 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1380908007641 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 1380908007642 putative active site [active] 1380908007643 heme pocket [chemical binding]; other site 1380908007644 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 1380908007645 ATP binding site [chemical binding]; other site 1380908007646 Mg2+ binding site [ion binding]; other site 1380908007647 G-X-G motif; other site 1380908007648 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 1380908007649 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 1380908007650 active site 1380908007651 phosphorylation site [posttranslational modification] 1380908007652 intermolecular recognition site; other site 1380908007653 dimerization interface [polypeptide binding]; other site 1380908007654 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1380908007655 ApbE family; Region: ApbE; pfam02424 1380908007656 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1380908007657 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1380908007658 putative active site [active] 1380908007659 putative FMN binding site [chemical binding]; other site 1380908007660 putative substrate binding site [chemical binding]; other site 1380908007661 putative catalytic residue [active] 1380908007662 FMN-binding domain; Region: FMN_bind; cl01081 1380908007663 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1380908007664 L-aspartate oxidase; Provisional; Region: PRK06175 1380908007665 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1380908007666 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1380908007667 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1380908007668 transmembrane helices; other site 1380908007669 fumarate hydratase; Provisional; Region: PRK15389 1380908007670 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1380908007671 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1380908007672 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1380908007673 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908007674 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1380908007675 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1380908007676 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1380908007677 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1380908007678 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1380908007679 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1380908007680 Bacterial transcriptional regulator; Region: IclR; pfam01614 1380908007681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1380908007682 Smr domain; Region: Smr; pfam01713 1380908007683 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1380908007684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007685 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 1380908007686 putative substrate binding pocket [chemical binding]; other site 1380908007687 putative dimerization interface [polypeptide binding]; other site 1380908007688 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 1380908007689 amidohydrolase; Region: amidohydrolases; TIGR01891 1380908007690 putative metal binding site [ion binding]; other site 1380908007691 dimer interface [polypeptide binding]; other site 1380908007692 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1380908007693 amidohydrolase; Region: amidohydrolases; TIGR01891 1380908007694 putative metal binding site [ion binding]; other site 1380908007695 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 1380908007696 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1380908007697 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 1380908007698 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1380908007699 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 1380908007700 DNA binding site [nucleotide binding] 1380908007701 active site 1380908007702 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1380908007703 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 1380908007704 ligand binding site [chemical binding]; other site 1380908007705 flexible hinge region; other site 1380908007706 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 1380908007707 putative switch regulator; other site 1380908007708 non-specific DNA interactions [nucleotide binding]; other site 1380908007709 DNA binding site [nucleotide binding] 1380908007710 sequence specific DNA binding site [nucleotide binding]; other site 1380908007711 putative cAMP binding site [chemical binding]; other site 1380908007712 universal stress protein UspE; Provisional; Region: PRK11175 1380908007713 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 1380908007714 Ligand Binding Site [chemical binding]; other site 1380908007715 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 1380908007716 Ligand Binding Site [chemical binding]; other site 1380908007717 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1380908007718 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1380908007719 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1380908007720 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1380908007721 ligand binding site [chemical binding]; other site 1380908007722 homodimer interface [polypeptide binding]; other site 1380908007723 NAD(P) binding site [chemical binding]; other site 1380908007724 trimer interface B [polypeptide binding]; other site 1380908007725 trimer interface A [polypeptide binding]; other site 1380908007726 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1380908007727 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908007728 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908007729 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908007730 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1380908007731 Spore germination protein; Region: Spore_permease; cl17796 1380908007732 dihydromonapterin reductase; Provisional; Region: PRK06483 1380908007733 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1380908007734 NADP binding site [chemical binding]; other site 1380908007735 substrate binding pocket [chemical binding]; other site 1380908007736 active site 1380908007737 GlpM protein; Region: GlpM; pfam06942 1380908007738 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1380908007739 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 1380908007740 active site 1380908007741 phosphorylation site [posttranslational modification] 1380908007742 intermolecular recognition site; other site 1380908007743 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 1380908007744 DNA binding site [nucleotide binding] 1380908007745 sensor protein RstB; Provisional; Region: PRK10604 1380908007746 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 1380908007747 dimerization interface [polypeptide binding]; other site 1380908007748 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 1380908007749 dimer interface [polypeptide binding]; other site 1380908007750 phosphorylation site [posttranslational modification] 1380908007751 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 1380908007752 ATP binding site [chemical binding]; other site 1380908007753 Mg2+ binding site [ion binding]; other site 1380908007754 G-X-G motif; other site 1380908007755 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 1380908007756 fumarate hydratase; Provisional; Region: PRK15389 1380908007757 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1380908007758 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1380908007759 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1380908007760 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1380908007761 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1380908007762 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 1380908007763 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908007764 DNA binding site [nucleotide binding] 1380908007765 domain linker motif; other site 1380908007766 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1380908007767 putative dimerization interface [polypeptide binding]; other site 1380908007768 putative ligand binding site [chemical binding]; other site 1380908007769 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1380908007770 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 1380908007771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908007772 homodimer interface [polypeptide binding]; other site 1380908007773 catalytic residue [active] 1380908007774 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1380908007775 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1380908007776 Cl binding site [ion binding]; other site 1380908007777 oligomer interface [polypeptide binding]; other site 1380908007778 YdfZ protein; Region: YdfZ; pfam14001 1380908007779 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1380908007780 putative inner membrane protein; Provisional; Region: PRK11099 1380908007781 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 1380908007782 CPxP motif; other site 1380908007783 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 1380908007784 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 1380908007785 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1380908007786 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1380908007787 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1380908007788 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1380908007789 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1380908007790 NAD binding site [chemical binding]; other site 1380908007791 catalytic residues [active] 1380908007792 substrate binding site [chemical binding]; other site 1380908007793 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 1380908007794 putative active site [active] 1380908007795 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 1380908007796 metabolite-proton symporter; Region: 2A0106; TIGR00883 1380908007797 putative substrate translocation pore; other site 1380908007798 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1380908007799 succinylarginine dihydrolase; Provisional; Region: PRK13281 1380908007800 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1380908007801 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1380908007802 NAD(P) binding site [chemical binding]; other site 1380908007803 catalytic residues [active] 1380908007804 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1380908007805 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1380908007806 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1380908007807 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1380908007808 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1380908007809 NAD(P) binding site [chemical binding]; other site 1380908007810 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 1380908007811 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908007812 active site 1380908007813 catalytic tetrad [active] 1380908007814 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007816 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 1380908007817 dimerization interface [polypeptide binding]; other site 1380908007818 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1380908007819 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1380908007820 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 1380908007821 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908007822 putative substrate translocation pore; other site 1380908007823 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1380908007824 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908007825 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908007826 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1380908007827 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1380908007828 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 1380908007829 S-adenosylmethionine binding site [chemical binding]; other site 1380908007830 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1380908007831 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 1380908007832 ATP binding site [chemical binding]; other site 1380908007833 putative Mg++ binding site [ion binding]; other site 1380908007834 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 1380908007835 nucleotide binding region [chemical binding]; other site 1380908007836 ATP-binding site [chemical binding]; other site 1380908007837 Helicase associated domain (HA2); Region: HA2; pfam04408 1380908007838 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1380908007839 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1380908007840 azoreductase; Reviewed; Region: PRK00170 1380908007841 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1380908007842 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1380908007843 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1380908007844 putative trimer interface [polypeptide binding]; other site 1380908007845 putative metal binding site [ion binding]; other site 1380908007846 PaaX-like protein; Region: PaaX; pfam07848 1380908007847 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1380908007848 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1380908007849 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1380908007850 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1380908007851 active site 1380908007852 AMP binding site [chemical binding]; other site 1380908007853 homodimer interface [polypeptide binding]; other site 1380908007854 acyl-activating enzyme (AAE) consensus motif; other site 1380908007855 CoA binding site [chemical binding]; other site 1380908007856 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1380908007857 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 1380908007858 dimer interface [polypeptide binding]; other site 1380908007859 active site 1380908007860 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1380908007861 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1380908007862 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908007863 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908007864 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1380908007865 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 1380908007866 substrate binding site [chemical binding]; other site 1380908007867 oxyanion hole (OAH) forming residues; other site 1380908007868 trimer interface [polypeptide binding]; other site 1380908007869 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1380908007870 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1380908007871 FAD binding pocket [chemical binding]; other site 1380908007872 FAD binding motif [chemical binding]; other site 1380908007873 phosphate binding motif [ion binding]; other site 1380908007874 beta-alpha-beta structure motif; other site 1380908007875 NAD(p) ribose binding residues [chemical binding]; other site 1380908007876 NAD binding pocket [chemical binding]; other site 1380908007877 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1380908007878 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 1380908007879 catalytic loop [active] 1380908007880 iron binding site [ion binding]; other site 1380908007881 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1380908007882 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1380908007883 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1380908007884 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1380908007885 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1380908007886 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1380908007887 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1380908007888 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1380908007889 substrate binding site [chemical binding]; other site 1380908007890 dimer interface [polypeptide binding]; other site 1380908007891 NADP binding site [chemical binding]; other site 1380908007892 catalytic residues [active] 1380908007893 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1380908007894 substrate binding site [chemical binding]; other site 1380908007895 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1380908007896 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1380908007897 NADP binding site [chemical binding]; other site 1380908007898 dimer interface [polypeptide binding]; other site 1380908007899 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1380908007900 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1380908007901 NAD(P) binding site [chemical binding]; other site 1380908007902 catalytic residues [active] 1380908007903 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1380908007904 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908007905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 1380908007906 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1380908007907 hypothetical protein; Provisional; Region: PRK10695 1380908007908 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1380908007909 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1380908007910 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1380908007911 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1380908007912 putative ligand binding site [chemical binding]; other site 1380908007913 putative NAD binding site [chemical binding]; other site 1380908007914 catalytic site [active] 1380908007915 META domain; Region: META; cl01245 1380908007916 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1380908007917 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1380908007918 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1380908007919 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 1380908007920 dimer interface [polypeptide binding]; other site 1380908007921 PYR/PP interface [polypeptide binding]; other site 1380908007922 TPP binding site [chemical binding]; other site 1380908007923 substrate binding site [chemical binding]; other site 1380908007924 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1380908007925 Domain of unknown function; Region: EKR; pfam10371 1380908007926 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 1380908007927 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1380908007928 TPP-binding site [chemical binding]; other site 1380908007929 dimer interface [polypeptide binding]; other site 1380908007930 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1380908007931 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 1380908007932 trimer interface [polypeptide binding]; other site 1380908007933 eyelet of channel; other site 1380908007934 KTSC domain; Region: KTSC; pfam13619 1380908007935 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 1380908007936 Ligand Binding Site [chemical binding]; other site 1380908007937 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1380908007938 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 1380908007939 Ligand Binding Site [chemical binding]; other site 1380908007940 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1380908007941 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 1380908007942 ATP binding site [chemical binding]; other site 1380908007943 Mg++ binding site [ion binding]; other site 1380908007944 motif III; other site 1380908007945 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 1380908007946 nucleotide binding region [chemical binding]; other site 1380908007947 ATP-binding site [chemical binding]; other site 1380908007948 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1380908007949 putative RNA binding site [nucleotide binding]; other site 1380908007950 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1380908007951 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1380908007952 Cl binding site [ion binding]; other site 1380908007953 oligomer interface [polypeptide binding]; other site 1380908007954 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908007955 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908007956 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908007957 putative oxidoreductase; Provisional; Region: PRK11579 1380908007958 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908007959 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908007960 aromatic amino acid transporter; Provisional; Region: PRK10238 1380908007961 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1380908007962 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1380908007963 putative DNA binding site [nucleotide binding]; other site 1380908007964 putative Zn2+ binding site [ion binding]; other site 1380908007965 AsnC family; Region: AsnC_trans_reg; pfam01037 1380908007966 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1380908007967 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 1380908007968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908007969 homodimer interface [polypeptide binding]; other site 1380908007970 catalytic residue [active] 1380908007971 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1380908007972 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1380908007973 Walker A/P-loop; other site 1380908007974 ATP binding site [chemical binding]; other site 1380908007975 Q-loop/lid; other site 1380908007976 ABC transporter signature motif; other site 1380908007977 Walker B; other site 1380908007978 D-loop; other site 1380908007979 H-loop/switch region; other site 1380908007980 NIL domain; Region: NIL; pfam09383 1380908007981 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1380908007982 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1380908007983 putative NAD(P) binding site [chemical binding]; other site 1380908007984 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908007985 NmrA-like family; Region: NmrA; pfam05368 1380908007986 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1380908007987 NADP binding site [chemical binding]; other site 1380908007988 active site 1380908007989 regulatory binding site [polypeptide binding]; other site 1380908007990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007992 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1380908007993 putative substrate binding pocket [chemical binding]; other site 1380908007994 putative dimerization interface [polypeptide binding]; other site 1380908007995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908007996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908007997 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1380908007998 putative effector binding pocket; other site 1380908007999 putative dimerization interface [polypeptide binding]; other site 1380908008000 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 1380908008001 NmrA-like family; Region: NmrA; pfam05368 1380908008002 NAD(P) binding site [chemical binding]; other site 1380908008003 active site lysine 1380908008004 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908008005 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1380908008006 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908008007 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908008008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908008009 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908008010 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1380908008011 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1380908008012 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1380908008013 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1380908008014 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1380908008015 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1380908008016 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1380908008017 PAAR motif; Region: PAAR_motif; pfam05488 1380908008018 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1380908008019 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1380908008020 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1380908008021 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1380908008022 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1380908008023 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1380908008024 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1380908008025 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1380908008026 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1380908008027 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1380908008028 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1380908008029 ligand binding site [chemical binding]; other site 1380908008030 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1380908008031 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1380908008032 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1380908008033 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1380908008034 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1380908008035 Bacterial Ig-like domain 2; Region: BID_2; smart00635 1380908008036 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1380908008037 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1380908008038 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1380908008039 Phage terminase large subunit; Region: Terminase_3; cl12054 1380908008040 Terminase-like family; Region: Terminase_6; pfam03237 1380908008041 Terminase small subunit; Region: Terminase_2; pfam03592 1380908008042 Protein of unknown function (DUF2560); Region: DUF2560; cl10280 1380908008043 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1380908008044 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1380908008045 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1380908008046 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 1380908008047 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1380908008048 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1380908008049 active site 1380908008050 metal binding site [ion binding]; metal-binding site 1380908008051 NinB protein; Region: NinB; pfam05772 1380908008052 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1380908008053 MarR family; Region: MarR_2; pfam12802 1380908008054 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 1380908008055 Walker A motif; other site 1380908008056 ATP binding site [chemical binding]; other site 1380908008057 Walker B motif; other site 1380908008058 arginine finger; other site 1380908008059 Predicted transcriptional regulator [Transcription]; Region: COG2932 1380908008060 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 1380908008061 Catalytic site [active] 1380908008062 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1380908008063 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 1380908008064 P-loop; other site 1380908008065 Magnesium ion binding site [ion binding]; other site 1380908008066 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 1380908008067 Magnesium ion binding site [ion binding]; other site 1380908008068 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1380908008069 MT-A70; Region: MT-A70; cl01947 1380908008070 integrase; Provisional; Region: PRK09692 1380908008071 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 1380908008072 active site 1380908008073 Int/Topo IB signature motif; other site 1380908008074 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 1380908008075 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1380908008076 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 1380908008077 dimer interface [polypeptide binding]; other site 1380908008078 conserved gate region; other site 1380908008079 putative PBP binding loops; other site 1380908008080 ABC-ATPase subunit interface; other site 1380908008081 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 1380908008082 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908008083 Walker A/P-loop; other site 1380908008084 ATP binding site [chemical binding]; other site 1380908008085 Q-loop/lid; other site 1380908008086 ABC transporter signature motif; other site 1380908008087 Walker B; other site 1380908008088 D-loop; other site 1380908008089 H-loop/switch region; other site 1380908008090 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908008091 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1380908008092 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1380908008093 Na binding site [ion binding]; other site 1380908008094 HutD; Region: HutD; pfam05962 1380908008095 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 1380908008096 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1380908008097 NAD binding site [chemical binding]; other site 1380908008098 homotetramer interface [polypeptide binding]; other site 1380908008099 homodimer interface [polypeptide binding]; other site 1380908008100 substrate binding site [chemical binding]; other site 1380908008101 active site 1380908008102 exoribonuclease II; Provisional; Region: PRK05054 1380908008103 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1380908008104 RNB domain; Region: RNB; pfam00773 1380908008105 S1 RNA binding domain; Region: S1; pfam00575 1380908008106 hypothetical protein; Provisional; Region: PRK13658 1380908008107 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908008108 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908008109 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908008110 translation initiation factor Sui1; Validated; Region: PRK06824 1380908008111 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1380908008112 putative rRNA binding site [nucleotide binding]; other site 1380908008113 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 1380908008114 active site 1380908008115 dimer interface [polypeptide binding]; other site 1380908008116 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1380908008117 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1380908008118 binding surface 1380908008119 TPR motif; other site 1380908008120 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 1380908008121 binding surface 1380908008122 TPR motif; other site 1380908008123 Predicted membrane protein [Function unknown]; Region: COG3771 1380908008124 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 1380908008125 dimerization interface [polypeptide binding]; other site 1380908008126 active site 1380908008127 aconitate hydratase; Validated; Region: PRK09277 1380908008128 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1380908008129 substrate binding site [chemical binding]; other site 1380908008130 ligand binding site [chemical binding]; other site 1380908008131 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1380908008132 substrate binding site [chemical binding]; other site 1380908008133 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1380908008134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008135 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 1380908008136 substrate binding site [chemical binding]; other site 1380908008137 putative dimerization interface [polypeptide binding]; other site 1380908008138 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1380908008139 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 1380908008140 active site 1380908008141 interdomain interaction site; other site 1380908008142 putative metal-binding site [ion binding]; other site 1380908008143 nucleotide binding site [chemical binding]; other site 1380908008144 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 1380908008145 domain I; other site 1380908008146 DNA binding groove [nucleotide binding] 1380908008147 phosphate binding site [ion binding]; other site 1380908008148 domain II; other site 1380908008149 domain III; other site 1380908008150 nucleotide binding site [chemical binding]; other site 1380908008151 catalytic site [active] 1380908008152 domain IV; other site 1380908008153 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1380908008154 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1380908008155 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1380908008156 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1380908008157 hypothetical protein; Provisional; Region: PRK11037 1380908008158 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1380908008159 putative inner membrane peptidase; Provisional; Region: PRK11778 1380908008160 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1380908008161 tandem repeat interface [polypeptide binding]; other site 1380908008162 oligomer interface [polypeptide binding]; other site 1380908008163 active site residues [active] 1380908008164 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1380908008165 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 1380908008166 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1380908008167 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 1380908008168 RNA binding surface [nucleotide binding]; other site 1380908008169 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1380908008170 probable active site [active] 1380908008171 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1380908008172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008173 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 1380908008174 dimerization interface [polypeptide binding]; other site 1380908008175 substrate binding pocket [chemical binding]; other site 1380908008176 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1380908008177 EamA-like transporter family; Region: EamA; pfam00892 1380908008178 hypothetical protein; Provisional; Region: PRK11630 1380908008179 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1380908008180 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1380908008181 active site 1380908008182 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1380908008183 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1380908008184 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 1380908008185 active site 1380908008186 ribulose/triose binding site [chemical binding]; other site 1380908008187 phosphate binding site [ion binding]; other site 1380908008188 substrate (anthranilate) binding pocket [chemical binding]; other site 1380908008189 product (indole) binding pocket [chemical binding]; other site 1380908008190 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 1380908008191 active site 1380908008192 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1380908008193 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 1380908008194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908008195 catalytic residue [active] 1380908008196 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1380908008197 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 1380908008198 substrate binding site [chemical binding]; other site 1380908008199 active site 1380908008200 catalytic residues [active] 1380908008201 heterodimer interface [polypeptide binding]; other site 1380908008202 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1380908008203 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1380908008204 MOFRL family; Region: MOFRL; pfam05161 1380908008205 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1380908008206 tartrate dehydrogenase; Region: TTC; TIGR02089 1380908008207 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1380908008208 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 1380908008209 putative substrate translocation pore; other site 1380908008210 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1380908008211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008212 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 1380908008213 dimerization interface [polypeptide binding]; other site 1380908008214 substrate binding pocket [chemical binding]; other site 1380908008215 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1380908008216 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 1380908008217 putative DNA binding site [nucleotide binding]; other site 1380908008218 putative Zn2+ binding site [ion binding]; other site 1380908008219 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 1380908008220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908008221 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1380908008222 NAD(P) binding site [chemical binding]; other site 1380908008223 active site 1380908008224 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 1380908008225 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 1380908008226 N-terminal plug; other site 1380908008227 ligand-binding site [chemical binding]; other site 1380908008228 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1380908008229 outer membrane protein W; Provisional; Region: PRK10959 1380908008230 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1380908008231 hypothetical protein; Provisional; Region: PRK02868 1380908008232 intracellular septation protein A; Reviewed; Region: PRK00259 1380908008233 outer membrane receptor FepA; Provisional; Region: PRK13528 1380908008234 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 1380908008235 N-terminal plug; other site 1380908008236 ligand-binding site [chemical binding]; other site 1380908008237 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 1380908008238 YniB-like protein; Region: YniB; pfam14002 1380908008239 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1380908008240 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 1380908008241 motif II; other site 1380908008242 inner membrane protein; Provisional; Region: PRK11648 1380908008243 cell division modulator; Provisional; Region: PRK10113 1380908008244 hydroperoxidase II; Provisional; Region: katE; PRK11249 1380908008245 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1380908008246 tetramer interface [polypeptide binding]; other site 1380908008247 heme binding pocket [chemical binding]; other site 1380908008248 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1380908008249 domain interactions; other site 1380908008250 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 1380908008251 putative active site [active] 1380908008252 YdjC motif; other site 1380908008253 Mg binding site [ion binding]; other site 1380908008254 putative homodimer interface [polypeptide binding]; other site 1380908008255 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1380908008256 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1380908008257 NAD binding site [chemical binding]; other site 1380908008258 sugar binding site [chemical binding]; other site 1380908008259 divalent metal binding site [ion binding]; other site 1380908008260 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908008261 dimer interface [polypeptide binding]; other site 1380908008262 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 1380908008263 Cupin domain; Region: Cupin_2; pfam07883 1380908008264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908008265 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1380908008266 methionine cluster; other site 1380908008267 active site 1380908008268 phosphorylation site [posttranslational modification] 1380908008269 metal binding site [ion binding]; metal-binding site 1380908008270 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 1380908008271 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908008272 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1380908008273 active site 1380908008274 P-loop; other site 1380908008275 phosphorylation site [posttranslational modification] 1380908008276 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1380908008277 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1380908008278 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 1380908008279 homodimer interface [polypeptide binding]; other site 1380908008280 NAD binding pocket [chemical binding]; other site 1380908008281 ATP binding pocket [chemical binding]; other site 1380908008282 Mg binding site [ion binding]; other site 1380908008283 active-site loop [active] 1380908008284 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 1380908008285 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1380908008286 GIY-YIG motif/motif A; other site 1380908008287 active site 1380908008288 catalytic site [active] 1380908008289 putative DNA binding site [nucleotide binding]; other site 1380908008290 metal binding site [ion binding]; metal-binding site 1380908008291 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1380908008292 dimer interface [polypeptide binding]; other site 1380908008293 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1380908008294 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1380908008295 putative active site [active] 1380908008296 Zn binding site [ion binding]; other site 1380908008297 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1380908008298 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1380908008299 NAD(P) binding site [chemical binding]; other site 1380908008300 catalytic residues [active] 1380908008301 arginine succinyltransferase; Provisional; Region: PRK10456 1380908008302 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1380908008303 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 1380908008304 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 1380908008305 inhibitor-cofactor binding pocket; inhibition site 1380908008306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908008307 catalytic residue [active] 1380908008308 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 1380908008309 putative catalytic site [active] 1380908008310 putative phosphate binding site [ion binding]; other site 1380908008311 active site 1380908008312 metal binding site A [ion binding]; metal-binding site 1380908008313 DNA binding site [nucleotide binding] 1380908008314 putative AP binding site [nucleotide binding]; other site 1380908008315 putative metal binding site B [ion binding]; other site 1380908008316 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1380908008317 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1380908008318 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1380908008319 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1380908008320 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1380908008321 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1380908008322 hypothetical protein; Provisional; Region: PRK11622 1380908008323 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1380908008324 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1380908008325 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 1380908008326 active site 1380908008327 8-oxo-dGMP binding site [chemical binding]; other site 1380908008328 nudix motif; other site 1380908008329 metal binding site [ion binding]; metal-binding site 1380908008330 glutamate dehydrogenase; Provisional; Region: PRK09414 1380908008331 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1380908008332 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1380908008333 NAD(P) binding site [chemical binding]; other site 1380908008334 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1380908008335 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1380908008336 NAD(P) binding site [chemical binding]; other site 1380908008337 DNA topoisomerase III; Provisional; Region: PRK07726 1380908008338 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1380908008339 active site 1380908008340 putative interdomain interaction site [polypeptide binding]; other site 1380908008341 putative metal-binding site [ion binding]; other site 1380908008342 putative nucleotide binding site [chemical binding]; other site 1380908008343 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 1380908008344 domain I; other site 1380908008345 DNA binding groove [nucleotide binding] 1380908008346 phosphate binding site [ion binding]; other site 1380908008347 domain II; other site 1380908008348 domain III; other site 1380908008349 nucleotide binding site [chemical binding]; other site 1380908008350 catalytic site [active] 1380908008351 domain IV; other site 1380908008352 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1380908008353 active site 1380908008354 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1380908008355 putative transposase OrfB; Reviewed; Region: PHA02517 1380908008356 HTH-like domain; Region: HTH_21; pfam13276 1380908008357 Integrase core domain; Region: rve; pfam00665 1380908008358 Integrase core domain; Region: rve_2; pfam13333 1380908008359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908008360 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908008361 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908008362 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1380908008363 putative FMN binding site [chemical binding]; other site 1380908008364 protease 4; Provisional; Region: PRK10949 1380908008365 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1380908008366 tandem repeat interface [polypeptide binding]; other site 1380908008367 oligomer interface [polypeptide binding]; other site 1380908008368 active site residues [active] 1380908008369 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 1380908008370 tandem repeat interface [polypeptide binding]; other site 1380908008371 oligomer interface [polypeptide binding]; other site 1380908008372 active site residues [active] 1380908008373 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1380908008374 active site 1380908008375 homodimer interface [polypeptide binding]; other site 1380908008376 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 1380908008377 Isochorismatase family; Region: Isochorismatase; pfam00857 1380908008378 catalytic triad [active] 1380908008379 metal binding site [ion binding]; metal-binding site 1380908008380 conserved cis-peptide bond; other site 1380908008381 benzoate transport; Region: 2A0115; TIGR00895 1380908008382 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 1380908008383 putative substrate translocation pore; other site 1380908008384 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 1380908008385 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1380908008386 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1380908008387 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908008388 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 1380908008389 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908008390 active site 1380908008391 catalytic tetrad [active] 1380908008392 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 1380908008393 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908008394 substrate binding site [chemical binding]; other site 1380908008395 ATP binding site [chemical binding]; other site 1380908008396 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 1380908008397 intersubunit interface [polypeptide binding]; other site 1380908008398 active site 1380908008399 zinc binding site [ion binding]; other site 1380908008400 Na+ binding site [ion binding]; other site 1380908008401 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 1380908008402 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 1380908008403 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1380908008404 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 1380908008405 putative NAD(P) binding site [chemical binding]; other site 1380908008406 catalytic Zn binding site [ion binding]; other site 1380908008407 structural Zn binding site [ion binding]; other site 1380908008408 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 1380908008409 active site 1380908008410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 1380908008411 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1380908008412 SelR domain; Region: SelR; pfam01641 1380908008413 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1380908008414 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1380908008415 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1380908008416 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1380908008417 active site 1380908008418 phosphate binding residues; other site 1380908008419 catalytic residues [active] 1380908008420 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1380908008421 hypothetical protein; Provisional; Region: PRK05325 1380908008422 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 1380908008423 catalytic residues [active] 1380908008424 dimer interface [polypeptide binding]; other site 1380908008425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908008426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008427 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 1380908008428 dimerization interface [polypeptide binding]; other site 1380908008429 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908008430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008431 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1380908008432 putative effector binding pocket; other site 1380908008433 putative dimerization interface [polypeptide binding]; other site 1380908008434 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1380908008435 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 1380908008436 Catalytic site [active] 1380908008437 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1380908008438 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1380908008439 putative active site [active] 1380908008440 putative NTP binding site [chemical binding]; other site 1380908008441 putative nucleic acid binding site [nucleotide binding]; other site 1380908008442 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1380908008443 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 1380908008444 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1380908008445 putative deacylase active site [active] 1380908008446 Predicted membrane protein [Function unknown]; Region: COG2707 1380908008447 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1380908008448 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1380908008449 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 1380908008450 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1380908008451 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1380908008452 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1380908008453 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1380908008454 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1380908008455 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1380908008456 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908008457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908008458 metal binding site [ion binding]; metal-binding site 1380908008459 active site 1380908008460 I-site; other site 1380908008461 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 1380908008462 leucine export protein LeuE; Provisional; Region: PRK10958 1380908008463 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1380908008464 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1380908008465 putative acyl-acceptor binding pocket; other site 1380908008466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908008467 Zn2+ binding site [ion binding]; other site 1380908008468 Mg2+ binding site [ion binding]; other site 1380908008469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908008470 Zn2+ binding site [ion binding]; other site 1380908008471 Mg2+ binding site [ion binding]; other site 1380908008472 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 1380908008473 dimerization interface [polypeptide binding]; other site 1380908008474 GAF domain; Region: GAF_3; pfam13492 1380908008475 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908008476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908008477 metal binding site [ion binding]; metal-binding site 1380908008478 active site 1380908008479 I-site; other site 1380908008480 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1380908008481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008482 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 1380908008483 dimerization interface [polypeptide binding]; other site 1380908008484 substrate binding pocket [chemical binding]; other site 1380908008485 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 1380908008486 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 1380908008487 Helix-turn-helix domain; Region: HTH_39; pfam14090 1380908008488 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1380908008489 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1380908008490 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1380908008491 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1380908008492 dimanganese center [ion binding]; other site 1380908008493 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1380908008494 dinuclear metal binding motif [ion binding]; other site 1380908008495 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1380908008496 dimerization interface [polypeptide binding]; other site 1380908008497 metal binding site [ion binding]; metal-binding site 1380908008498 General stress protein [General function prediction only]; Region: GsiB; COG3729 1380908008499 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1380908008500 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1380908008501 NAD binding site [chemical binding]; other site 1380908008502 catalytic Zn binding site [ion binding]; other site 1380908008503 structural Zn binding site [ion binding]; other site 1380908008504 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1380908008505 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 1380908008506 dimerization interface [polypeptide binding]; other site 1380908008507 putative DNA binding site [nucleotide binding]; other site 1380908008508 putative Zn2+ binding site [ion binding]; other site 1380908008509 isocitrate dehydrogenase; Validated; Region: PRK07362 1380908008510 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1380908008511 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1380908008512 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1380908008513 probable active site [active] 1380908008514 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 1380908008515 nudix motif; other site 1380908008516 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 1380908008517 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1380908008518 putative lysogenization regulator; Reviewed; Region: PRK00218 1380908008519 adenylosuccinate lyase; Provisional; Region: PRK09285 1380908008520 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1380908008521 tetramer interface [polypeptide binding]; other site 1380908008522 active site 1380908008523 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1380908008524 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908008525 Helix-turn-helix domain; Region: HTH_18; pfam12833 1380908008526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908008527 sensor protein PhoQ; Provisional; Region: PRK10815 1380908008528 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 1380908008529 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1380908008530 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 1380908008531 ATP binding site [chemical binding]; other site 1380908008532 Mg2+ binding site [ion binding]; other site 1380908008533 G-X-G motif; other site 1380908008534 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1380908008535 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1380908008536 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1380908008537 Walker A/P-loop; other site 1380908008538 ATP binding site [chemical binding]; other site 1380908008539 Q-loop/lid; other site 1380908008540 ABC transporter signature motif; other site 1380908008541 Walker B; other site 1380908008542 D-loop; other site 1380908008543 H-loop/switch region; other site 1380908008544 TOBE domain; Region: TOBE_2; pfam08402 1380908008545 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1380908008546 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 1380908008547 dimer interface [polypeptide binding]; other site 1380908008548 conserved gate region; other site 1380908008549 putative PBP binding loops; other site 1380908008550 ABC-ATPase subunit interface; other site 1380908008551 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1380908008552 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 1380908008553 dimer interface [polypeptide binding]; other site 1380908008554 conserved gate region; other site 1380908008555 putative PBP binding loops; other site 1380908008556 ABC-ATPase subunit interface; other site 1380908008557 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1380908008558 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1380908008559 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1380908008560 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1380908008561 NAD(P) binding site [chemical binding]; other site 1380908008562 catalytic residues [active] 1380908008563 NAD-dependent deacetylase; Provisional; Region: PRK00481 1380908008564 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1380908008565 NAD+ binding site [chemical binding]; other site 1380908008566 substrate binding site [chemical binding]; other site 1380908008567 Zn binding site [ion binding]; other site 1380908008568 fructokinase; Reviewed; Region: PRK09557 1380908008569 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908008570 nucleotide binding site [chemical binding]; other site 1380908008571 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1380908008572 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1380908008573 FtsX-like permease family; Region: FtsX; pfam02687 1380908008574 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 1380908008575 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1380908008576 Walker A/P-loop; other site 1380908008577 ATP binding site [chemical binding]; other site 1380908008578 Q-loop/lid; other site 1380908008579 ABC transporter signature motif; other site 1380908008580 Walker B; other site 1380908008581 D-loop; other site 1380908008582 H-loop/switch region; other site 1380908008583 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1380908008584 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1380908008585 FtsX-like permease family; Region: FtsX; pfam02687 1380908008586 L,D-transpeptidase; Provisional; Region: PRK10190 1380908008587 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1380908008588 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1380908008589 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908008590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908008591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908008592 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1380908008593 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 1380908008594 N-terminal plug; other site 1380908008595 ligand-binding site [chemical binding]; other site 1380908008596 hypothetical protein; Provisional; Region: PRK11280 1380908008597 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1380908008598 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908008599 hypothetical protein; Provisional; Region: PRK04940 1380908008600 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1380908008601 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1380908008602 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1380908008603 putative dimer interface [polypeptide binding]; other site 1380908008604 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 1380908008605 nucleotide binding site/active site [active] 1380908008606 HIT family signature motif; other site 1380908008607 catalytic residue [active] 1380908008608 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 1380908008609 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1380908008610 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908008611 active site turn [active] 1380908008612 phosphorylation site [posttranslational modification] 1380908008613 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1380908008614 active site 1380908008615 DNA polymerase III subunit delta'; Validated; Region: PRK07993 1380908008616 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1380908008617 thymidylate kinase; Validated; Region: tmk; PRK00698 1380908008618 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 1380908008619 TMP-binding site; other site 1380908008620 ATP-binding site [chemical binding]; other site 1380908008621 conserved hypothetical protein, YceG family; Region: TIGR00247 1380908008622 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1380908008623 dimerization interface [polypeptide binding]; other site 1380908008624 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1380908008625 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 1380908008626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908008627 catalytic residue [active] 1380908008628 acyl carrier protein; Provisional; Region: acpP; PRK00982 1380908008629 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1380908008630 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1380908008631 NAD(P) binding site [chemical binding]; other site 1380908008632 homotetramer interface [polypeptide binding]; other site 1380908008633 homodimer interface [polypeptide binding]; other site 1380908008634 active site 1380908008635 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1380908008636 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 1380908008637 dimer interface [polypeptide binding]; other site 1380908008638 active site 1380908008639 CoA binding pocket [chemical binding]; other site 1380908008640 putative phosphate acyltransferase; Provisional; Region: PRK05331 1380908008641 hypothetical protein; Provisional; Region: PRK11193 1380908008642 Maf-like protein; Region: Maf; pfam02545 1380908008643 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 1380908008644 active site 1380908008645 dimer interface [polypeptide binding]; other site 1380908008646 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1380908008647 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 1380908008648 RNA binding surface [nucleotide binding]; other site 1380908008649 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1380908008650 active site 1380908008651 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1380908008652 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 1380908008653 homodimer interface [polypeptide binding]; other site 1380908008654 oligonucleotide binding site [chemical binding]; other site 1380908008655 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1380908008656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908008657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008658 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 1380908008659 putative effector binding pocket; other site 1380908008660 dimerization interface [polypeptide binding]; other site 1380908008661 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1380908008662 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 1380908008663 putative substrate translocation pore; other site 1380908008664 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1380908008665 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1380908008666 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908008667 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908008668 hypothetical protein; Provisional; Region: PRK11239 1380908008669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 1380908008670 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 1380908008671 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1380908008672 multidrug resistance protein MdtH; Provisional; Region: PRK11646 1380908008673 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 1380908008674 putative substrate translocation pore; other site 1380908008675 lipoprotein; Provisional; Region: PRK10598 1380908008676 DNA damage-inducible protein I; Provisional; Region: PRK10597 1380908008677 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 1380908008678 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1380908008679 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1380908008680 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1380908008681 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1380908008682 putative acyl-acceptor binding pocket; other site 1380908008683 drug efflux system protein MdtG; Provisional; Region: PRK09874 1380908008684 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 1380908008685 putative substrate translocation pore; other site 1380908008686 secY/secA suppressor protein; Provisional; Region: PRK11467 1380908008687 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1380908008688 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1380908008689 Ligand binding site; other site 1380908008690 DXD motif; other site 1380908008691 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1380908008692 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1380908008693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1380908008694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908008695 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 1380908008696 putative ADP-ribose binding site [chemical binding]; other site 1380908008697 putative active site [active] 1380908008698 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1380908008699 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1380908008700 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1380908008701 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1380908008702 putative ligand binding site [chemical binding]; other site 1380908008703 NAD binding site [chemical binding]; other site 1380908008704 dimerization interface [polypeptide binding]; other site 1380908008705 catalytic site [active] 1380908008706 LysR family transcriptional regulator; Provisional; Region: PRK14997 1380908008707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008708 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 1380908008709 putative effector binding pocket; other site 1380908008710 putative dimerization interface [polypeptide binding]; other site 1380908008711 Pirin-related protein [General function prediction only]; Region: COG1741 1380908008712 Pirin; Region: Pirin; pfam02678 1380908008713 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1380908008714 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 1380908008715 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1380908008716 catalytic residues [active] 1380908008717 hinge region; other site 1380908008718 alpha helical domain; other site 1380908008719 hypothetical protein; Provisional; Region: PRK10536 1380908008720 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1380908008721 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1380908008722 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1380908008723 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 1380908008724 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1380908008725 Imelysin; Region: Peptidase_M75; pfam09375 1380908008726 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1380908008727 Nucleoside recognition; Region: Gate; pfam07670 1380908008728 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1380908008729 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1380908008730 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1380908008731 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1380908008732 Na binding site [ion binding]; other site 1380908008733 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1380908008734 Predicted transcriptional regulator [Transcription]; Region: COG3905 1380908008735 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1380908008736 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1380908008737 Glutamate binding site [chemical binding]; other site 1380908008738 NAD binding site [chemical binding]; other site 1380908008739 catalytic residues [active] 1380908008740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1380908008741 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 1380908008742 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908008743 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1380908008744 pyrimidine utilization protein A; Region: RutA; TIGR03612 1380908008745 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1380908008746 active site 1380908008747 dimer interface [polypeptide binding]; other site 1380908008748 non-prolyl cis peptide bond; other site 1380908008749 insertion regions; other site 1380908008750 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1380908008751 Isochorismatase family; Region: Isochorismatase; pfam00857 1380908008752 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1380908008753 catalytic triad [active] 1380908008754 conserved cis-peptide bond; other site 1380908008755 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1380908008756 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 1380908008757 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1380908008758 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1380908008759 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1380908008760 hypothetical protein; Provisional; Region: PRK10174 1380908008761 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1380908008762 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1380908008763 catalytic core [active] 1380908008764 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1380908008765 Predicted transcriptional regulators [Transcription]; Region: COG1733 1380908008766 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1380908008767 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1380908008768 classical (c) SDRs; Region: SDR_c; cd05233 1380908008769 NAD(P) binding site [chemical binding]; other site 1380908008770 active site 1380908008771 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1380908008772 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1380908008773 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1380908008774 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1380908008775 catalytic triad [active] 1380908008776 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1380908008777 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 1380908008778 non-specific DNA binding site [nucleotide binding]; other site 1380908008779 salt bridge; other site 1380908008780 sequence-specific DNA binding site [nucleotide binding]; other site 1380908008781 Cupin domain; Region: Cupin_2; pfam07883 1380908008782 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1380908008783 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1380908008784 NAD(P) binding site [chemical binding]; other site 1380908008785 catalytic residues [active] 1380908008786 transcriptional activator TtdR; Provisional; Region: PRK09801 1380908008787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908008788 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 1380908008789 putative effector binding pocket; other site 1380908008790 putative dimerization interface [polypeptide binding]; other site 1380908008791 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1380908008792 tartrate dehydrogenase; Region: TTC; TIGR02089 1380908008793 putative transporter; Provisional; Region: PRK09950 1380908008794 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1380908008795 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 1380908008796 [2Fe-2S] cluster binding site [ion binding]; other site 1380908008797 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 1380908008798 putative alpha subunit interface [polypeptide binding]; other site 1380908008799 putative active site [active] 1380908008800 putative substrate binding site [chemical binding]; other site 1380908008801 Fe binding site [ion binding]; other site 1380908008802 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1380908008803 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1380908008804 FMN-binding pocket [chemical binding]; other site 1380908008805 flavin binding motif; other site 1380908008806 phosphate binding motif [ion binding]; other site 1380908008807 beta-alpha-beta structure motif; other site 1380908008808 NAD binding pocket [chemical binding]; other site 1380908008809 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 1380908008810 catalytic loop [active] 1380908008811 iron binding site [ion binding]; other site 1380908008812 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 1380908008813 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1380908008814 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1380908008815 peptide binding site [polypeptide binding]; other site 1380908008816 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1380908008817 YccA-like proteins; Region: YccA_like; cd10433 1380908008818 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1380908008819 sulfur transfer protein TusE; Provisional; Region: PRK11508 1380908008820 acylphosphatase; Provisional; Region: PRK14426 1380908008821 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908008822 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908008823 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1380908008824 substrate binding site [chemical binding]; other site 1380908008825 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1380908008826 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1380908008827 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1380908008828 putative RNA binding site [nucleotide binding]; other site 1380908008829 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 1380908008830 S-adenosylmethionine binding site [chemical binding]; other site 1380908008831 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1380908008832 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1380908008833 active site 1380908008834 dimer interfaces [polypeptide binding]; other site 1380908008835 catalytic residues [active] 1380908008836 DNA helicase IV; Provisional; Region: helD; PRK11054 1380908008837 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1380908008838 Part of AAA domain; Region: AAA_19; pfam13245 1380908008839 Family description; Region: UvrD_C_2; pfam13538 1380908008840 Predicted membrane protein [Function unknown]; Region: COG3304 1380908008841 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1380908008842 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1380908008843 TIGR01666 family membrane protein; Region: YCCS 1380908008844 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1380908008845 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1380908008846 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1380908008847 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1380908008848 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1380908008849 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1380908008850 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1380908008851 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1380908008852 active site 1 [active] 1380908008853 dimer interface [polypeptide binding]; other site 1380908008854 active site 2 [active] 1380908008855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1380908008856 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1380908008857 paraquat-inducible protein B; Provisional; Region: PRK10807 1380908008858 mce related protein; Region: MCE; pfam02470 1380908008859 mce related protein; Region: MCE; pfam02470 1380908008860 mce related protein; Region: MCE; pfam02470 1380908008861 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 1380908008862 Paraquat-inducible protein A; Region: PqiA; pfam04403 1380908008863 Paraquat-inducible protein A; Region: PqiA; pfam04403 1380908008864 ABC transporter ATPase component; Reviewed; Region: PRK11147 1380908008865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908008866 Walker A/P-loop; other site 1380908008867 ATP binding site [chemical binding]; other site 1380908008868 Q-loop/lid; other site 1380908008869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908008870 ABC transporter; Region: ABC_tran_2; pfam12848 1380908008871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908008872 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1380908008873 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1380908008874 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 1380908008875 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 1380908008876 S-adenosylmethionine binding site [chemical binding]; other site 1380908008877 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1380908008878 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1380908008879 MOSC domain; Region: MOSC; pfam03473 1380908008880 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1380908008881 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 1380908008882 catalytic loop [active] 1380908008883 iron binding site [ion binding]; other site 1380908008884 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1380908008885 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1380908008886 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 1380908008887 quinone interaction residues [chemical binding]; other site 1380908008888 active site 1380908008889 catalytic residues [active] 1380908008890 FMN binding site [chemical binding]; other site 1380908008891 substrate binding site [chemical binding]; other site 1380908008892 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1380908008893 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1380908008894 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1380908008895 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 1380908008896 substrate binding pocket [chemical binding]; other site 1380908008897 membrane-bound complex binding site; other site 1380908008898 hinge residues; other site 1380908008899 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1380908008900 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1380908008901 active site 1380908008902 dimer interface [polypeptide binding]; other site 1380908008903 non-prolyl cis peptide bond; other site 1380908008904 insertion regions; other site 1380908008905 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1380908008906 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1380908008907 Walker A/P-loop; other site 1380908008908 ATP binding site [chemical binding]; other site 1380908008909 Q-loop/lid; other site 1380908008910 ABC transporter signature motif; other site 1380908008911 Walker B; other site 1380908008912 D-loop; other site 1380908008913 H-loop/switch region; other site 1380908008914 aminopeptidase N; Provisional; Region: pepN; PRK14015 1380908008915 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1380908008916 active site 1380908008917 Zn binding site [ion binding]; other site 1380908008918 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1380908008919 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1380908008920 active site 1380908008921 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1380908008922 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1380908008923 metal binding site [ion binding]; metal-binding site 1380908008924 putative dimer interface [polypeptide binding]; other site 1380908008925 allantoate amidohydrolase; Reviewed; Region: PRK12893 1380908008926 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1380908008927 active site 1380908008928 metal binding site [ion binding]; metal-binding site 1380908008929 dimer interface [polypeptide binding]; other site 1380908008930 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1380908008931 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1380908008932 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1380908008933 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; cd00640 1380908008934 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908008935 catalytic residue [active] 1380908008936 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1380908008937 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1380908008938 putative anticodon binding site; other site 1380908008939 putative dimer interface [polypeptide binding]; other site 1380908008940 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1380908008941 homodimer interface [polypeptide binding]; other site 1380908008942 motif 1; other site 1380908008943 motif 2; other site 1380908008944 active site 1380908008945 motif 3; other site 1380908008946 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1380908008947 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 1380908008948 eyelet of channel; other site 1380908008949 trimer interface [polypeptide binding]; other site 1380908008950 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1380908008951 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 1380908008952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908008953 homodimer interface [polypeptide binding]; other site 1380908008954 catalytic residue [active] 1380908008955 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1380908008956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1380908008957 Peptidase M15; Region: Peptidase_M15_3; cl01194 1380908008958 murein L,D-transpeptidase; Provisional; Region: PRK10594 1380908008959 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1380908008960 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1380908008961 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1380908008962 cell division protein MukB; Provisional; Region: mukB; PRK04863 1380908008963 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1380908008964 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1380908008965 condesin subunit F; Provisional; Region: PRK05260 1380908008966 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1380908008967 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 1380908008968 S-adenosylmethionine binding site [chemical binding]; other site 1380908008969 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1380908008970 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 1380908008971 putative active site [active] 1380908008972 hypothetical protein; Provisional; Region: PRK10593 1380908008973 Phosphotransferase enzyme family; Region: APH; pfam01636 1380908008974 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1380908008975 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1380908008976 Ligand binding site; other site 1380908008977 oligomer interface; other site 1380908008978 Trm112p-like protein; Region: Trm112p; cl01066 1380908008979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1380908008980 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1380908008981 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1380908008982 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1380908008983 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1380908008984 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1380908008985 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1380908008986 Walker A/P-loop; other site 1380908008987 ATP binding site [chemical binding]; other site 1380908008988 Q-loop/lid; other site 1380908008989 ABC transporter signature motif; other site 1380908008990 Walker B; other site 1380908008991 D-loop; other site 1380908008992 H-loop/switch region; other site 1380908008993 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 1380908008994 IHF dimer interface [polypeptide binding]; other site 1380908008995 IHF - DNA interface [nucleotide binding]; other site 1380908008996 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1380908008997 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 1380908008998 RNA binding site [nucleotide binding]; other site 1380908008999 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 1380908009000 RNA binding site [nucleotide binding]; other site 1380908009001 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 1380908009002 RNA binding site [nucleotide binding]; other site 1380908009003 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 1380908009004 RNA binding site [nucleotide binding]; other site 1380908009005 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 1380908009006 RNA binding site [nucleotide binding]; other site 1380908009007 cytidylate kinase; Provisional; Region: cmk; PRK00023 1380908009008 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 1380908009009 CMP-binding site; other site 1380908009010 The sites determining sugar specificity; other site 1380908009011 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1380908009012 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 1380908009013 hinge; other site 1380908009014 active site 1380908009015 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 1380908009016 homodimer interface [polypeptide binding]; other site 1380908009017 substrate-cofactor binding pocket; other site 1380908009018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908009019 catalytic residue [active] 1380908009020 Predicted membrane protein [Function unknown]; Region: COG2323 1380908009021 uncharacterized domain; Region: TIGR00702 1380908009022 YcaO-like family; Region: YcaO; pfam02624 1380908009023 formate transporter; Provisional; Region: PRK10805 1380908009024 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1380908009025 Pyruvate formate lyase 1; Region: PFL1; cd01678 1380908009026 coenzyme A binding site [chemical binding]; other site 1380908009027 active site 1380908009028 catalytic residues [active] 1380908009029 glycine loop; other site 1380908009030 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1380908009031 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 1380908009032 FeS/SAM binding site; other site 1380908009033 putative MFS family transporter protein; Provisional; Region: PRK03633 1380908009034 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 1380908009035 putative substrate translocation pore; other site 1380908009036 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1380908009037 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1380908009038 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1380908009039 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 1380908009040 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1380908009041 putative [Fe4-S4] binding site [ion binding]; other site 1380908009042 putative molybdopterin cofactor binding site [chemical binding]; other site 1380908009043 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1380908009044 putative molybdopterin cofactor binding site; other site 1380908009045 seryl-tRNA synthetase; Provisional; Region: PRK05431 1380908009046 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1380908009047 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 1380908009048 dimer interface [polypeptide binding]; other site 1380908009049 active site 1380908009050 motif 1; other site 1380908009051 motif 2; other site 1380908009052 motif 3; other site 1380908009053 recombination factor protein RarA; Reviewed; Region: PRK13342 1380908009054 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 1380908009055 Walker A motif; other site 1380908009056 ATP binding site [chemical binding]; other site 1380908009057 Walker B motif; other site 1380908009058 arginine finger; other site 1380908009059 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1380908009060 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1380908009061 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 1380908009062 putative DNA binding site [nucleotide binding]; other site 1380908009063 putative Zn2+ binding site [ion binding]; other site 1380908009064 AsnC family; Region: AsnC_trans_reg; pfam01037 1380908009065 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1380908009066 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1380908009067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009068 Walker A/P-loop; other site 1380908009069 ATP binding site [chemical binding]; other site 1380908009070 Q-loop/lid; other site 1380908009071 ABC transporter signature motif; other site 1380908009072 Walker B; other site 1380908009073 D-loop; other site 1380908009074 H-loop/switch region; other site 1380908009075 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1380908009076 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009077 Walker A/P-loop; other site 1380908009078 ATP binding site [chemical binding]; other site 1380908009079 Q-loop/lid; other site 1380908009080 ABC transporter signature motif; other site 1380908009081 Walker B; other site 1380908009082 D-loop; other site 1380908009083 H-loop/switch region; other site 1380908009084 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 1380908009085 rRNA binding site [nucleotide binding]; other site 1380908009086 predicted 30S ribosome binding site; other site 1380908009087 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1380908009088 Clp amino terminal domain; Region: Clp_N; pfam02861 1380908009089 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 1380908009090 Walker A motif; other site 1380908009091 ATP binding site [chemical binding]; other site 1380908009092 Walker B motif; other site 1380908009093 arginine finger; other site 1380908009094 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 1380908009095 Walker A motif; other site 1380908009096 ATP binding site [chemical binding]; other site 1380908009097 Walker B motif; other site 1380908009098 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1380908009099 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1380908009100 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 1380908009101 DNA-binding site [nucleotide binding]; DNA binding site 1380908009102 RNA-binding motif; other site 1380908009103 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1380908009104 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1380908009105 Walker A/P-loop; other site 1380908009106 ATP binding site [chemical binding]; other site 1380908009107 Q-loop/lid; other site 1380908009108 ABC transporter signature motif; other site 1380908009109 Walker B; other site 1380908009110 D-loop; other site 1380908009111 H-loop/switch region; other site 1380908009112 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1380908009113 FtsX-like permease family; Region: FtsX; pfam02687 1380908009114 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1380908009115 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908009116 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908009117 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1380908009118 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1380908009119 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1380908009120 putative active site [active] 1380908009121 putative metal-binding site [ion binding]; other site 1380908009122 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1380908009123 amphipathic channel; other site 1380908009124 Asn-Pro-Ala signature motifs; other site 1380908009125 hybrid cluster protein; Provisional; Region: PRK05290 1380908009126 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 1380908009127 ACS interaction site; other site 1380908009128 CODH interaction site; other site 1380908009129 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1380908009130 hybrid metal cluster; other site 1380908009131 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 1380908009132 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 1380908009133 FAD binding pocket [chemical binding]; other site 1380908009134 FAD binding motif [chemical binding]; other site 1380908009135 phosphate binding motif [ion binding]; other site 1380908009136 beta-alpha-beta structure motif; other site 1380908009137 NAD binding pocket [chemical binding]; other site 1380908009138 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 1380908009139 catalytic loop [active] 1380908009140 iron binding site [ion binding]; other site 1380908009141 pyruvate dehydrogenase; Provisional; Region: PRK09124 1380908009142 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1380908009143 PYR/PP interface [polypeptide binding]; other site 1380908009144 dimer interface [polypeptide binding]; other site 1380908009145 tetramer interface [polypeptide binding]; other site 1380908009146 TPP binding site [chemical binding]; other site 1380908009147 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908009148 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1380908009149 TPP-binding site [chemical binding]; other site 1380908009150 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1380908009151 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 1380908009152 tetramer interface [polypeptide binding]; other site 1380908009153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908009154 catalytic residue [active] 1380908009155 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 1380908009156 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1380908009157 putative NAD(P) binding site [chemical binding]; other site 1380908009158 putative active site [active] 1380908009159 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1380908009160 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1380908009161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908009162 NAD(P) binding site [chemical binding]; other site 1380908009163 active site 1380908009164 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1380908009165 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 1380908009166 amidase catalytic site [active] 1380908009167 Zn binding residues [ion binding]; other site 1380908009168 substrate binding site [chemical binding]; other site 1380908009169 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908009170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908009171 metal binding site [ion binding]; metal-binding site 1380908009172 active site 1380908009173 I-site; other site 1380908009174 putative lipoprotein; Provisional; Region: PRK10533 1380908009175 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1380908009176 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009177 Walker A/P-loop; other site 1380908009178 ATP binding site [chemical binding]; other site 1380908009179 Q-loop/lid; other site 1380908009180 ABC transporter signature motif; other site 1380908009181 Walker B; other site 1380908009182 D-loop; other site 1380908009183 H-loop/switch region; other site 1380908009184 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1380908009185 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 1380908009186 substrate binding pocket [chemical binding]; other site 1380908009187 membrane-bound complex binding site; other site 1380908009188 hinge residues; other site 1380908009189 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908009190 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 1380908009191 dimer interface [polypeptide binding]; other site 1380908009192 conserved gate region; other site 1380908009193 putative PBP binding loops; other site 1380908009194 ABC-ATPase subunit interface; other site 1380908009195 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 1380908009196 dimer interface [polypeptide binding]; other site 1380908009197 conserved gate region; other site 1380908009198 putative PBP binding loops; other site 1380908009199 ABC-ATPase subunit interface; other site 1380908009200 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1380908009201 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 1380908009202 substrate binding pocket [chemical binding]; other site 1380908009203 membrane-bound complex binding site; other site 1380908009204 hinge residues; other site 1380908009205 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1380908009206 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 1380908009207 dimer interface [polypeptide binding]; other site 1380908009208 phosphorylation site [posttranslational modification] 1380908009209 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 1380908009210 ATP binding site [chemical binding]; other site 1380908009211 Mg2+ binding site [ion binding]; other site 1380908009212 G-X-G motif; other site 1380908009213 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1380908009214 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 1380908009215 active site 1380908009216 phosphorylation site [posttranslational modification] 1380908009217 intermolecular recognition site; other site 1380908009218 dimerization interface [polypeptide binding]; other site 1380908009219 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 1380908009220 DNA binding site [nucleotide binding] 1380908009221 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 1380908009222 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 1380908009223 S-adenosylmethionine binding site [chemical binding]; other site 1380908009224 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 1380908009225 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1380908009226 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 1380908009227 dimer interface [polypeptide binding]; other site 1380908009228 conserved gate region; other site 1380908009229 putative PBP binding loops; other site 1380908009230 ABC-ATPase subunit interface; other site 1380908009231 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1380908009232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009233 Walker A/P-loop; other site 1380908009234 ATP binding site [chemical binding]; other site 1380908009235 Q-loop/lid; other site 1380908009236 ABC transporter signature motif; other site 1380908009237 Walker B; other site 1380908009238 D-loop; other site 1380908009239 H-loop/switch region; other site 1380908009240 TOBE domain; Region: TOBE_2; pfam08402 1380908009241 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1380908009242 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1380908009243 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1380908009244 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1380908009245 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1380908009246 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1380908009247 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1380908009248 FMN binding site [chemical binding]; other site 1380908009249 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1380908009250 GSH binding site [chemical binding]; other site 1380908009251 catalytic residues [active] 1380908009252 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 1380908009253 putative transporter; Provisional; Region: PRK04972 1380908009254 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1380908009255 TrkA-C domain; Region: TrkA_C; pfam02080 1380908009256 TrkA-C domain; Region: TrkA_C; pfam02080 1380908009257 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1380908009258 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1380908009259 tail protein; Provisional; Region: D; PHA02561 1380908009260 Phage protein U [General function prediction only]; Region: COG3499 1380908009261 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1380908009262 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1380908009263 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1380908009264 major tail tube protein; Provisional; Region: FII; PHA02600 1380908009265 major tail sheath protein; Provisional; Region: FI; PHA02560 1380908009266 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1380908009267 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1380908009268 Baseplate J-like protein; Region: Baseplate_J; cl01294 1380908009269 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1380908009270 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1380908009271 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1380908009272 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1380908009273 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1380908009274 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1380908009275 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1380908009276 catalytic residues [active] 1380908009277 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 1380908009278 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1380908009279 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1380908009280 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1380908009281 capsid protein; Provisional; Region: N; PHA02538 1380908009282 portal vertex protein; Provisional; Region: Q; PHA02536 1380908009283 Phage portal protein; Region: Phage_portal; pfam04860 1380908009284 AIPR protein; Region: AIPR; pfam10592 1380908009285 DinI-like family; Region: DinI; pfam06183 1380908009286 DNA adenine methylase (dam); Region: dam; TIGR00571 1380908009287 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 1380908009288 Protein of unknown function (DUF2724); Region: DUF2724; pfam10893 1380908009289 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 1380908009290 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 1380908009291 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 1380908009292 Protein of unknown function (DUF2630); Region: DUF2630; pfam10944 1380908009293 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1380908009294 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1380908009295 putative active site [active] 1380908009296 putative NTP binding site [chemical binding]; other site 1380908009297 putative nucleic acid binding site [nucleotide binding]; other site 1380908009298 integrase; Provisional; Region: int; PHA02601 1380908009299 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 1380908009300 active site 1380908009301 DNA binding site [nucleotide binding] 1380908009302 Int/Topo IB signature motif; other site 1380908009303 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1380908009304 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908009305 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1380908009306 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 1380908009307 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908009308 putative substrate translocation pore; other site 1380908009309 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1380908009310 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 1380908009311 active site 1380908009312 motif I; other site 1380908009313 motif II; other site 1380908009314 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 1380908009315 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1380908009316 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1380908009317 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 1380908009318 putative substrate translocation pore; other site 1380908009319 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 1380908009320 active site 1380908009321 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1380908009322 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1380908009323 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908009324 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 1380908009325 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1380908009326 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1380908009327 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1380908009328 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 1380908009329 putative C-terminal domain interface [polypeptide binding]; other site 1380908009330 putative GSH binding site (G-site) [chemical binding]; other site 1380908009331 putative dimer interface [polypeptide binding]; other site 1380908009332 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1380908009333 putative N-terminal domain interface [polypeptide binding]; other site 1380908009334 putative dimer interface [polypeptide binding]; other site 1380908009335 putative substrate binding pocket (H-site) [chemical binding]; other site 1380908009336 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1380908009337 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1380908009338 galactoside permease; Reviewed; Region: lacY; PRK09528 1380908009339 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 1380908009340 putative substrate translocation pore; other site 1380908009341 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1380908009342 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1380908009343 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 1380908009344 FeS/SAM binding site; other site 1380908009345 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1380908009346 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1380908009347 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 1380908009348 dimer interface [polypeptide binding]; other site 1380908009349 conserved gate region; other site 1380908009350 putative PBP binding loops; other site 1380908009351 ABC-ATPase subunit interface; other site 1380908009352 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1380908009353 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 1380908009354 dimer interface [polypeptide binding]; other site 1380908009355 conserved gate region; other site 1380908009356 putative PBP binding loops; other site 1380908009357 ABC-ATPase subunit interface; other site 1380908009358 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1380908009359 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1380908009360 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1380908009361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908009362 Walker A/P-loop; other site 1380908009363 ATP binding site [chemical binding]; other site 1380908009364 Q-loop/lid; other site 1380908009365 ABC transporter signature motif; other site 1380908009366 Walker B; other site 1380908009367 D-loop; other site 1380908009368 H-loop/switch region; other site 1380908009369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1380908009370 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1380908009371 Walker A/P-loop; other site 1380908009372 ATP binding site [chemical binding]; other site 1380908009373 Q-loop/lid; other site 1380908009374 ABC transporter signature motif; other site 1380908009375 Walker B; other site 1380908009376 D-loop; other site 1380908009377 H-loop/switch region; other site 1380908009378 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1380908009379 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 1380908009380 catalytic nucleophile [active] 1380908009381 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1380908009382 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 1380908009383 dimer interface [polypeptide binding]; other site 1380908009384 putative functional site; other site 1380908009385 putative MPT binding site; other site 1380908009386 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1380908009387 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 1380908009388 ATP binding site [chemical binding]; other site 1380908009389 substrate interface [chemical binding]; other site 1380908009390 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1380908009391 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 1380908009392 FeS/SAM binding site; other site 1380908009393 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1380908009394 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1380908009395 dimer interface [polypeptide binding]; other site 1380908009396 active site 1380908009397 glycine loop; other site 1380908009398 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1380908009399 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 1380908009400 active site 1380908009401 motif I; other site 1380908009402 motif II; other site 1380908009403 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 1380908009404 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 1380908009405 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908009406 DNA binding site [nucleotide binding] 1380908009407 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908009408 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1380908009409 ligand binding site [chemical binding]; other site 1380908009410 dimerization interface [polypeptide binding]; other site 1380908009411 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 1380908009412 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908009413 putative substrate translocation pore; other site 1380908009414 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1380908009415 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1380908009416 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 1380908009417 putative active site [active] 1380908009418 putative catalytic site [active] 1380908009419 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1380908009420 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908009421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009422 Walker A/P-loop; other site 1380908009423 ATP binding site [chemical binding]; other site 1380908009424 Q-loop/lid; other site 1380908009425 ABC transporter signature motif; other site 1380908009426 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908009427 Walker B; other site 1380908009428 D-loop; other site 1380908009429 ABC transporter; Region: ABC_tran_2; pfam12848 1380908009430 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908009431 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 1380908009432 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1380908009433 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1380908009434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908009435 DNA-binding site [nucleotide binding]; DNA binding site 1380908009436 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1380908009437 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1380908009438 beta-galactosidase; Region: BGL; TIGR03356 1380908009439 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1380908009440 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 1380908009441 transmembrane helices; other site 1380908009442 manganese transport regulator MntR; Provisional; Region: PRK11050 1380908009443 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1380908009444 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1380908009445 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1380908009446 Sulfatase; Region: Sulfatase; pfam00884 1380908009447 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1380908009448 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1380908009449 dimerization interface [polypeptide binding]; other site 1380908009450 DPS ferroxidase diiron center [ion binding]; other site 1380908009451 ion pore; other site 1380908009452 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1380908009453 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 1380908009454 substrate binding pocket [chemical binding]; other site 1380908009455 membrane-bound complex binding site; other site 1380908009456 hinge residues; other site 1380908009457 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908009458 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 1380908009459 dimer interface [polypeptide binding]; other site 1380908009460 conserved gate region; other site 1380908009461 putative PBP binding loops; other site 1380908009462 ABC-ATPase subunit interface; other site 1380908009463 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1380908009464 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908009465 Walker A/P-loop; other site 1380908009466 ATP binding site [chemical binding]; other site 1380908009467 Q-loop/lid; other site 1380908009468 ABC transporter signature motif; other site 1380908009469 Walker B; other site 1380908009470 D-loop; other site 1380908009471 H-loop/switch region; other site 1380908009472 putative mechanosensitive channel protein; Provisional; Region: PRK11465 1380908009473 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908009474 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1380908009475 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 1380908009476 S-adenosylmethionine binding site [chemical binding]; other site 1380908009477 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1380908009478 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1380908009479 hypothetical protein; Provisional; Region: PRK11019 1380908009480 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1380908009481 glycosyl transferase family protein; Provisional; Region: PRK08136 1380908009482 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1380908009483 helicase 45; Provisional; Region: PTZ00424 1380908009484 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 1380908009485 ATP binding site [chemical binding]; other site 1380908009486 Mg++ binding site [ion binding]; other site 1380908009487 motif III; other site 1380908009488 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 1380908009489 nucleotide binding region [chemical binding]; other site 1380908009490 ATP-binding site [chemical binding]; other site 1380908009491 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1380908009492 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 1380908009493 PYR/PP interface [polypeptide binding]; other site 1380908009494 dimer interface [polypeptide binding]; other site 1380908009495 TPP binding site [chemical binding]; other site 1380908009496 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1380908009497 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 1380908009498 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908009499 putative substrate translocation pore; other site 1380908009500 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 1380908009501 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1380908009502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908009503 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 1380908009504 dimerization interface [polypeptide binding]; other site 1380908009505 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1380908009506 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908009507 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1380908009508 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1380908009509 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908009510 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908009511 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1380908009512 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1380908009513 Walker A/P-loop; other site 1380908009514 ATP binding site [chemical binding]; other site 1380908009515 Q-loop/lid; other site 1380908009516 ABC transporter signature motif; other site 1380908009517 Walker B; other site 1380908009518 D-loop; other site 1380908009519 H-loop/switch region; other site 1380908009520 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1380908009521 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1380908009522 Walker A/P-loop; other site 1380908009523 ATP binding site [chemical binding]; other site 1380908009524 Q-loop/lid; other site 1380908009525 ABC transporter signature motif; other site 1380908009526 Walker B; other site 1380908009527 D-loop; other site 1380908009528 H-loop/switch region; other site 1380908009529 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1380908009530 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1380908009531 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1380908009532 putative catalytic site [active] 1380908009533 putative metal binding site [ion binding]; other site 1380908009534 putative phosphate binding site [ion binding]; other site 1380908009535 cardiolipin synthase 2; Provisional; Region: PRK11263 1380908009536 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1380908009537 putative active site [active] 1380908009538 catalytic site [active] 1380908009539 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1380908009540 putative active site [active] 1380908009541 catalytic site [active] 1380908009542 Predicted integral membrane protein [Function unknown]; Region: COG0392 1380908009543 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 1380908009544 MoaE homodimer interface [polypeptide binding]; other site 1380908009545 MoaD interaction [polypeptide binding]; other site 1380908009546 active site residues [active] 1380908009547 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1380908009548 MoaE interaction surface [polypeptide binding]; other site 1380908009549 MoeB interaction surface [polypeptide binding]; other site 1380908009550 thiocarboxylated glycine; other site 1380908009551 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 1380908009552 trimer interface [polypeptide binding]; other site 1380908009553 dimer interface [polypeptide binding]; other site 1380908009554 putative active site [active] 1380908009555 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 1380908009556 MPT binding site; other site 1380908009557 trimer interface [polypeptide binding]; other site 1380908009558 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1380908009559 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1380908009560 phosphate binding site [ion binding]; other site 1380908009561 putative substrate binding pocket [chemical binding]; other site 1380908009562 dimer interface [polypeptide binding]; other site 1380908009563 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1380908009564 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 1380908009565 active site 1380908009566 phosphorylation site [posttranslational modification] 1380908009567 intermolecular recognition site; other site 1380908009568 dimerization interface [polypeptide binding]; other site 1380908009569 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 1380908009570 DNA binding site [nucleotide binding] 1380908009571 sensor protein BasS/PmrB; Provisional; Region: PRK10755 1380908009572 HAMP domain; Region: HAMP; pfam00672 1380908009573 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 1380908009574 dimer interface [polypeptide binding]; other site 1380908009575 phosphorylation site [posttranslational modification] 1380908009576 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 1380908009577 ATP binding site [chemical binding]; other site 1380908009578 Mg2+ binding site [ion binding]; other site 1380908009579 G-X-G motif; other site 1380908009580 excinuclease ABC subunit B; Provisional; Region: PRK05298 1380908009581 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 1380908009582 ATP binding site [chemical binding]; other site 1380908009583 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 1380908009584 nucleotide binding region [chemical binding]; other site 1380908009585 ATP-binding site [chemical binding]; other site 1380908009586 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1380908009587 UvrB/uvrC motif; Region: UVR; pfam02151 1380908009588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009589 ATP binding site [chemical binding]; other site 1380908009590 Walker A/P-loop; other site 1380908009591 ABC transporter; Region: ABC_tran; pfam00005 1380908009592 Q-loop/lid; other site 1380908009593 ABC transporter signature motif; other site 1380908009594 Walker B; other site 1380908009595 D-loop; other site 1380908009596 H-loop/switch region; other site 1380908009597 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1380908009598 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1380908009599 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908009600 catalytic residue [active] 1380908009601 biotin synthase; Provisional; Region: PRK15108 1380908009602 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 1380908009603 FeS/SAM binding site; other site 1380908009604 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1380908009605 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1380908009606 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 1380908009607 inhibitor-cofactor binding pocket; inhibition site 1380908009608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908009609 catalytic residue [active] 1380908009610 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1380908009611 substrate binding site [chemical binding]; other site 1380908009612 putative proline-specific permease; Provisional; Region: proY; PRK10580 1380908009613 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1380908009614 active sites [active] 1380908009615 tetramer interface [polypeptide binding]; other site 1380908009616 urocanate hydratase; Provisional; Region: PRK05414 1380908009617 histidine utilization repressor; Provisional; Region: PRK14999 1380908009618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908009619 DNA-binding site [nucleotide binding]; DNA binding site 1380908009620 UTRA domain; Region: UTRA; pfam07702 1380908009621 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1380908009622 putative active site [active] 1380908009623 putative metal binding site [ion binding]; other site 1380908009624 imidazolonepropionase; Validated; Region: PRK09356 1380908009625 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 1380908009626 active site 1380908009627 acyl-CoA thioesterase; Provisional; Region: PRK10531 1380908009628 putative pectinesterase; Region: PLN02432; cl01911 1380908009629 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1380908009630 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1380908009631 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1380908009632 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 1380908009633 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1380908009634 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 1380908009635 DNA binding residues [nucleotide binding] 1380908009636 dimerization interface [polypeptide binding]; other site 1380908009637 transcriptional regulator MirA; Provisional; Region: PRK15043 1380908009638 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 1380908009639 DNA binding residues [nucleotide binding] 1380908009640 Sensors of blue-light using FAD; Region: BLUF; smart01034 1380908009641 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 1380908009642 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 1380908009643 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 1380908009644 6-phosphogluconolactonase; Provisional; Region: PRK11028 1380908009645 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1380908009646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009647 Walker A/P-loop; other site 1380908009648 ATP binding site [chemical binding]; other site 1380908009649 Q-loop/lid; other site 1380908009650 ABC transporter signature motif; other site 1380908009651 Walker B; other site 1380908009652 D-loop; other site 1380908009653 H-loop/switch region; other site 1380908009654 TOBE domain; Region: TOBE; cl01440 1380908009655 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1380908009656 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 1380908009657 putative PBP binding loops; other site 1380908009658 dimer interface [polypeptide binding]; other site 1380908009659 ABC-ATPase subunit interface; other site 1380908009660 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1380908009661 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 1380908009662 substrate binding pocket [chemical binding]; other site 1380908009663 membrane-bound complex binding site; other site 1380908009664 hinge residues; other site 1380908009665 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 1380908009666 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1380908009667 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1380908009668 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1380908009669 TOBE domain; Region: TOBE; pfam03459 1380908009670 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1380908009671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009672 Walker A/P-loop; other site 1380908009673 ATP binding site [chemical binding]; other site 1380908009674 Q-loop/lid; other site 1380908009675 ABC transporter signature motif; other site 1380908009676 Walker B; other site 1380908009677 D-loop; other site 1380908009678 H-loop/switch region; other site 1380908009679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908009680 Walker A/P-loop; other site 1380908009681 ATP binding site [chemical binding]; other site 1380908009682 Q-loop/lid; other site 1380908009683 ABC transporter signature motif; other site 1380908009684 Walker B; other site 1380908009685 D-loop; other site 1380908009686 H-loop/switch region; other site 1380908009687 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 1380908009688 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1380908009689 NAD binding site [chemical binding]; other site 1380908009690 homodimer interface [polypeptide binding]; other site 1380908009691 active site 1380908009692 substrate binding site [chemical binding]; other site 1380908009693 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1380908009694 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1380908009695 dimer interface [polypeptide binding]; other site 1380908009696 active site 1380908009697 galactokinase; Provisional; Region: PRK05101 1380908009698 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1380908009699 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1380908009700 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1380908009701 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1380908009702 active site 1380908009703 catalytic residues [active] 1380908009704 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 1380908009705 catalytic core [active] 1380908009706 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 1380908009707 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1380908009708 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1380908009709 YbgS-like protein; Region: YbgS; pfam13985 1380908009710 zinc transporter ZitB; Provisional; Region: PRK03557 1380908009711 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 1380908009712 quinolinate synthetase; Provisional; Region: PRK09375 1380908009713 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1380908009714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1380908009715 ligand binding site [chemical binding]; other site 1380908009716 translocation protein TolB; Provisional; Region: tolB; PRK03629 1380908009717 TolB amino-terminal domain; Region: TolB_N; pfam04052 1380908009718 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1380908009719 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1380908009720 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1380908009721 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1380908009722 TolA C-terminal; Region: TolA; pfam06519 1380908009723 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1380908009724 colicin uptake protein TolR; Provisional; Region: PRK11024 1380908009725 colicin uptake protein TolQ; Provisional; Region: PRK10801 1380908009726 hypothetical protein; Provisional; Region: PRK10588 1380908009727 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1380908009728 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 1380908009729 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1380908009730 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1380908009731 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1380908009732 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1380908009733 CoA binding domain; Region: CoA_binding; smart00881 1380908009734 CoA-ligase; Region: Ligase_CoA; pfam00549 1380908009735 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1380908009736 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1380908009737 CoA-ligase; Region: Ligase_CoA; pfam00549 1380908009738 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1380908009739 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 1380908009740 E3 interaction surface; other site 1380908009741 lipoyl attachment site [posttranslational modification]; other site 1380908009742 e3 binding domain; Region: E3_binding; pfam02817 1380908009743 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1380908009744 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1380908009745 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 1380908009746 TPP-binding site [chemical binding]; other site 1380908009747 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1380908009748 dimer interface [polypeptide binding]; other site 1380908009749 PYR/PP interface [polypeptide binding]; other site 1380908009750 TPP binding site [chemical binding]; other site 1380908009751 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1380908009752 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1380908009753 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1380908009754 L-aspartate oxidase; Provisional; Region: PRK06175 1380908009755 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1380908009756 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 1380908009757 SdhC subunit interface [polypeptide binding]; other site 1380908009758 proximal heme binding site [chemical binding]; other site 1380908009759 cardiolipin binding site; other site 1380908009760 Iron-sulfur protein interface; other site 1380908009761 proximal quinone binding site [chemical binding]; other site 1380908009762 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 1380908009763 SdhD (CybS) interface [polypeptide binding]; other site 1380908009764 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 1380908009765 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1380908009766 dimer interface [polypeptide binding]; other site 1380908009767 active site 1380908009768 citrylCoA binding site [chemical binding]; other site 1380908009769 NADH binding [chemical binding]; other site 1380908009770 cationic pore residues; other site 1380908009771 oxalacetate/citrate binding site [chemical binding]; other site 1380908009772 coenzyme A binding site [chemical binding]; other site 1380908009773 catalytic triad [active] 1380908009774 endonuclease VIII; Provisional; Region: PRK10445 1380908009775 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1380908009776 DNA binding site [nucleotide binding] 1380908009777 catalytic residue [active] 1380908009778 putative catalytic residues [active] 1380908009779 H2TH interface [polypeptide binding]; other site 1380908009780 intercalation triad [nucleotide binding]; other site 1380908009781 substrate specificity determining residue; other site 1380908009782 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1380908009783 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1380908009784 Predicted membrane protein [Function unknown]; Region: COG3817 1380908009785 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1380908009786 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1380908009787 LamB/YcsF family protein; Provisional; Region: PRK05406 1380908009788 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1380908009789 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1380908009790 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1380908009791 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 1380908009792 putative substrate translocation pore; other site 1380908009793 POT family; Region: PTR2; pfam00854 1380908009794 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 1380908009795 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1380908009796 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1380908009797 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1380908009798 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1380908009799 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 1380908009800 active site 1380908009801 phosphorylation site [posttranslational modification] 1380908009802 intermolecular recognition site; other site 1380908009803 dimerization interface [polypeptide binding]; other site 1380908009804 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 1380908009805 DNA binding site [nucleotide binding] 1380908009806 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 1380908009807 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1380908009808 active site 1380908009809 substrate binding site [chemical binding]; other site 1380908009810 metal binding site [ion binding]; metal-binding site 1380908009811 replication initiation regulator SeqA; Provisional; Region: PRK11187 1380908009812 acyl-CoA esterase; Provisional; Region: PRK10673 1380908009813 PGAP1-like protein; Region: PGAP1; pfam07819 1380908009814 LexA regulated protein; Provisional; Region: PRK11675 1380908009815 flavodoxin FldA; Validated; Region: PRK09267 1380908009816 ferric uptake regulator; Provisional; Region: fur; PRK09462 1380908009817 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1380908009818 metal binding site 2 [ion binding]; metal-binding site 1380908009819 putative DNA binding helix; other site 1380908009820 metal binding site 1 [ion binding]; metal-binding site 1380908009821 dimer interface [polypeptide binding]; other site 1380908009822 structural Zn2+ binding site [ion binding]; other site 1380908009823 YbfN-like lipoprotein; Region: YbfN; pfam13982 1380908009824 outer membrane porin, OprD family; Region: OprD; pfam03573 1380908009825 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1380908009826 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1380908009827 active site 1380908009828 trimer interface [polypeptide binding]; other site 1380908009829 allosteric site; other site 1380908009830 active site lid [active] 1380908009831 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1380908009832 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1380908009833 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1380908009834 active site 1380908009835 dimer interface [polypeptide binding]; other site 1380908009836 MarR family; Region: MarR; pfam01047 1380908009837 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1380908009838 ROK family; Region: ROK; pfam00480 1380908009839 UMP phosphatase; Provisional; Region: PRK10444 1380908009840 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 1380908009841 active site 1380908009842 motif I; other site 1380908009843 motif II; other site 1380908009844 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 1380908009845 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1380908009846 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 1380908009847 active site 1380908009848 dimer interface [polypeptide binding]; other site 1380908009849 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 1380908009850 Ligand Binding Site [chemical binding]; other site 1380908009851 Molecular Tunnel; other site 1380908009852 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1380908009853 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1380908009854 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 1380908009855 FeS/SAM binding site; other site 1380908009856 TRAM domain; Region: TRAM; pfam01938 1380908009857 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1380908009858 PhoH-like protein; Region: PhoH; pfam02562 1380908009859 metal-binding heat shock protein; Provisional; Region: PRK00016 1380908009860 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1380908009861 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1380908009862 putative active site [active] 1380908009863 catalytic triad [active] 1380908009864 putative dimer interface [polypeptide binding]; other site 1380908009865 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1380908009866 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 1380908009867 substrate binding pocket [chemical binding]; other site 1380908009868 membrane-bound complex binding site; other site 1380908009869 hinge residues; other site 1380908009870 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908009871 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 1380908009872 dimer interface [polypeptide binding]; other site 1380908009873 conserved gate region; other site 1380908009874 putative PBP binding loops; other site 1380908009875 ABC-ATPase subunit interface; other site 1380908009876 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908009877 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 1380908009878 dimer interface [polypeptide binding]; other site 1380908009879 conserved gate region; other site 1380908009880 putative PBP binding loops; other site 1380908009881 ABC-ATPase subunit interface; other site 1380908009882 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908009883 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908009884 Walker A/P-loop; other site 1380908009885 ATP binding site [chemical binding]; other site 1380908009886 Q-loop/lid; other site 1380908009887 ABC transporter signature motif; other site 1380908009888 Walker B; other site 1380908009889 D-loop; other site 1380908009890 H-loop/switch region; other site 1380908009891 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1380908009892 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1380908009893 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1380908009894 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1380908009895 hypothetical protein; Provisional; Region: PRK11032 1380908009896 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1380908009897 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1380908009898 HIGH motif; other site 1380908009899 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1380908009900 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1380908009901 active site 1380908009902 KMSKS motif; other site 1380908009903 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1380908009904 tRNA binding surface [nucleotide binding]; other site 1380908009905 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1380908009906 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 1380908009907 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1380908009908 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1380908009909 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1380908009910 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1380908009911 active site 1380908009912 (T/H)XGH motif; other site 1380908009913 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 1380908009914 catalytic core [active] 1380908009915 ribosome-associated protein; Provisional; Region: PRK11538 1380908009916 penicillin-binding protein 2; Provisional; Region: PRK10795 1380908009917 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1380908009918 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1380908009919 cell wall shape-determining protein; Provisional; Region: PRK10794 1380908009920 rare lipoprotein A; Provisional; Region: PRK10672 1380908009921 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1380908009922 Sporulation related domain; Region: SPOR; pfam05036 1380908009923 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1380908009924 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1380908009925 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1380908009926 hypothetical protein; Provisional; Region: PRK04998 1380908009927 lipoate-protein ligase B; Provisional; Region: PRK14342 1380908009928 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1380908009929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908009930 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 1380908009931 substrate binding pocket [chemical binding]; other site 1380908009932 dimerization interface [polypeptide binding]; other site 1380908009933 lipoyl synthase; Provisional; Region: PRK05481 1380908009934 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 1380908009935 FeS/SAM binding site; other site 1380908009936 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 1380908009937 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1380908009938 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1380908009939 putative active site [active] 1380908009940 catalytic triad [active] 1380908009941 putative dimer interface [polypeptide binding]; other site 1380908009942 chromosome condensation membrane protein; Provisional; Region: PRK14196 1380908009943 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1380908009944 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 1380908009945 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1380908009946 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1380908009947 B1 nucleotide binding pocket [chemical binding]; other site 1380908009948 B2 nucleotide binding pocket [chemical binding]; other site 1380908009949 CAS motifs; other site 1380908009950 active site 1380908009951 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1380908009952 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1380908009953 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 1380908009954 Ligand Binding Site [chemical binding]; other site 1380908009955 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1380908009956 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1380908009957 catalytic residue [active] 1380908009958 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1380908009959 catalytic residues [active] 1380908009960 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908009961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908009962 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 1380908009963 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 1380908009964 dimer interface [polypeptide binding]; other site 1380908009965 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1380908009966 catalytic triad [active] 1380908009967 peroxidatic and resolving cysteines [active] 1380908009968 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1380908009969 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 1380908009970 dimerization domain [polypeptide binding]; other site 1380908009971 dimer interface [polypeptide binding]; other site 1380908009972 catalytic residues [active] 1380908009973 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1380908009974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908009975 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 1380908009976 dimerization interface [polypeptide binding]; other site 1380908009977 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1380908009978 ParB-like nuclease domain; Region: ParBc; pfam02195 1380908009979 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 1380908009980 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 1380908009981 motif II; other site 1380908009982 ARD/ARD' family; Region: ARD; pfam03079 1380908009983 Cupin domain; Region: Cupin_2; cl17218 1380908009984 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1380908009985 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1380908009986 molybdopterin cofactor binding site [chemical binding]; other site 1380908009987 substrate binding site [chemical binding]; other site 1380908009988 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1380908009989 molybdopterin cofactor binding site; other site 1380908009990 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1380908009991 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1380908009992 putative ligand binding site [chemical binding]; other site 1380908009993 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908009994 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908009995 Walker A/P-loop; other site 1380908009996 ATP binding site [chemical binding]; other site 1380908009997 Q-loop/lid; other site 1380908009998 ABC transporter signature motif; other site 1380908009999 Walker B; other site 1380908010000 D-loop; other site 1380908010001 H-loop/switch region; other site 1380908010002 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908010003 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 1380908010004 TM-ABC transporter signature motif; other site 1380908010005 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908010006 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 1380908010007 substrate binding site [chemical binding]; other site 1380908010008 ATP binding site [chemical binding]; other site 1380908010009 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1380908010010 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1380908010011 putative ligand binding site [chemical binding]; other site 1380908010012 putative NAD binding site [chemical binding]; other site 1380908010013 catalytic site [active] 1380908010014 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1380908010015 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1380908010016 putative N- and C-terminal domain interface [polypeptide binding]; other site 1380908010017 putative active site [active] 1380908010018 MgATP binding site [chemical binding]; other site 1380908010019 catalytic site [active] 1380908010020 metal binding site [ion binding]; metal-binding site 1380908010021 putative xylulose binding site [chemical binding]; other site 1380908010022 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1380908010023 intersubunit interface [polypeptide binding]; other site 1380908010024 active site 1380908010025 Zn2+ binding site [ion binding]; other site 1380908010026 cytosine permease; Provisional; Region: codB; PRK11017 1380908010027 Na binding site [ion binding]; other site 1380908010028 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1380908010029 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1380908010030 cytosine deaminase; Provisional; Region: PRK09230 1380908010031 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 1380908010032 active site 1380908010033 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908010034 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908010035 DNA binding site [nucleotide binding] 1380908010036 domain linker motif; other site 1380908010037 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1380908010038 putative dimerization interface [polypeptide binding]; other site 1380908010039 putative ligand binding site [chemical binding]; other site 1380908010040 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1380908010041 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 1380908010042 active site 1380908010043 dimerization interface [polypeptide binding]; other site 1380908010044 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1380908010045 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 1380908010046 putative substrate translocation pore; other site 1380908010047 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1380908010048 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1380908010049 catalytic core [active] 1380908010050 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1380908010051 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1380908010052 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1380908010053 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 1380908010054 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1380908010055 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1380908010056 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1380908010057 putative ligand binding site [chemical binding]; other site 1380908010058 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908010059 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908010060 Walker A/P-loop; other site 1380908010061 ATP binding site [chemical binding]; other site 1380908010062 Q-loop/lid; other site 1380908010063 ABC transporter signature motif; other site 1380908010064 Walker B; other site 1380908010065 D-loop; other site 1380908010066 H-loop/switch region; other site 1380908010067 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908010068 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1380908010069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908010070 NAD(P) binding site [chemical binding]; other site 1380908010071 active site 1380908010072 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1380908010073 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908010074 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 1380908010075 salt bridge; other site 1380908010076 non-specific DNA binding site [nucleotide binding]; other site 1380908010077 sequence-specific DNA binding site [nucleotide binding]; other site 1380908010078 Uncharacterized small protein [Function unknown]; Region: COG2879 1380908010079 carbon starvation protein A; Provisional; Region: PRK15015 1380908010080 Carbon starvation protein CstA; Region: CstA; pfam02554 1380908010081 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1380908010082 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 1380908010083 CoenzymeA binding site [chemical binding]; other site 1380908010084 subunit interaction site [polypeptide binding]; other site 1380908010085 PHB binding site; other site 1380908010086 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1380908010087 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1380908010088 putative NAD(P) binding site [chemical binding]; other site 1380908010089 active site 1380908010090 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1380908010091 hydrophobic substrate binding pocket; other site 1380908010092 Isochorismatase family; Region: Isochorismatase; pfam00857 1380908010093 active site 1380908010094 conserved cis-peptide bond; other site 1380908010095 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1380908010096 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1380908010097 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1380908010098 acyl-activating enzyme (AAE) consensus motif; other site 1380908010099 active site 1380908010100 AMP binding site [chemical binding]; other site 1380908010101 substrate binding site [chemical binding]; other site 1380908010102 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1380908010103 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1380908010104 siderophore binding site; other site 1380908010105 enterobactin exporter EntS; Provisional; Region: PRK10489 1380908010106 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 1380908010107 putative substrate translocation pore; other site 1380908010108 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 1380908010109 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908010110 Walker A/P-loop; other site 1380908010111 ATP binding site [chemical binding]; other site 1380908010112 Q-loop/lid; other site 1380908010113 ABC transporter signature motif; other site 1380908010114 Walker B; other site 1380908010115 D-loop; other site 1380908010116 H-loop/switch region; other site 1380908010117 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1380908010118 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1380908010119 acyl-activating enzyme (AAE) consensus motif; other site 1380908010120 AMP binding site [chemical binding]; other site 1380908010121 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1380908010122 MbtH-like protein; Region: MbtH; cl01279 1380908010123 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 1380908010124 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1380908010125 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1380908010126 outer membrane receptor FepA; Provisional; Region: PRK13524 1380908010127 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 1380908010128 N-terminal plug; other site 1380908010129 ligand-binding site [chemical binding]; other site 1380908010130 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 1380908010131 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1380908010132 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1380908010133 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 1380908010134 PYR/PP interface [polypeptide binding]; other site 1380908010135 dimer interface [polypeptide binding]; other site 1380908010136 TPP binding site [chemical binding]; other site 1380908010137 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1380908010138 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 1380908010139 TPP-binding site [chemical binding]; other site 1380908010140 dimer interface [polypeptide binding]; other site 1380908010141 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1380908010142 MarR family; Region: MarR_2; cl17246 1380908010143 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1380908010144 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1380908010145 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1380908010146 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 1380908010147 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908010148 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908010149 Walker A/P-loop; other site 1380908010150 ATP binding site [chemical binding]; other site 1380908010151 Q-loop/lid; other site 1380908010152 ABC transporter signature motif; other site 1380908010153 Walker B; other site 1380908010154 D-loop; other site 1380908010155 H-loop/switch region; other site 1380908010156 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908010157 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 1380908010158 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908010159 TM-ABC transporter signature motif; other site 1380908010160 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1380908010161 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1380908010162 NAD binding site [chemical binding]; other site 1380908010163 homotetramer interface [polypeptide binding]; other site 1380908010164 homodimer interface [polypeptide binding]; other site 1380908010165 active site 1380908010166 substrate binding site [chemical binding]; other site 1380908010167 short chain dehydrogenase; Provisional; Region: PRK06114 1380908010168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908010169 NAD(P) binding site [chemical binding]; other site 1380908010170 active site 1380908010171 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1380908010172 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908010173 C-lysozyme inhibitor; Provisional; Region: PRK09993 1380908010174 choline transport protein BetT; Provisional; Region: PRK09928 1380908010175 transcriptional regulator BetI; Validated; Region: PRK00767 1380908010176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908010177 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1380908010178 choline dehydrogenase; Validated; Region: PRK02106 1380908010179 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1380908010180 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1380908010181 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1380908010182 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1380908010183 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 1380908010184 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1380908010185 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1380908010186 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 1380908010187 dimer interface [polypeptide binding]; other site 1380908010188 conserved gate region; other site 1380908010189 ABC-ATPase subunit interface; other site 1380908010190 hypothetical protein; Provisional; Region: PRK06062 1380908010191 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 1380908010192 inhibitor-cofactor binding pocket; inhibition site 1380908010193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908010194 catalytic residue [active] 1380908010195 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908010196 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908010197 Walker A/P-loop; other site 1380908010198 ATP binding site [chemical binding]; other site 1380908010199 Q-loop/lid; other site 1380908010200 ABC transporter signature motif; other site 1380908010201 Walker B; other site 1380908010202 D-loop; other site 1380908010203 H-loop/switch region; other site 1380908010204 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 1380908010205 dimer interface [polypeptide binding]; other site 1380908010206 conserved gate region; other site 1380908010207 putative PBP binding loops; other site 1380908010208 ABC-ATPase subunit interface; other site 1380908010209 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1380908010210 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 1380908010211 dimer interface [polypeptide binding]; other site 1380908010212 conserved gate region; other site 1380908010213 putative PBP binding loops; other site 1380908010214 ABC-ATPase subunit interface; other site 1380908010215 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 1380908010216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908010217 DNA-binding site [nucleotide binding]; DNA binding site 1380908010218 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 1380908010219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908010220 homodimer interface [polypeptide binding]; other site 1380908010221 catalytic residue [active] 1380908010222 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 1380908010223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908010224 DNA-binding site [nucleotide binding]; DNA binding site 1380908010225 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 1380908010226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908010227 homodimer interface [polypeptide binding]; other site 1380908010228 catalytic residue [active] 1380908010229 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1380908010230 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1380908010231 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1380908010232 Predicted periplasmic protein [Function unknown]; Region: COG3698 1380908010233 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1380908010234 putative transposase OrfB; Reviewed; Region: PHA02517 1380908010235 HTH-like domain; Region: HTH_21; pfam13276 1380908010236 Integrase core domain; Region: rve; pfam00665 1380908010237 Integrase core domain; Region: rve_2; pfam13333 1380908010238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908010239 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908010240 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908010241 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1380908010242 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1380908010243 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908010244 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908010245 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1380908010246 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1380908010247 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1380908010248 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1380908010249 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1380908010250 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1380908010251 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1380908010252 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 1380908010253 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1380908010254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908010255 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1380908010256 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1380908010257 putative transposase OrfB; Reviewed; Region: PHA02517 1380908010258 HTH-like domain; Region: HTH_21; pfam13276 1380908010259 Integrase core domain; Region: rve; pfam00665 1380908010260 Integrase core domain; Region: rve_3; pfam13683 1380908010261 hypothetical protein; Provisional; Region: PRK10250 1380908010262 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1380908010263 dimer interface [polypeptide binding]; other site 1380908010264 FMN binding site [chemical binding]; other site 1380908010265 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 1380908010266 active site 1380908010267 active pocket/dimerization site; other site 1380908010268 phosphorylation site [posttranslational modification] 1380908010269 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1380908010270 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1380908010271 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1380908010272 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 1380908010273 dimer interface [polypeptide binding]; other site 1380908010274 active site 1380908010275 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 1380908010276 dimer interface [polypeptide binding]; other site 1380908010277 active site 1380908010278 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1380908010279 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1380908010280 putative active site [active] 1380908010281 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 1380908010282 dimer interface [polypeptide binding]; other site 1380908010283 active site 1380908010284 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1380908010285 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 1380908010286 ATP binding site [chemical binding]; other site 1380908010287 Walker B motif; other site 1380908010288 arginine finger; other site 1380908010289 Transcriptional antiterminator [Transcription]; Region: COG3933 1380908010290 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 1380908010291 active pocket/dimerization site; other site 1380908010292 active site 1380908010293 phosphorylation site [posttranslational modification] 1380908010294 PRD domain; Region: PRD; pfam00874 1380908010295 Helix-turn-helix domain; Region: HTH_31; pfam13560 1380908010296 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1380908010297 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 1380908010298 putative substrate translocation pore; other site 1380908010299 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1380908010300 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908010301 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908010302 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908010303 DNA binding site [nucleotide binding] 1380908010304 domain linker motif; other site 1380908010305 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1380908010306 dimerization interface [polypeptide binding]; other site 1380908010307 ligand binding site [chemical binding]; other site 1380908010308 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_31; cd04690 1380908010309 nudix motif; other site 1380908010310 Vi polysaccharide biosynthesis protein TviA; Provisional; Region: PRK15183 1380908010311 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1380908010312 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908010313 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1380908010314 DNA binding residues [nucleotide binding] 1380908010315 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908010316 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908010317 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908010318 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1380908010319 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1380908010320 Metal-binding active site; metal-binding site 1380908010321 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1380908010322 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 1380908010323 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 1380908010324 putative substrate translocation pore; other site 1380908010325 phenylalanine transporter; Provisional; Region: PRK10249 1380908010326 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1380908010327 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 1380908010328 N-terminal plug; other site 1380908010329 ligand-binding site [chemical binding]; other site 1380908010330 PQQ-like domain; Region: PQQ_2; pfam13360 1380908010331 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1380908010332 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1380908010333 NAD(P) binding site [chemical binding]; other site 1380908010334 catalytic residues [active] 1380908010335 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1380908010336 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1380908010337 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1380908010338 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 1380908010339 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1380908010340 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1380908010341 active site 1380908010342 Zn binding site [ion binding]; other site 1380908010343 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 1380908010344 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1380908010345 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 1380908010346 DNA binding residues [nucleotide binding] 1380908010347 dimerization interface [polypeptide binding]; other site 1380908010348 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1380908010349 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 1380908010350 FeS/SAM binding site; other site 1380908010351 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1380908010352 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1380908010353 Sulfatase; Region: Sulfatase; pfam00884 1380908010354 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1380908010355 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1380908010356 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 1380908010357 substrate binding pocket [chemical binding]; other site 1380908010358 membrane-bound complex binding site; other site 1380908010359 hinge residues; other site 1380908010360 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1380908010361 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1380908010362 metal binding site [ion binding]; metal-binding site 1380908010363 putative dimer interface [polypeptide binding]; other site 1380908010364 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1380908010365 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1380908010366 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1380908010367 intersubunit interface [polypeptide binding]; other site 1380908010368 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1380908010369 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1380908010370 ABC-ATPase subunit interface; other site 1380908010371 dimer interface [polypeptide binding]; other site 1380908010372 putative PBP binding regions; other site 1380908010373 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1380908010374 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908010375 Walker A/P-loop; other site 1380908010376 ATP binding site [chemical binding]; other site 1380908010377 Q-loop/lid; other site 1380908010378 ABC transporter signature motif; other site 1380908010379 Walker B; other site 1380908010380 D-loop; other site 1380908010381 H-loop/switch region; other site 1380908010382 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1380908010383 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908010384 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908010385 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1380908010386 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908010387 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 1380908010388 putative substrate binding site [chemical binding]; other site 1380908010389 putative ATP binding site [chemical binding]; other site 1380908010390 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1380908010391 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908010392 active site turn [active] 1380908010393 phosphorylation site [posttranslational modification] 1380908010394 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1380908010395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908010396 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 1380908010397 TM-ABC transporter signature motif; other site 1380908010398 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908010399 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908010400 Walker A/P-loop; other site 1380908010401 ATP binding site [chemical binding]; other site 1380908010402 Q-loop/lid; other site 1380908010403 ABC transporter signature motif; other site 1380908010404 Walker B; other site 1380908010405 D-loop; other site 1380908010406 H-loop/switch region; other site 1380908010407 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908010408 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1380908010409 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1380908010410 putative ligand binding site [chemical binding]; other site 1380908010411 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1380908010412 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908010413 DNA binding site [nucleotide binding] 1380908010414 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1380908010415 putative ligand binding site [chemical binding]; other site 1380908010416 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908010417 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908010418 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908010419 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908010420 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908010421 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908010422 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908010423 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 1380908010424 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 1380908010425 dimer interface [polypeptide binding]; other site 1380908010426 putative anticodon binding site; other site 1380908010427 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 1380908010428 motif 1; other site 1380908010429 active site 1380908010430 motif 2; other site 1380908010431 motif 3; other site 1380908010432 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1380908010433 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 1380908010434 putative substrate translocation pore; other site 1380908010435 POT family; Region: PTR2; pfam00854 1380908010436 lysine decarboxylase CadA; Provisional; Region: PRK15400 1380908010437 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1380908010438 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 1380908010439 homodimer interface [polypeptide binding]; other site 1380908010440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908010441 catalytic residue [active] 1380908010442 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1380908010443 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908010444 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1380908010445 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1380908010446 putative acyl-acceptor binding pocket; other site 1380908010447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908010448 Coenzyme A binding pocket [chemical binding]; other site 1380908010449 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908010450 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908010451 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908010452 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908010453 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908010454 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1380908010455 DNA binding residues [nucleotide binding] 1380908010456 dimerization interface [polypeptide binding]; other site 1380908010457 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 1380908010458 dimer interface [polypeptide binding]; other site 1380908010459 Citrate synthase; Region: Citrate_synt; pfam00285 1380908010460 active site 1380908010461 citrylCoA binding site [chemical binding]; other site 1380908010462 NADH binding [chemical binding]; other site 1380908010463 cationic pore residues; other site 1380908010464 oxalacetate/citrate binding site [chemical binding]; other site 1380908010465 coenzyme A binding site [chemical binding]; other site 1380908010466 catalytic triad [active] 1380908010467 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 1380908010468 active site 1380908010469 homotetramer interface [polypeptide binding]; other site 1380908010470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1380908010471 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 1380908010472 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 1380908010473 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1380908010474 hypothetical protein; Provisional; Region: PRK09741 1380908010475 Protein of unknown function (DUF550); Region: DUF550; pfam04447 1380908010476 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1380908010477 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1380908010478 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 1380908010479 putative Zn2+ binding site [ion binding]; other site 1380908010480 putative DNA binding site [nucleotide binding]; other site 1380908010481 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1380908010482 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 1380908010483 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 1380908010484 Walker A motif; other site 1380908010485 ATP binding site [chemical binding]; other site 1380908010486 Walker B motif; other site 1380908010487 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 1380908010488 Predicted transcriptional regulator [Transcription]; Region: COG2932 1380908010489 Catalytic site [active] 1380908010490 ERF superfamily; Region: ERF; pfam04404 1380908010491 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1380908010492 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 1380908010493 Int/Topo IB signature motif; other site 1380908010494 ribosome-associated protein; Provisional; Region: PRK11507 1380908010495 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1380908010496 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1380908010497 active site 1380908010498 HIGH motif; other site 1380908010499 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1380908010500 KMSKS motif; other site 1380908010501 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1380908010502 tRNA binding surface [nucleotide binding]; other site 1380908010503 anticodon binding site; other site 1380908010504 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 1380908010505 substrate binding site [chemical binding]; other site 1380908010506 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1380908010507 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1380908010508 putative active site [active] 1380908010509 putative metal binding site [ion binding]; other site 1380908010510 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1380908010511 ATP-grasp domain; Region: ATP-grasp; pfam02222 1380908010512 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1380908010513 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1380908010514 active site residue [active] 1380908010515 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1380908010516 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1380908010517 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1380908010518 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1380908010519 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 1380908010520 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1380908010521 Walker A/P-loop; other site 1380908010522 ATP binding site [chemical binding]; other site 1380908010523 Q-loop/lid; other site 1380908010524 ABC transporter signature motif; other site 1380908010525 Walker B; other site 1380908010526 D-loop; other site 1380908010527 H-loop/switch region; other site 1380908010528 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 1380908010529 active site 1380908010530 catalytic triad [active] 1380908010531 oxyanion hole [active] 1380908010532 switch loop; other site 1380908010533 oxidoreductase; Provisional; Region: PRK08017 1380908010534 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1380908010535 NADP binding site [chemical binding]; other site 1380908010536 active site 1380908010537 steroid binding site; other site 1380908010538 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1380908010539 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1380908010540 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1380908010541 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1380908010542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908010543 Walker A/P-loop; other site 1380908010544 ATP binding site [chemical binding]; other site 1380908010545 Q-loop/lid; other site 1380908010546 ABC transporter signature motif; other site 1380908010547 Walker B; other site 1380908010548 D-loop; other site 1380908010549 H-loop/switch region; other site 1380908010550 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1380908010551 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 1380908010552 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1380908010553 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 1380908010554 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1380908010555 DNA binding residues [nucleotide binding] 1380908010556 dimer interface [polypeptide binding]; other site 1380908010557 copper binding site [ion binding]; other site 1380908010558 copper exporting ATPase; Provisional; Region: copA; PRK10671 1380908010559 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 1380908010560 metal-binding site [ion binding] 1380908010561 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 1380908010562 metal-binding site [ion binding] 1380908010563 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1380908010564 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 1380908010565 motif II; other site 1380908010566 TraB family; Region: TraB; cl12050 1380908010567 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 1380908010568 putative deacylase active site [active] 1380908010569 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1380908010570 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1380908010571 active site 1380908010572 metal binding site [ion binding]; metal-binding site 1380908010573 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1380908010574 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 1380908010575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908010576 putative substrate translocation pore; other site 1380908010577 putative cation:proton antiport protein; Provisional; Region: PRK10669 1380908010578 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1380908010579 TrkA-N domain; Region: TrkA_N; pfam02254 1380908010580 inosine/guanosine kinase; Provisional; Region: PRK15074 1380908010581 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908010582 ferrochelatase; Reviewed; Region: hemH; PRK00035 1380908010583 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 1380908010584 C-terminal domain interface [polypeptide binding]; other site 1380908010585 active site 1380908010586 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 1380908010587 active site 1380908010588 N-terminal domain interface [polypeptide binding]; other site 1380908010589 adenylate kinase; Reviewed; Region: adk; PRK00279 1380908010590 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 1380908010591 AMP-binding site [chemical binding]; other site 1380908010592 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1380908010593 heat shock protein 90; Provisional; Region: PRK05218 1380908010594 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 1380908010595 ATP binding site [chemical binding]; other site 1380908010596 Mg2+ binding site [ion binding]; other site 1380908010597 G-X-G motif; other site 1380908010598 recombination protein RecR; Reviewed; Region: recR; PRK00076 1380908010599 RecR protein; Region: RecR; pfam02132 1380908010600 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 1380908010601 putative active site [active] 1380908010602 putative metal-binding site [ion binding]; other site 1380908010603 tetramer interface [polypeptide binding]; other site 1380908010604 hypothetical protein; Validated; Region: PRK00153 1380908010605 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1380908010606 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 1380908010607 Walker A motif; other site 1380908010608 ATP binding site [chemical binding]; other site 1380908010609 Walker B motif; other site 1380908010610 arginine finger; other site 1380908010611 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1380908010612 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 1380908010613 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1380908010614 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908010615 active site 1380908010616 hypothetical protein; Provisional; Region: PRK10527 1380908010617 primosomal replication protein N''; Provisional; Region: PRK10093 1380908010618 hypothetical protein; Provisional; Region: PRK11038 1380908010619 hypothetical protein; Provisional; Region: PRK11281 1380908010620 M domain of GW182; Region: M_domain; pfam12938 1380908010621 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1380908010622 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1380908010623 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908010624 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1380908010625 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908010626 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1380908010627 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1380908010628 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908010629 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1380908010630 Protein export membrane protein; Region: SecD_SecF; cl14618 1380908010631 Hha toxicity attenuator; Provisional; Region: PRK10667 1380908010632 gene expression modulator; Provisional; Region: PRK10945 1380908010633 maltose O-acetyltransferase; Provisional; Region: PRK10092 1380908010634 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1380908010635 active site 1380908010636 substrate binding site [chemical binding]; other site 1380908010637 trimer interface [polypeptide binding]; other site 1380908010638 CoA binding site [chemical binding]; other site 1380908010639 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 1380908010640 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1380908010641 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908010642 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1380908010643 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1380908010644 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 1380908010645 trimer interface; other site 1380908010646 sugar binding site [chemical binding]; other site 1380908010647 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908010648 active site turn [active] 1380908010649 phosphorylation site [posttranslational modification] 1380908010650 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1380908010651 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1380908010652 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1380908010653 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1380908010654 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1380908010655 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 1380908010656 dimer interface [polypeptide binding]; other site 1380908010657 conserved gate region; other site 1380908010658 putative PBP binding loops; other site 1380908010659 ABC-ATPase subunit interface; other site 1380908010660 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 1380908010661 dimer interface [polypeptide binding]; other site 1380908010662 conserved gate region; other site 1380908010663 ABC-ATPase subunit interface; other site 1380908010664 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1380908010665 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1380908010666 DAK2 domain; Region: Dak2; cl03685 1380908010667 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1380908010668 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1380908010669 Walker A/P-loop; other site 1380908010670 ATP binding site [chemical binding]; other site 1380908010671 Q-loop/lid; other site 1380908010672 ABC transporter signature motif; other site 1380908010673 Walker B; other site 1380908010674 D-loop; other site 1380908010675 H-loop/switch region; other site 1380908010676 TOBE domain; Region: TOBE_2; pfam08402 1380908010677 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1380908010678 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1380908010679 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 1380908010680 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1380908010681 putative homodimer interface [polypeptide binding]; other site 1380908010682 putative homotetramer interface [polypeptide binding]; other site 1380908010683 putative metal binding site [ion binding]; other site 1380908010684 putative homodimer-homodimer interface [polypeptide binding]; other site 1380908010685 putative allosteric switch controlling residues; other site 1380908010686 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 1380908010687 Predicted membrane protein [Function unknown]; Region: COG2364 1380908010688 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1380908010689 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1380908010690 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 1380908010691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908010692 DNA-binding site [nucleotide binding]; DNA binding site 1380908010693 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 1380908010694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908010695 homodimer interface [polypeptide binding]; other site 1380908010696 catalytic residue [active] 1380908010697 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 1380908010698 active site 1380908010699 DNA binding site [nucleotide binding] 1380908010700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1380908010701 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1380908010702 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1380908010703 active site 1380908010704 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1380908010705 catalytic triad [active] 1380908010706 dimer interface [polypeptide binding]; other site 1380908010707 ammonium transporter; Provisional; Region: PRK10666 1380908010708 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 1380908010709 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1380908010710 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1380908010711 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1380908010712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908010713 Walker A/P-loop; other site 1380908010714 ATP binding site [chemical binding]; other site 1380908010715 Q-loop/lid; other site 1380908010716 ABC transporter signature motif; other site 1380908010717 Walker B; other site 1380908010718 D-loop; other site 1380908010719 H-loop/switch region; other site 1380908010720 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1380908010721 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 1380908010722 putative DNA binding site [nucleotide binding]; other site 1380908010723 putative Zn2+ binding site [ion binding]; other site 1380908010724 AsnC family; Region: AsnC_trans_reg; pfam01037 1380908010725 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1380908010726 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 1380908010727 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908010728 catalytic residue [active] 1380908010729 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 1380908010730 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 1380908010731 active site 1380908010732 motif I; other site 1380908010733 motif II; other site 1380908010734 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1380908010735 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 1380908010736 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1380908010737 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1380908010738 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 1380908010739 Ligand Binding Site [chemical binding]; other site 1380908010740 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 1380908010741 active site 1380908010742 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1380908010743 periplasmic folding chaperone; Provisional; Region: PRK10788 1380908010744 SurA N-terminal domain; Region: SurA_N_3; cl07813 1380908010745 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1380908010746 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 1380908010747 IHF dimer interface [polypeptide binding]; other site 1380908010748 IHF - DNA interface [nucleotide binding]; other site 1380908010749 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 1380908010750 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1380908010751 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 1380908010752 Walker A motif; other site 1380908010753 ATP binding site [chemical binding]; other site 1380908010754 Walker B motif; other site 1380908010755 arginine finger; other site 1380908010756 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1380908010757 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1380908010758 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1380908010759 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 1380908010760 Walker A motif; other site 1380908010761 ATP binding site [chemical binding]; other site 1380908010762 Walker B motif; other site 1380908010763 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1380908010764 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1380908010765 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1380908010766 oligomer interface [polypeptide binding]; other site 1380908010767 active site residues [active] 1380908010768 trigger factor; Provisional; Region: tig; PRK01490 1380908010769 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1380908010770 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1380908010771 hypothetical protein; Provisional; Region: PRK11627 1380908010772 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1380908010773 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1380908010774 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 1380908010775 putative substrate translocation pore; other site 1380908010776 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1380908010777 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1380908010778 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1380908010779 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 1380908010780 Subunit I/III interface [polypeptide binding]; other site 1380908010781 Subunit III/IV interface [polypeptide binding]; other site 1380908010782 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1380908010783 UbiA prenyltransferase family; Region: UbiA; pfam01040 1380908010784 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1380908010785 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1380908010786 Bacterial transcriptional regulator; Region: IclR; pfam01614 1380908010787 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1380908010788 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1380908010789 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1380908010790 shikimate binding site; other site 1380908010791 NAD(P) binding site [chemical binding]; other site 1380908010792 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1380908010793 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1380908010794 NIPSNAP; Region: NIPSNAP; pfam07978 1380908010795 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1380908010796 benzoate transport; Region: 2A0115; TIGR00895 1380908010797 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 1380908010798 putative substrate translocation pore; other site 1380908010799 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 1380908010800 putative substrate translocation pore; other site 1380908010801 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908010802 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908010803 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908010804 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 1380908010805 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908010806 putative substrate translocation pore; other site 1380908010807 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1380908010808 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1380908010809 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1380908010810 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 1380908010811 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1380908010812 conserved cys residue [active] 1380908010813 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1380908010814 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1380908010815 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1380908010816 Ligand Binding Site [chemical binding]; other site 1380908010817 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 1380908010818 active site residue [active] 1380908010819 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1380908010820 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1380908010821 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1380908010822 substrate binding pocket [chemical binding]; other site 1380908010823 chain length determination region; other site 1380908010824 substrate-Mg2+ binding site; other site 1380908010825 catalytic residues [active] 1380908010826 aspartate-rich region 1; other site 1380908010827 active site lid residues [active] 1380908010828 aspartate-rich region 2; other site 1380908010829 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1380908010830 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 1380908010831 TPP-binding site; other site 1380908010832 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 1380908010833 PYR/PP interface [polypeptide binding]; other site 1380908010834 dimer interface [polypeptide binding]; other site 1380908010835 TPP binding site [chemical binding]; other site 1380908010836 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1380908010837 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 1380908010838 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908010839 active site 1380908010840 catalytic tetrad [active] 1380908010841 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1380908010842 tetramer interfaces [polypeptide binding]; other site 1380908010843 binuclear metal-binding site [ion binding]; other site 1380908010844 thiamine monophosphate kinase; Provisional; Region: PRK05731 1380908010845 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 1380908010846 ATP binding site [chemical binding]; other site 1380908010847 dimerization interface [polypeptide binding]; other site 1380908010848 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1380908010849 putative RNA binding site [nucleotide binding]; other site 1380908010850 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 1380908010851 homopentamer interface [polypeptide binding]; other site 1380908010852 active site 1380908010853 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1380908010854 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 1380908010855 catalytic motif [active] 1380908010856 Zn binding site [ion binding]; other site 1380908010857 RibD C-terminal domain; Region: RibD_C; cl17279 1380908010858 hypothetical protein; Provisional; Region: PRK11530 1380908010859 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 1380908010860 Predicted transcriptional regulator [Transcription]; Region: COG2378 1380908010861 HTH domain; Region: HTH_11; pfam08279 1380908010862 WYL domain; Region: WYL; pfam13280 1380908010863 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1380908010864 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908010865 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1380908010866 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1380908010867 Protein export membrane protein; Region: SecD_SecF; pfam02355 1380908010868 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1380908010869 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1380908010870 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1380908010871 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1380908010872 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1380908010873 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1380908010874 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1380908010875 peroxidase; Provisional; Region: PRK15000 1380908010876 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 1380908010877 dimer interface [polypeptide binding]; other site 1380908010878 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1380908010879 catalytic triad [active] 1380908010880 peroxidatic and resolving cysteines [active] 1380908010881 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 1380908010882 active site 1380908010883 phosphorylation site [posttranslational modification] 1380908010884 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1380908010885 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1380908010886 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908010887 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1380908010888 substrate binding site [chemical binding]; other site 1380908010889 ATP binding site [chemical binding]; other site 1380908010890 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 1380908010891 intersubunit interface [polypeptide binding]; other site 1380908010892 active site 1380908010893 zinc binding site [ion binding]; other site 1380908010894 Na+ binding site [ion binding]; other site 1380908010895 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1380908010896 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 1380908010897 active site 1380908010898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1380908010899 Isochorismatase family; Region: Isochorismatase; pfam00857 1380908010900 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 1380908010901 catalytic triad [active] 1380908010902 dimer interface [polypeptide binding]; other site 1380908010903 conserved cis-peptide bond; other site 1380908010904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908010905 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1380908010906 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 1380908010907 dimerization interface [polypeptide binding]; other site 1380908010908 putative proline-specific permease; Provisional; Region: proY; PRK10580 1380908010909 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 1380908010910 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1380908010911 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1380908010912 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 1380908010913 putative active site [active] 1380908010914 heme pocket [chemical binding]; other site 1380908010915 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 1380908010916 dimer interface [polypeptide binding]; other site 1380908010917 phosphorylation site [posttranslational modification] 1380908010918 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 1380908010919 ATP binding site [chemical binding]; other site 1380908010920 Mg2+ binding site [ion binding]; other site 1380908010921 G-X-G motif; other site 1380908010922 transcriptional regulator PhoB; Provisional; Region: PRK10161 1380908010923 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 1380908010924 active site 1380908010925 phosphorylation site [posttranslational modification] 1380908010926 intermolecular recognition site; other site 1380908010927 dimerization interface [polypeptide binding]; other site 1380908010928 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 1380908010929 DNA binding site [nucleotide binding] 1380908010930 exonuclease subunit SbcD; Provisional; Region: PRK10966 1380908010931 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1380908010932 active site 1380908010933 metal binding site [ion binding]; metal-binding site 1380908010934 DNA binding site [nucleotide binding] 1380908010935 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1380908010936 exonuclease subunit SbcC; Provisional; Region: PRK10246 1380908010937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908010938 Walker A/P-loop; other site 1380908010939 ATP binding site [chemical binding]; other site 1380908010940 Q-loop/lid; other site 1380908010941 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908010942 ABC transporter signature motif; other site 1380908010943 Walker B; other site 1380908010944 D-loop; other site 1380908010945 H-loop/switch region; other site 1380908010946 fructokinase; Reviewed; Region: PRK09557 1380908010947 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908010948 nucleotide binding site [chemical binding]; other site 1380908010949 Acetokinase family; Region: Acetate_kinase; cl17229 1380908010950 hypothetical protein; Provisional; Region: PRK10579 1380908010951 hypothetical protein; Provisional; Region: PRK10481 1380908010952 hypothetical protein; Provisional; Region: PRK10380 1380908010953 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1380908010954 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 1380908010955 ADP binding site [chemical binding]; other site 1380908010956 magnesium binding site [ion binding]; other site 1380908010957 putative shikimate binding site; other site 1380908010958 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1380908010959 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1380908010960 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1380908010961 hypothetical protein; Provisional; Region: PRK11505 1380908010962 psiF repeat; Region: PsiF_repeat; pfam07769 1380908010963 psiF repeat; Region: PsiF_repeat; pfam07769 1380908010964 alkaline phosphatase; Provisional; Region: PRK10518 1380908010965 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1380908010966 active site 1380908010967 dimer interface [polypeptide binding]; other site 1380908010968 Sigma-S stabilisation anti-adaptor protein; Region: Anti-adapt_IraP; pfam10796 1380908010969 drug efflux system protein MdtG; Provisional; Region: PRK09874 1380908010970 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 1380908010971 putative substrate translocation pore; other site 1380908010972 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1380908010973 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1380908010974 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1380908010975 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1380908010976 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 1380908010977 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1380908010978 microcin B17 transporter; Reviewed; Region: PRK11098 1380908010979 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 1380908010980 Isochorismatase family; Region: Isochorismatase; pfam00857 1380908010981 catalytic triad [active] 1380908010982 conserved cis-peptide bond; other site 1380908010983 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 1380908010984 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1380908010985 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1380908010986 dimer interface [polypeptide binding]; other site 1380908010987 active site 1380908010988 Schiff base residues; other site 1380908010989 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1380908010990 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1380908010991 putative acyl-acceptor binding pocket; other site 1380908010992 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1380908010993 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1380908010994 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1380908010995 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1380908010996 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 1380908010997 dimer interface [polypeptide binding]; other site 1380908010998 conserved gate region; other site 1380908010999 putative PBP binding loops; other site 1380908011000 ABC-ATPase subunit interface; other site 1380908011001 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1380908011002 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1380908011003 Walker A/P-loop; other site 1380908011004 ATP binding site [chemical binding]; other site 1380908011005 Q-loop/lid; other site 1380908011006 ABC transporter signature motif; other site 1380908011007 Walker B; other site 1380908011008 D-loop; other site 1380908011009 H-loop/switch region; other site 1380908011010 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 1380908011011 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 1380908011012 substrate binding pocket [chemical binding]; other site 1380908011013 membrane-bound complex binding site; other site 1380908011014 hinge residues; other site 1380908011015 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1380908011016 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1380908011017 S-methylmethionine transporter; Provisional; Region: PRK11387 1380908011018 ethanolamine permease; Region: 2A0305; TIGR00908 1380908011019 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1380908011020 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1380908011021 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1380908011022 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1380908011023 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1380908011024 putative ligand binding site [chemical binding]; other site 1380908011025 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908011026 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 1380908011027 TM-ABC transporter signature motif; other site 1380908011028 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1380908011029 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 1380908011030 TM-ABC transporter signature motif; other site 1380908011031 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1380908011032 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1380908011033 Walker A/P-loop; other site 1380908011034 ATP binding site [chemical binding]; other site 1380908011035 Q-loop/lid; other site 1380908011036 ABC transporter signature motif; other site 1380908011037 Walker B; other site 1380908011038 D-loop; other site 1380908011039 H-loop/switch region; other site 1380908011040 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1380908011041 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1380908011042 Walker A/P-loop; other site 1380908011043 ATP binding site [chemical binding]; other site 1380908011044 Q-loop/lid; other site 1380908011045 ABC transporter signature motif; other site 1380908011046 Walker B; other site 1380908011047 D-loop; other site 1380908011048 H-loop/switch region; other site 1380908011049 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908011050 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 1380908011051 substrate binding pocket [chemical binding]; other site 1380908011052 membrane-bound complex binding site; other site 1380908011053 hinge residues; other site 1380908011054 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1380908011055 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1380908011056 Walker A/P-loop; other site 1380908011057 ATP binding site [chemical binding]; other site 1380908011058 Q-loop/lid; other site 1380908011059 ABC transporter signature motif; other site 1380908011060 Walker B; other site 1380908011061 D-loop; other site 1380908011062 H-loop/switch region; other site 1380908011063 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 1380908011064 dimer interface [polypeptide binding]; other site 1380908011065 conserved gate region; other site 1380908011066 putative PBP binding loops; other site 1380908011067 ABC-ATPase subunit interface; other site 1380908011068 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 1380908011069 dimer interface [polypeptide binding]; other site 1380908011070 conserved gate region; other site 1380908011071 putative PBP binding loops; other site 1380908011072 ABC-ATPase subunit interface; other site 1380908011073 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908011074 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1380908011075 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1380908011076 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1380908011077 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 1380908011078 DNA binding residues [nucleotide binding] 1380908011079 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1380908011080 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1380908011081 Walker A/P-loop; other site 1380908011082 ATP binding site [chemical binding]; other site 1380908011083 Q-loop/lid; other site 1380908011084 ABC transporter signature motif; other site 1380908011085 Walker B; other site 1380908011086 D-loop; other site 1380908011087 H-loop/switch region; other site 1380908011088 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1380908011089 Transferrin; Region: Transferrin; cl02460 1380908011090 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1380908011091 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 1380908011092 dimer interface [polypeptide binding]; other site 1380908011093 conserved gate region; other site 1380908011094 putative PBP binding loops; other site 1380908011095 ABC-ATPase subunit interface; other site 1380908011096 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1380908011097 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 1380908011098 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1380908011099 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1380908011100 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1380908011101 NlpC/P60 family; Region: NLPC_P60; pfam00877 1380908011102 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1380908011103 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 1380908011104 trimer interface [polypeptide binding]; other site 1380908011105 eyelet of channel; other site 1380908011106 gamma-glutamyl kinase; Provisional; Region: PRK05429 1380908011107 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 1380908011108 nucleotide binding site [chemical binding]; other site 1380908011109 homotetrameric interface [polypeptide binding]; other site 1380908011110 putative phosphate binding site [ion binding]; other site 1380908011111 putative allosteric binding site; other site 1380908011112 PUA domain; Region: PUA; pfam01472 1380908011113 integrase; Provisional; Region: PRK09692 1380908011114 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 1380908011115 active site 1380908011116 Int/Topo IB signature motif; other site 1380908011117 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 1380908011118 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1380908011119 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1380908011120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1380908011121 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 1380908011122 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1380908011123 active site 1380908011124 metal binding site [ion binding]; metal-binding site 1380908011125 interdomain interaction site; other site 1380908011126 D5 N terminal like; Region: D5_N; smart00885 1380908011127 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1380908011128 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1380908011129 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1380908011130 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 1380908011131 DNA binding residues [nucleotide binding] 1380908011132 dimerization interface [polypeptide binding]; other site 1380908011133 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1380908011134 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 1380908011135 tetramer interface [polypeptide binding]; other site 1380908011136 TPP-binding site [chemical binding]; other site 1380908011137 heterodimer interface [polypeptide binding]; other site 1380908011138 phosphorylation loop region [posttranslational modification] 1380908011139 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1380908011140 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 1380908011141 alpha subunit interface [polypeptide binding]; other site 1380908011142 TPP binding site [chemical binding]; other site 1380908011143 heterodimer interface [polypeptide binding]; other site 1380908011144 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1380908011145 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 1380908011146 E3 interaction surface; other site 1380908011147 lipoyl attachment site [posttranslational modification]; other site 1380908011148 e3 binding domain; Region: E3_binding; pfam02817 1380908011149 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 1380908011150 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1380908011151 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1380908011152 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1380908011153 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908011154 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1380908011155 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 1380908011156 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1380908011157 Class I aldolases; Region: Aldolase_Class_I; cl17187 1380908011158 catalytic residue [active] 1380908011159 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 1380908011160 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1380908011161 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1380908011162 putative N- and C-terminal domain interface [polypeptide binding]; other site 1380908011163 putative active site [active] 1380908011164 MgATP binding site [chemical binding]; other site 1380908011165 catalytic site [active] 1380908011166 metal binding site [ion binding]; metal-binding site 1380908011167 putative xylulose binding site [chemical binding]; other site 1380908011168 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1380908011169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908011170 NAD(P) binding site [chemical binding]; other site 1380908011171 active site 1380908011172 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1380908011173 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1380908011174 putative ligand binding site [chemical binding]; other site 1380908011175 putative NAD binding site [chemical binding]; other site 1380908011176 catalytic site [active] 1380908011177 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1380908011178 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1380908011179 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1380908011180 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 1380908011181 S-adenosylmethionine binding site [chemical binding]; other site 1380908011182 hypothetical protein; Provisional; Region: PRK13687 1380908011183 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; cd00250 1380908011184 substrate binding pocket [chemical binding]; other site 1380908011185 active site 1380908011186 iron coordination sites [ion binding]; other site 1380908011187 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1380908011188 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1380908011189 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1380908011190 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1380908011191 tetramerization interface [polypeptide binding]; other site 1380908011192 NAD(P) binding site [chemical binding]; other site 1380908011193 catalytic residues [active] 1380908011194 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1380908011195 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 1380908011196 inhibitor-cofactor binding pocket; inhibition site 1380908011197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908011198 catalytic residue [active] 1380908011199 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 1380908011200 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 1380908011201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908011202 DNA-binding site [nucleotide binding]; DNA binding site 1380908011203 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1380908011204 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 1380908011205 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908011206 active site 1380908011207 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1380908011208 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1380908011209 metal binding site [ion binding]; metal-binding site 1380908011210 dimer interface [polypeptide binding]; other site 1380908011211 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908011212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908011213 Coenzyme A binding pocket [chemical binding]; other site 1380908011214 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1380908011215 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1380908011216 active site 1380908011217 catalytic site [active] 1380908011218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1380908011219 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1380908011220 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 1380908011221 catalytic loop [active] 1380908011222 iron binding site [ion binding]; other site 1380908011223 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1380908011224 FAD binding pocket [chemical binding]; other site 1380908011225 FAD binding motif [chemical binding]; other site 1380908011226 phosphate binding motif [ion binding]; other site 1380908011227 beta-alpha-beta structure motif; other site 1380908011228 NAD binding pocket [chemical binding]; other site 1380908011229 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1380908011230 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1380908011231 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1380908011232 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1380908011233 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1380908011234 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1380908011235 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 1380908011236 E3 interaction surface; other site 1380908011237 lipoyl attachment site [posttranslational modification]; other site 1380908011238 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1380908011239 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1380908011240 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 1380908011241 putative active site [active] 1380908011242 putative dimer interface [polypeptide binding]; other site 1380908011243 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 1380908011244 dimer interface [polypeptide binding]; other site 1380908011245 active site 1380908011246 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1380908011247 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1380908011248 active site 1380908011249 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1380908011250 C-N hydrolase family amidase; Provisional; Region: PRK10438 1380908011251 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1380908011252 putative active site [active] 1380908011253 catalytic triad [active] 1380908011254 dimer interface [polypeptide binding]; other site 1380908011255 multimer interface [polypeptide binding]; other site 1380908011256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908011257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908011258 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 1380908011259 dimerization interface [polypeptide binding]; other site 1380908011260 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1380908011261 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 1380908011262 active site 1380908011263 catalytic site [active] 1380908011264 substrate binding site [chemical binding]; other site 1380908011265 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1380908011266 RNA/DNA hybrid binding site [nucleotide binding]; other site 1380908011267 active site 1380908011268 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1380908011269 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 1380908011270 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1380908011271 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 1380908011272 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908011273 catalytic residue [active] 1380908011274 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1380908011275 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1380908011276 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1380908011277 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1380908011278 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1380908011279 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 1380908011280 S-adenosylmethionine binding site [chemical binding]; other site 1380908011281 hypothetical protein; Provisional; Region: PRK05421 1380908011282 putative catalytic site [active] 1380908011283 putative metal binding site [ion binding]; other site 1380908011284 putative phosphate binding site [ion binding]; other site 1380908011285 putative catalytic site [active] 1380908011286 putative phosphate binding site [ion binding]; other site 1380908011287 putative metal binding site [ion binding]; other site 1380908011288 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1380908011289 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 1380908011290 putative substrate translocation pore; other site 1380908011291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908011292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908011293 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1380908011294 putative effector binding pocket; other site 1380908011295 dimerization interface [polypeptide binding]; other site 1380908011296 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 1380908011297 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1380908011298 active site 1380908011299 catalytic tetrad [active] 1380908011300 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1380908011301 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 1380908011302 active site 1380908011303 motif I; other site 1380908011304 motif II; other site 1380908011305 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1380908011306 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1380908011307 Walker A/P-loop; other site 1380908011308 ATP binding site [chemical binding]; other site 1380908011309 Q-loop/lid; other site 1380908011310 ABC transporter signature motif; other site 1380908011311 Walker B; other site 1380908011312 D-loop; other site 1380908011313 H-loop/switch region; other site 1380908011314 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1380908011315 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 1380908011316 dimer interface [polypeptide binding]; other site 1380908011317 conserved gate region; other site 1380908011318 ABC-ATPase subunit interface; other site 1380908011319 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1380908011320 lipoprotein, YaeC family; Region: TIGR00363 1380908011321 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1380908011322 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1380908011323 homodimer interaction site [polypeptide binding]; other site 1380908011324 cofactor binding site; other site 1380908011325 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1380908011326 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 1380908011327 dimer interface [polypeptide binding]; other site 1380908011328 motif 1; other site 1380908011329 active site 1380908011330 motif 2; other site 1380908011331 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 1380908011332 putative deacylase active site [active] 1380908011333 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 1380908011334 active site 1380908011335 motif 3; other site 1380908011336 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 1380908011337 anticodon binding site; other site 1380908011338 hypothetical protein; Provisional; Region: PRK11479 1380908011339 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1380908011340 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 1380908011341 NlpE N-terminal domain; Region: NlpE; pfam04170 1380908011342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 1380908011343 Rho-binding antiterminator; Provisional; Region: PRK11625 1380908011344 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1380908011345 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 1380908011346 Ligand Binding Site [chemical binding]; other site 1380908011347 TilS substrate binding domain; Region: TilS; pfam09179 1380908011348 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1380908011349 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 1380908011350 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908011351 putative metal binding site [ion binding]; other site 1380908011352 lysine decarboxylase LdcC; Provisional; Region: PRK15399 1380908011353 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1380908011354 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 1380908011355 homodimer interface [polypeptide binding]; other site 1380908011356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908011357 catalytic residue [active] 1380908011358 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1380908011359 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1380908011360 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1380908011361 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1380908011362 RNA/DNA hybrid binding site [nucleotide binding]; other site 1380908011363 active site 1380908011364 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1380908011365 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1380908011366 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1380908011367 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 1380908011368 active site 1380908011369 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 1380908011370 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1380908011371 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1380908011372 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 1380908011373 trimer interface [polypeptide binding]; other site 1380908011374 active site 1380908011375 UDP-GlcNAc binding site [chemical binding]; other site 1380908011376 lipid binding site [chemical binding]; lipid-binding site 1380908011377 periplasmic chaperone; Provisional; Region: PRK10780 1380908011378 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1380908011379 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1380908011380 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 1380908011381 active site 1380908011382 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 1380908011383 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 1380908011384 protein binding site [polypeptide binding]; other site 1380908011385 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 1380908011386 putative substrate binding region [chemical binding]; other site 1380908011387 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1380908011388 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1380908011389 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1380908011390 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1380908011391 catalytic residue [active] 1380908011392 putative FPP diphosphate binding site; other site 1380908011393 putative FPP binding hydrophobic cleft; other site 1380908011394 dimer interface [polypeptide binding]; other site 1380908011395 putative IPP diphosphate binding site; other site 1380908011396 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1380908011397 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 1380908011398 hinge region; other site 1380908011399 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 1380908011400 putative nucleotide binding site [chemical binding]; other site 1380908011401 uridine monophosphate binding site [chemical binding]; other site 1380908011402 homohexameric interface [polypeptide binding]; other site 1380908011403 elongation factor Ts; Provisional; Region: tsf; PRK09377 1380908011404 UBA/TS-N domain; Region: UBA; pfam00627 1380908011405 Elongation factor TS; Region: EF_TS; pfam00889 1380908011406 Elongation factor TS; Region: EF_TS; pfam00889 1380908011407 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 1380908011408 rRNA interaction site [nucleotide binding]; other site 1380908011409 S8 interaction site; other site 1380908011410 putative laminin-1 binding site; other site 1380908011411 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 1380908011412 active site 1380908011413 PII uridylyl-transferase; Provisional; Region: PRK05007 1380908011414 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1380908011415 metal binding triad; other site 1380908011416 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1380908011417 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908011418 Zn2+ binding site [ion binding]; other site 1380908011419 Mg2+ binding site [ion binding]; other site 1380908011420 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 1380908011421 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 1380908011422 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1380908011423 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 1380908011424 trimer interface [polypeptide binding]; other site 1380908011425 active site 1380908011426 substrate binding site [chemical binding]; other site 1380908011427 CoA binding site [chemical binding]; other site 1380908011428 hypothetical protein; Provisional; Region: PRK13677 1380908011429 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 1380908011430 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1380908011431 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1380908011432 serine endoprotease; Provisional; Region: PRK10942 1380908011433 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1380908011434 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 1380908011435 protein binding site [polypeptide binding]; other site 1380908011436 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 1380908011437 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1380908011438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1380908011439 Zn2+ binding site [ion binding]; other site 1380908011440 Mg2+ binding site [ion binding]; other site 1380908011441 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1380908011442 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1380908011443 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1380908011444 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1380908011445 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1380908011446 cobalamin binding residues [chemical binding]; other site 1380908011447 putative BtuC binding residues; other site 1380908011448 dimer interface [polypeptide binding]; other site 1380908011449 hypothetical protein; Provisional; Region: PRK10578 1380908011450 UPF0126 domain; Region: UPF0126; pfam03458 1380908011451 UPF0126 domain; Region: UPF0126; pfam03458 1380908011452 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1380908011453 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1380908011454 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1380908011455 Cl- selectivity filter; other site 1380908011456 Cl- binding residues [ion binding]; other site 1380908011457 pore gating glutamate residue; other site 1380908011458 dimer interface [polypeptide binding]; other site 1380908011459 H+/Cl- coupling transport residue; other site 1380908011460 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1380908011461 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 1380908011462 inhibitor-cofactor binding pocket; inhibition site 1380908011463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908011464 catalytic residue [active] 1380908011465 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1380908011466 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1380908011467 siderophore binding site; other site 1380908011468 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1380908011469 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1380908011470 Walker A/P-loop; other site 1380908011471 ATP binding site [chemical binding]; other site 1380908011472 Q-loop/lid; other site 1380908011473 ABC transporter signature motif; other site 1380908011474 Walker B; other site 1380908011475 D-loop; other site 1380908011476 H-loop/switch region; other site 1380908011477 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1380908011478 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 1380908011479 N-terminal plug; other site 1380908011480 ligand-binding site [chemical binding]; other site 1380908011481 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 1380908011482 Transglycosylase; Region: Transgly; pfam00912 1380908011483 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1380908011484 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1380908011485 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 1380908011486 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1380908011487 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1380908011488 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1380908011489 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1380908011490 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1380908011491 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1380908011492 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1380908011493 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 1380908011494 Walker A motif; other site 1380908011495 ATP binding site [chemical binding]; other site 1380908011496 Walker B motif; other site 1380908011497 type II secretion system protein F; Region: GspF; TIGR02120 1380908011498 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1380908011499 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1380908011500 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1380908011501 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1380908011502 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1380908011503 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1380908011504 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1380908011505 type II secretion system protein I; Region: gspI; TIGR01707 1380908011506 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1380908011507 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1380908011508 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1380908011509 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 1380908011510 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1380908011511 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1380908011512 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1380908011513 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 1380908011514 ATP binding site [chemical binding]; other site 1380908011515 putative Mg++ binding site [ion binding]; other site 1380908011516 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 1380908011517 nucleotide binding region [chemical binding]; other site 1380908011518 ATP-binding site [chemical binding]; other site 1380908011519 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1380908011520 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1380908011521 2'-5' RNA ligase; Provisional; Region: PRK15124 1380908011522 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1380908011523 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1380908011524 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1380908011525 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 1380908011526 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1380908011527 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1380908011528 active site 1380908011529 nucleotide binding site [chemical binding]; other site 1380908011530 HIGH motif; other site 1380908011531 KMSKS motif; other site 1380908011532 poly(A) polymerase; Region: pcnB; TIGR01942 1380908011533 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1380908011534 active site 1380908011535 NTP binding site [chemical binding]; other site 1380908011536 metal binding triad [ion binding]; metal-binding site 1380908011537 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1380908011538 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1380908011539 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 1380908011540 catalytic center binding site [active] 1380908011541 ATP binding site [chemical binding]; other site 1380908011542 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 1380908011543 oligomerization interface [polypeptide binding]; other site 1380908011544 active site 1380908011545 metal binding site [ion binding]; metal-binding site 1380908011546 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1380908011547 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1380908011548 active site 1380908011549 ATP-binding site [chemical binding]; other site 1380908011550 pantoate-binding site; other site 1380908011551 HXXH motif; other site 1380908011552 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1380908011553 tetramerization interface [polypeptide binding]; other site 1380908011554 active site 1380908011555 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 1380908011556 putative active site [active] 1380908011557 putative metal binding site [ion binding]; other site 1380908011558 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 1380908011559 active pocket/dimerization site; other site 1380908011560 active site 1380908011561 phosphorylation site [posttranslational modification] 1380908011562 inner membrane transport permease; Provisional; Region: PRK15066 1380908011563 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1380908011564 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1380908011565 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1380908011566 Walker A/P-loop; other site 1380908011567 ATP binding site [chemical binding]; other site 1380908011568 Q-loop/lid; other site 1380908011569 ABC transporter signature motif; other site 1380908011570 Walker B; other site 1380908011571 D-loop; other site 1380908011572 H-loop/switch region; other site 1380908011573 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1380908011574 active site clefts [active] 1380908011575 zinc binding site [ion binding]; other site 1380908011576 dimer interface [polypeptide binding]; other site 1380908011577 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1380908011578 active site 1380908011579 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1380908011580 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1380908011581 Trp docking motif [polypeptide binding]; other site 1380908011582 putative active site [active] 1380908011583 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1380908011584 putative transposase OrfB; Reviewed; Region: PHA02517 1380908011585 HTH-like domain; Region: HTH_21; pfam13276 1380908011586 Integrase core domain; Region: rve; pfam00665 1380908011587 Integrase core domain; Region: rve_3; pfam13683 1380908011588 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1380908011589 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1380908011590 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1380908011591 spermidine synthase; Provisional; Region: PRK00811 1380908011592 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 1380908011593 S-adenosylmethionine binding site [chemical binding]; other site 1380908011594 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1380908011595 hypothetical protein; Provisional; Region: PRK05248 1380908011596 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1380908011597 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 1380908011598 substrate binding site [chemical binding]; other site 1380908011599 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1380908011600 substrate binding site [chemical binding]; other site 1380908011601 ligand binding site [chemical binding]; other site 1380908011602 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1380908011603 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1380908011604 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1380908011605 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1380908011606 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908011607 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1380908011608 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1380908011609 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 1380908011610 E3 interaction surface; other site 1380908011611 lipoyl attachment site [posttranslational modification]; other site 1380908011612 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 1380908011613 E3 interaction surface; other site 1380908011614 lipoyl attachment site [posttranslational modification]; other site 1380908011615 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 1380908011616 E3 interaction surface; other site 1380908011617 lipoyl attachment site [posttranslational modification]; other site 1380908011618 e3 binding domain; Region: E3_binding; pfam02817 1380908011619 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1380908011620 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1380908011621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908011622 DNA-binding site [nucleotide binding]; DNA binding site 1380908011623 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1380908011624 aromatic amino acid transporter; Provisional; Region: PRK10238 1380908011625 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908011626 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 1380908011627 putative substrate translocation pore; other site 1380908011628 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1380908011629 active site 1380908011630 putative major pilin subunit; Provisional; Region: PRK10574 1380908011631 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1380908011632 Pilin (bacterial filament); Region: Pilin; pfam00114 1380908011633 hypothetical protein; Provisional; Region: PRK10436 1380908011634 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 1380908011635 Walker A motif; other site 1380908011636 ATP binding site [chemical binding]; other site 1380908011637 Walker B motif; other site 1380908011638 type IV pilin biogenesis protein; Provisional; Region: PRK10573 1380908011639 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1380908011640 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1380908011641 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 1380908011642 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 1380908011643 active site 1380908011644 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1380908011645 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 1380908011646 CoA-binding site [chemical binding]; other site 1380908011647 ATP-binding [chemical binding]; other site 1380908011648 hypothetical protein; Provisional; Region: PRK05287 1380908011649 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1380908011650 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 1380908011651 active site 1380908011652 8-oxo-dGMP binding site [chemical binding]; other site 1380908011653 nudix motif; other site 1380908011654 metal binding site [ion binding]; metal-binding site 1380908011655 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1380908011656 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1380908011657 SEC-C motif; Region: SEC-C; pfam02810 1380908011658 SecA regulator SecM; Provisional; Region: PRK02943 1380908011659 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1380908011660 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1380908011661 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1380908011662 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1380908011663 Cell division protein FtsA; Region: FtsA; pfam14450 1380908011664 cell division protein FtsQ; Provisional; Region: PRK10775 1380908011665 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1380908011666 Cell division protein FtsQ; Region: FtsQ; pfam03799 1380908011667 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1380908011668 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1380908011669 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1380908011670 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1380908011671 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1380908011672 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1380908011673 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1380908011674 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1380908011675 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 1380908011676 active site 1380908011677 homodimer interface [polypeptide binding]; other site 1380908011678 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1380908011679 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1380908011680 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1380908011681 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1380908011682 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1380908011683 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1380908011684 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1380908011685 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 1380908011686 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1380908011687 mraZ protein; Region: TIGR00242 1380908011688 MraZ protein; Region: MraZ; pfam02381 1380908011689 MraZ protein; Region: MraZ; pfam02381 1380908011690 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1380908011691 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908011692 DNA binding site [nucleotide binding] 1380908011693 domain linker motif; other site 1380908011694 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1380908011695 dimerization interface [polypeptide binding]; other site 1380908011696 ligand binding site [chemical binding]; other site 1380908011697 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1380908011698 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1380908011699 putative valine binding site [chemical binding]; other site 1380908011700 dimer interface [polypeptide binding]; other site 1380908011701 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1380908011702 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 1380908011703 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908011704 PYR/PP interface [polypeptide binding]; other site 1380908011705 dimer interface [polypeptide binding]; other site 1380908011706 TPP binding site [chemical binding]; other site 1380908011707 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908011708 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 1380908011709 TPP-binding site [chemical binding]; other site 1380908011710 dimer interface [polypeptide binding]; other site 1380908011711 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1380908011712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908011713 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 1380908011714 putative substrate binding pocket [chemical binding]; other site 1380908011715 putative dimerization interface [polypeptide binding]; other site 1380908011716 2-isopropylmalate synthase; Validated; Region: PRK00915 1380908011717 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1380908011718 active site 1380908011719 catalytic residues [active] 1380908011720 metal binding site [ion binding]; metal-binding site 1380908011721 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1380908011722 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1380908011723 tartrate dehydrogenase; Region: TTC; TIGR02089 1380908011724 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1380908011725 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1380908011726 substrate binding site [chemical binding]; other site 1380908011727 ligand binding site [chemical binding]; other site 1380908011728 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1380908011729 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 1380908011730 substrate binding site [chemical binding]; other site 1380908011731 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1380908011732 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_family; cd02803 1380908011733 active site 1380908011734 FMN binding site [chemical binding]; other site 1380908011735 substrate binding site [chemical binding]; other site 1380908011736 putative catalytic residue [active] 1380908011737 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1380908011738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908011739 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1380908011740 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1380908011741 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1380908011742 shikimate binding site; other site 1380908011743 NAD(P) binding site [chemical binding]; other site 1380908011744 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 1380908011745 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908011746 putative substrate translocation pore; other site 1380908011747 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1380908011748 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1380908011749 active site 1380908011750 catalytic residue [active] 1380908011751 dimer interface [polypeptide binding]; other site 1380908011752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908011753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908011754 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1380908011755 putative dimerization interface [polypeptide binding]; other site 1380908011756 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 1380908011757 D-galactonate transporter; Region: 2A0114; TIGR00893 1380908011758 putative substrate translocation pore; other site 1380908011759 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 1380908011760 sugar efflux transporter; Region: 2A0120; TIGR00899 1380908011761 putative substrate translocation pore; other site 1380908011762 transcriptional regulator SgrR; Provisional; Region: PRK13626 1380908011763 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1380908011764 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 1380908011765 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1380908011766 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1380908011767 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1380908011768 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 1380908011769 dimer interface [polypeptide binding]; other site 1380908011770 conserved gate region; other site 1380908011771 putative PBP binding loops; other site 1380908011772 ABC-ATPase subunit interface; other site 1380908011773 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 1380908011774 dimer interface [polypeptide binding]; other site 1380908011775 conserved gate region; other site 1380908011776 putative PBP binding loops; other site 1380908011777 ABC-ATPase subunit interface; other site 1380908011778 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1380908011779 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1380908011780 Walker A/P-loop; other site 1380908011781 ATP binding site [chemical binding]; other site 1380908011782 Q-loop/lid; other site 1380908011783 ABC transporter signature motif; other site 1380908011784 Walker B; other site 1380908011785 D-loop; other site 1380908011786 H-loop/switch region; other site 1380908011787 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1380908011788 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1380908011789 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1380908011790 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908011791 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908011792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908011793 ribulokinase; Provisional; Region: PRK04123 1380908011794 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1380908011795 N- and C-terminal domain interface [polypeptide binding]; other site 1380908011796 active site 1380908011797 MgATP binding site [chemical binding]; other site 1380908011798 catalytic site [active] 1380908011799 metal binding site [ion binding]; metal-binding site 1380908011800 carbohydrate binding site [chemical binding]; other site 1380908011801 homodimer interface [polypeptide binding]; other site 1380908011802 ATP-dependent helicase HepA; Validated; Region: PRK04914 1380908011803 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 1380908011804 ATP binding site [chemical binding]; other site 1380908011805 putative Mg++ binding site [ion binding]; other site 1380908011806 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 1380908011807 nucleotide binding region [chemical binding]; other site 1380908011808 ATP-binding site [chemical binding]; other site 1380908011809 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1380908011810 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1380908011811 active site 1380908011812 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 1380908011813 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1380908011814 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1380908011815 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 1380908011816 putative active site [active] 1380908011817 heme pocket [chemical binding]; other site 1380908011818 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 1380908011819 ATP binding site [chemical binding]; other site 1380908011820 Mg2+ binding site [ion binding]; other site 1380908011821 G-X-G motif; other site 1380908011822 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1380908011823 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 1380908011824 active site 1380908011825 phosphorylation site [posttranslational modification] 1380908011826 intermolecular recognition site; other site 1380908011827 dimerization interface [polypeptide binding]; other site 1380908011828 Transcriptional regulator; Region: CitT; pfam12431 1380908011829 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1380908011830 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1380908011831 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1380908011832 putative metal binding site [ion binding]; other site 1380908011833 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 1380908011834 HSP70 interaction site [polypeptide binding]; other site 1380908011835 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1380908011836 OstA-like protein; Region: OstA; pfam03968 1380908011837 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1380908011838 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1380908011839 SurA N-terminal domain; Region: SurA_N; pfam09312 1380908011840 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1380908011841 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1380908011842 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1380908011843 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1380908011844 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1380908011845 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1380908011846 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 1380908011847 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1380908011848 active site 1380908011849 metal binding site [ion binding]; metal-binding site 1380908011850 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1380908011851 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 1380908011852 folate binding site [chemical binding]; other site 1380908011853 NADP+ binding site [chemical binding]; other site 1380908011854 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1380908011855 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1380908011856 TrkA-N domain; Region: TrkA_N; pfam02254 1380908011857 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 1380908011858 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1380908011859 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1380908011860 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1380908011861 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1380908011862 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1380908011863 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1380908011864 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1380908011865 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 1380908011866 IMP binding site; other site 1380908011867 dimer interface [polypeptide binding]; other site 1380908011868 interdomain contacts; other site 1380908011869 partial ornithine binding site; other site 1380908011870 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1380908011871 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1380908011872 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1380908011873 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 1380908011874 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1380908011875 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1380908011876 citrate lyase acyl carrier protein; Region: citD; TIGR01608 1380908011877 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 1380908011878 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 1380908011879 putative active site [active] 1380908011880 (T/H)XGH motif; other site 1380908011881 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 1380908011882 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1380908011883 oxaloacetate decarboxylase subunit beta; Provisional; Region: PRK15476 1380908011884 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1380908011885 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 1380908011886 active site 1380908011887 phosphorylation site [posttranslational modification] 1380908011888 intermolecular recognition site; other site 1380908011889 dimerization interface [polypeptide binding]; other site 1380908011890 Transcriptional regulator; Region: CitT; pfam12431 1380908011891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908011892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908011893 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 1380908011894 putative effector binding pocket; other site 1380908011895 dimerization interface [polypeptide binding]; other site 1380908011896 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 1380908011897 active site 1380908011898 tetramer interface [polypeptide binding]; other site 1380908011899 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1380908011900 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1380908011901 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1380908011902 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1380908011903 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1380908011904 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1380908011905 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1380908011906 HIGH motif; other site 1380908011907 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1380908011908 active site 1380908011909 KMSKS motif; other site 1380908011910 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1380908011911 tRNA binding surface [nucleotide binding]; other site 1380908011912 anticodon binding site; other site 1380908011913 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1380908011914 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1380908011915 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1380908011916 active site 1380908011917 Riboflavin kinase; Region: Flavokinase; smart00904 1380908011918 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1380908011919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908011920 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1380908011921 putative dimerization interface [polypeptide binding]; other site 1380908011922 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 1380908011923 chaperone protein DnaJ; Provisional; Region: PRK10767 1380908011924 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 1380908011925 HSP70 interaction site [polypeptide binding]; other site 1380908011926 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1380908011927 substrate binding site [polypeptide binding]; other site 1380908011928 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1380908011929 Zn binding sites [ion binding]; other site 1380908011930 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1380908011931 dimer interface [polypeptide binding]; other site 1380908011932 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1380908011933 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1380908011934 nucleotide binding site [chemical binding]; other site 1380908011935 hypothetical protein; Provisional; Region: PRK10154 1380908011936 hypothetical protein; Provisional; Region: PRK10236 1380908011937 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1380908011938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1380908011939 metabolite-proton symporter; Region: 2A0106; TIGR00883 1380908011940 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 1380908011941 putative substrate translocation pore; other site 1380908011942 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 1380908011943 MPT binding site; other site 1380908011944 trimer interface [polypeptide binding]; other site 1380908011945 transaldolase-like protein; Provisional; Region: PTZ00411 1380908011946 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1380908011947 active site 1380908011948 dimer interface [polypeptide binding]; other site 1380908011949 catalytic residue [active] 1380908011950 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1380908011951 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1380908011952 hypothetical protein; Validated; Region: PRK02101 1380908011953 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1380908011954 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 1380908011955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908011956 catalytic residue [active] 1380908011957 homoserine kinase; Provisional; Region: PRK01212 1380908011958 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1380908011959 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1380908011960 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1380908011961 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1380908011962 putative aspartate binding site [chemical binding]; other site 1380908011963 putative catalytic residues [active] 1380908011964 putative nucleotide binding site [chemical binding]; other site 1380908011965 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1380908011966 dimer interface [polypeptide binding]; other site 1380908011967 putative threonine allosteric regulatory site; other site 1380908011968 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1380908011969 putative threonine allosteric regulatory site; other site 1380908011970 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1380908011971 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1380908011972 putative RNA methyltransferase; Provisional; Region: PRK10433 1380908011973 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 1380908011974 two-component response regulator; Provisional; Region: PRK11173 1380908011975 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 1380908011976 active site 1380908011977 phosphorylation site [posttranslational modification] 1380908011978 intermolecular recognition site; other site 1380908011979 dimerization interface [polypeptide binding]; other site 1380908011980 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 1380908011981 DNA binding site [nucleotide binding] 1380908011982 sensory histidine kinase CreC; Provisional; Region: PRK11100 1380908011983 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 1380908011984 dimer interface [polypeptide binding]; other site 1380908011985 phosphorylation site [posttranslational modification] 1380908011986 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 1380908011987 ATP binding site [chemical binding]; other site 1380908011988 Mg2+ binding site [ion binding]; other site 1380908011989 G-X-G motif; other site 1380908011990 hypothetical protein; Provisional; Region: PRK10756 1380908011991 CreA protein; Region: CreA; pfam05981 1380908011992 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1380908011993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908011994 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1380908011995 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 1380908011996 catalytic core [active] 1380908011997 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1380908011998 Trp operon repressor; Provisional; Region: PRK01381 1380908011999 lytic murein transglycosylase; Provisional; Region: PRK11619 1380908012000 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 1380908012001 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908012002 catalytic residue [active] 1380908012003 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1380908012004 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908012005 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908012006 ABC transporter; Region: ABC_tran_2; pfam12848 1380908012007 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1380908012008 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 1380908012009 non-specific DNA binding site [nucleotide binding]; other site 1380908012010 salt bridge; other site 1380908012011 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1380908012012 sequence-specific DNA binding site [nucleotide binding]; other site 1380908012013 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 1380908012014 active site 1380908012015 (T/H)XGH motif; other site 1380908012016 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1380908012017 DNA repair protein RadA; Region: sms; TIGR00416 1380908012018 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 1380908012019 Walker A motif/ATP binding site; other site 1380908012020 ATP binding site [chemical binding]; other site 1380908012021 Walker B motif; other site 1380908012022 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1380908012023 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1380908012024 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1380908012025 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1380908012026 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1380908012027 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1380908012028 phosphopentomutase; Provisional; Region: PRK05362 1380908012029 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1380908012030 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1380908012031 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1380908012032 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1380908012033 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1380908012034 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1380908012035 intersubunit interface [polypeptide binding]; other site 1380908012036 active site 1380908012037 catalytic residue [active] 1380908012038 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1380908012039 active site 1380908012040 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1380908012041 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1380908012042 active site 1380908012043 nucleophile elbow; other site 1380908012044 periplasmic protein; Provisional; Region: PRK10568 1380908012045 BON domain; Region: BON; pfam04972 1380908012046 BON domain; Region: BON; cl02771 1380908012047 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1380908012048 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1380908012049 G1 box; other site 1380908012050 putative GEF interaction site [polypeptide binding]; other site 1380908012051 GTP/Mg2+ binding site [chemical binding]; other site 1380908012052 Switch I region; other site 1380908012053 G2 box; other site 1380908012054 G3 box; other site 1380908012055 Switch II region; other site 1380908012056 G4 box; other site 1380908012057 G5 box; other site 1380908012058 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 1380908012059 dUMP phosphatase; Provisional; Region: PRK09449 1380908012060 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 1380908012061 motif II; other site 1380908012062 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1380908012063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908012064 Coenzyme A binding pocket [chemical binding]; other site 1380908012065 DNA polymerase III subunit psi; Validated; Region: PRK06856 1380908012066 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1380908012067 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1380908012068 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 1380908012069 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 1380908012070 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 1380908012071 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1380908012072 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1380908012073 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1380908012074 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908012075 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 1380908012076 putative deacylase active site [active] 1380908012077 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 1380908012078 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 1380908012079 DNA binding residues [nucleotide binding] 1380908012080 dimerization interface [polypeptide binding]; other site 1380908012081 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1380908012082 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1380908012083 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1380908012084 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1380908012085 hypothetical protein; Provisional; Region: PRK09917 1380908012086 primosomal protein DnaI; Provisional; Region: PRK02854 1380908012087 DNA replication protein DnaC; Validated; Region: PRK07952 1380908012088 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 1380908012089 Walker A motif; other site 1380908012090 ATP binding site [chemical binding]; other site 1380908012091 Walker B motif; other site 1380908012092 hypothetical protein; Provisional; Region: PRK11667 1380908012093 putative transposase; Provisional; Region: PRK09857 1380908012094 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1380908012095 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1380908012096 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1380908012097 putative active site [active] 1380908012098 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1380908012099 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1380908012100 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 1380908012101 dimer interface [polypeptide binding]; other site 1380908012102 active site 1380908012103 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 1380908012104 dimer interface [polypeptide binding]; other site 1380908012105 active site 1380908012106 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1380908012107 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1380908012108 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 1380908012109 active pocket/dimerization site; other site 1380908012110 active site 1380908012111 phosphorylation site [posttranslational modification] 1380908012112 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1380908012113 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 1380908012114 Walker A motif; other site 1380908012115 ATP binding site [chemical binding]; other site 1380908012116 Walker B motif; other site 1380908012117 arginine finger; other site 1380908012118 Transcriptional antiterminator [Transcription]; Region: COG3933 1380908012119 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 1380908012120 active pocket/dimerization site; other site 1380908012121 active site 1380908012122 phosphorylation site [posttranslational modification] 1380908012123 PRD domain; Region: PRD; pfam00874 1380908012124 altronate oxidoreductase; Provisional; Region: PRK03643 1380908012125 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1380908012126 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1380908012127 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1380908012128 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1380908012129 putative NAD(P) binding site [chemical binding]; other site 1380908012130 catalytic Zn binding site [ion binding]; other site 1380908012131 structural Zn binding site [ion binding]; other site 1380908012132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908012133 DNA-binding site [nucleotide binding]; DNA binding site 1380908012134 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1380908012135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1380908012136 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1380908012137 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1380908012138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908012139 Coenzyme A binding pocket [chemical binding]; other site 1380908012140 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908012141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908012142 Coenzyme A binding pocket [chemical binding]; other site 1380908012143 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908012144 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908012145 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 1380908012146 putative active site [active] 1380908012147 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1380908012148 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1380908012149 active site 1380908012150 intersubunit interface [polypeptide binding]; other site 1380908012151 catalytic residue [active] 1380908012152 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1380908012153 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1380908012154 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1380908012155 Na binding site [ion binding]; other site 1380908012156 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 1380908012157 homotrimer interaction site [polypeptide binding]; other site 1380908012158 putative active site [active] 1380908012159 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1380908012160 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1380908012161 active site 1380908012162 putative substrate binding pocket [chemical binding]; other site 1380908012163 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1380908012164 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1380908012165 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1380908012166 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1380908012167 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1380908012168 NAD binding site [chemical binding]; other site 1380908012169 catalytic residues [active] 1380908012170 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1380908012171 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1380908012172 putative active site [active] 1380908012173 putative metal binding site [ion binding]; other site 1380908012174 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 1380908012175 putative substrate binding pocket [chemical binding]; other site 1380908012176 trimer interface [polypeptide binding]; other site 1380908012177 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1380908012178 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1380908012179 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1380908012180 Cupin domain; Region: Cupin_2; pfam07883 1380908012181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908012182 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 1380908012183 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1380908012184 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 1380908012185 Uncharacterized small protein [Function unknown]; Region: COG2879 1380908012186 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1380908012187 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1380908012188 P-loop, Walker A motif; other site 1380908012189 Base recognition motif; other site 1380908012190 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1380908012191 YfaZ precursor; Region: YfaZ; pfam07437 1380908012192 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1380908012193 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1380908012194 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1380908012195 NAD(P) binding site [chemical binding]; other site 1380908012196 catalytic residues [active] 1380908012197 hypothetical protein; Provisional; Region: PRK09956 1380908012198 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1380908012199 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908012200 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908012201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908012202 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1380908012203 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 1380908012204 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 1380908012205 putative substrate translocation pore; other site 1380908012206 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 1380908012207 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 1380908012208 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1380908012209 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1380908012210 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 1380908012211 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1380908012212 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1380908012213 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1380908012214 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908012215 transcriptional regulator SlyA; Provisional; Region: PRK03573 1380908012216 MarR family; Region: MarR_2; cl17246 1380908012217 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1380908012218 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 1380908012219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908012220 DNA-binding site [nucleotide binding]; DNA binding site 1380908012221 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 1380908012222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908012223 homodimer interface [polypeptide binding]; other site 1380908012224 catalytic residue [active] 1380908012225 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1380908012226 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 1380908012227 dimer interface [polypeptide binding]; other site 1380908012228 Mn binding site [ion binding]; other site 1380908012229 K binding site [ion binding]; other site 1380908012230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908012231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908012232 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_3; cd08461 1380908012233 putative substrate binding pocket [chemical binding]; other site 1380908012234 putative dimerization interface [polypeptide binding]; other site 1380908012235 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1380908012236 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1380908012237 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908012238 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 1380908012239 TM-ABC transporter signature motif; other site 1380908012240 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 1380908012241 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908012242 TM-ABC transporter signature motif; other site 1380908012243 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908012244 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908012245 Walker A/P-loop; other site 1380908012246 ATP binding site [chemical binding]; other site 1380908012247 Q-loop/lid; other site 1380908012248 ABC transporter signature motif; other site 1380908012249 Walker B; other site 1380908012250 D-loop; other site 1380908012251 H-loop/switch region; other site 1380908012252 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908012253 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1380908012254 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1380908012255 ligand binding site [chemical binding]; other site 1380908012256 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1380908012257 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1380908012258 active site 1380908012259 HIGH motif; other site 1380908012260 dimer interface [polypeptide binding]; other site 1380908012261 KMSKS motif; other site 1380908012262 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1380908012263 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1380908012264 Walker A/P-loop; other site 1380908012265 ATP binding site [chemical binding]; other site 1380908012266 Q-loop/lid; other site 1380908012267 ABC transporter signature motif; other site 1380908012268 Walker B; other site 1380908012269 D-loop; other site 1380908012270 H-loop/switch region; other site 1380908012271 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1380908012272 Walker A/P-loop; other site 1380908012273 ATP binding site [chemical binding]; other site 1380908012274 Q-loop/lid; other site 1380908012275 ABC transporter signature motif; other site 1380908012276 Walker B; other site 1380908012277 D-loop; other site 1380908012278 H-loop/switch region; other site 1380908012279 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1380908012280 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1380908012281 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1380908012282 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1380908012283 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1380908012284 sensor kinase CusS; Provisional; Region: PRK09835 1380908012285 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 1380908012286 dimerization interface [polypeptide binding]; other site 1380908012287 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 1380908012288 dimer interface [polypeptide binding]; other site 1380908012289 phosphorylation site [posttranslational modification] 1380908012290 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 1380908012291 ATP binding site [chemical binding]; other site 1380908012292 Mg2+ binding site [ion binding]; other site 1380908012293 G-X-G motif; other site 1380908012294 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1380908012295 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 1380908012296 active site 1380908012297 phosphorylation site [posttranslational modification] 1380908012298 intermolecular recognition site; other site 1380908012299 dimerization interface [polypeptide binding]; other site 1380908012300 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 1380908012301 DNA binding site [nucleotide binding] 1380908012302 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1380908012303 periplasmic copper-binding protein; Provisional; Region: PRK09838 1380908012304 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1380908012305 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908012306 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1380908012307 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1380908012308 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1380908012309 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1380908012310 short chain dehydrogenase; Provisional; Region: PRK06101 1380908012311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1380908012312 NAD(P) binding site [chemical binding]; other site 1380908012313 active site 1380908012314 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1380908012315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1380908012316 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1380908012317 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 1380908012318 S-adenosylmethionine binding site [chemical binding]; other site 1380908012319 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1380908012320 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1380908012321 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1380908012322 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1380908012323 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1380908012324 xylose isomerase; Provisional; Region: PRK05474 1380908012325 xylose isomerase; Region: xylose_isom_A; TIGR02630 1380908012326 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1380908012327 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1380908012328 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1380908012329 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1380908012330 inhibitor binding site; inhibition site 1380908012331 active site 1380908012332 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 1380908012333 active site 1380908012334 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 1380908012335 HNH endonuclease; Region: HNH_2; pfam13391 1380908012336 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1380908012337 Protein of unknown function (DUF796); Region: DUF796; cl01226 1380908012338 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1380908012339 putative active site [active] 1380908012340 catalytic site [active] 1380908012341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1380908012342 Integrase core domain; Region: rve; pfam00665 1380908012343 Integrase core domain; Region: rve_3; pfam13683 1380908012344 Transposase; Region: HTH_Tnp_1; pfam01527 1380908012345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1380908012346 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 1380908012347 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 1380908012348 D5 N terminal like; Region: D5_N; smart00885 1380908012349 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1380908012350 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1380908012351 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1380908012352 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1380908012353 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 1380908012354 integrase; Provisional; Region: PRK09692 1380908012355 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 1380908012356 active site 1380908012357 Int/Topo IB signature motif; other site 1380908012358 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1380908012359 active site clefts [active] 1380908012360 zinc binding site [ion binding]; other site 1380908012361 dimer interface [polypeptide binding]; other site 1380908012362 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1380908012363 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1380908012364 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1380908012365 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1380908012366 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1380908012367 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 1380908012368 dimer interface [polypeptide binding]; other site 1380908012369 conserved gate region; other site 1380908012370 putative PBP binding loops; other site 1380908012371 ABC-ATPase subunit interface; other site 1380908012372 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1380908012373 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1380908012374 active site 1380908012375 metal binding site [ion binding]; metal-binding site 1380908012376 hexamer interface [polypeptide binding]; other site 1380908012377 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1380908012378 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1380908012379 Walker A/P-loop; other site 1380908012380 ATP binding site [chemical binding]; other site 1380908012381 Q-loop/lid; other site 1380908012382 ABC transporter signature motif; other site 1380908012383 Walker B; other site 1380908012384 D-loop; other site 1380908012385 H-loop/switch region; other site 1380908012386 TOBE domain; Region: TOBE_2; pfam08402 1380908012387 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1380908012388 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1380908012389 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1380908012390 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1380908012391 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1380908012392 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1380908012393 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1380908012394 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908012395 PYR/PP interface [polypeptide binding]; other site 1380908012396 dimer interface [polypeptide binding]; other site 1380908012397 TPP binding site [chemical binding]; other site 1380908012398 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908012399 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1380908012400 TPP-binding site; other site 1380908012401 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908012402 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 1380908012403 substrate binding site [chemical binding]; other site 1380908012404 ATP binding site [chemical binding]; other site 1380908012405 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1380908012406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1380908012407 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908012408 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908012409 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 1380908012410 putative active site [active] 1380908012411 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1380908012412 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1380908012413 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1380908012414 tetrameric interface [polypeptide binding]; other site 1380908012415 NAD binding site [chemical binding]; other site 1380908012416 catalytic residues [active] 1380908012417 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 1380908012418 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1380908012419 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1380908012420 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 1380908012421 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1380908012422 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1380908012423 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 1380908012424 interface (dimer of trimers) [polypeptide binding]; other site 1380908012425 Substrate-binding/catalytic site; other site 1380908012426 Zn-binding sites [ion binding]; other site 1380908012427 DNA polymerase III subunit chi; Validated; Region: PRK05728 1380908012428 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1380908012429 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1380908012430 HIGH motif; other site 1380908012431 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1380908012432 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1380908012433 active site 1380908012434 KMSKS motif; other site 1380908012435 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1380908012436 tRNA binding surface [nucleotide binding]; other site 1380908012437 anticodon binding site; other site 1380908012438 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1380908012439 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1380908012440 active site 1380908012441 dinuclear metal binding site [ion binding]; other site 1380908012442 dimerization interface [polypeptide binding]; other site 1380908012443 RNase E inhibitor protein; Provisional; Region: PRK11191 1380908012444 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 1380908012445 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1380908012446 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1380908012447 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1380908012448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908012449 DNA-binding site [nucleotide binding]; DNA binding site 1380908012450 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1380908012451 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1380908012452 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1380908012453 active site 1380908012454 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908012455 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1380908012456 substrate binding site [chemical binding]; other site 1380908012457 ATP binding site [chemical binding]; other site 1380908012458 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1380908012459 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1380908012460 putative active site [active] 1380908012461 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 1380908012462 dimer interface [polypeptide binding]; other site 1380908012463 active site 1380908012464 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1380908012465 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 1380908012466 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1380908012467 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1380908012468 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1380908012469 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1380908012470 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1380908012471 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 1380908012472 homotrimer interaction site [polypeptide binding]; other site 1380908012473 putative active site [active] 1380908012474 trehalose repressor; Provisional; Region: treR; PRK09492 1380908012475 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908012476 DNA binding site [nucleotide binding] 1380908012477 domain linker motif; other site 1380908012478 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1380908012479 dimerization interface [polypeptide binding]; other site 1380908012480 ligand binding site [chemical binding]; other site 1380908012481 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 1380908012482 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1380908012483 active site turn [active] 1380908012484 phosphorylation site [posttranslational modification] 1380908012485 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1380908012486 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1380908012487 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1380908012488 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1380908012489 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1380908012490 NAD binding site [chemical binding]; other site 1380908012491 sugar binding site [chemical binding]; other site 1380908012492 divalent metal binding site [ion binding]; other site 1380908012493 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908012494 dimer interface [polypeptide binding]; other site 1380908012495 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1380908012496 active site 1380908012497 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1380908012498 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1380908012499 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 1380908012500 putative active site [active] 1380908012501 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1380908012502 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 1380908012503 FeS/SAM binding site; other site 1380908012504 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1380908012505 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1380908012506 HTH domain; Region: HTH_11; pfam08279 1380908012507 Mga helix-turn-helix domain; Region: Mga; pfam05043 1380908012508 PRD domain; Region: PRD; pfam00874 1380908012509 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1380908012510 active site 1380908012511 P-loop; other site 1380908012512 phosphorylation site [posttranslational modification] 1380908012513 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 1380908012514 active site 1380908012515 phosphorylation site [posttranslational modification] 1380908012516 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1380908012517 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 1380908012518 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 1380908012519 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1380908012520 catalytic residue [active] 1380908012521 dihydroorotase; Provisional; Region: PRK09237 1380908012522 Metallo-dependent hydrolases, subgroup B 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_B; cd01307 1380908012523 active site 1380908012524 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 1380908012525 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 1380908012526 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 1380908012527 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; cl11916 1380908012528 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 1380908012529 Cytochrome b562; Region: Cytochrom_B562; cl01546 1380908012530 peptidase PmbA; Provisional; Region: PRK11040 1380908012531 hypothetical protein; Provisional; Region: PRK05255 1380908012532 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1380908012533 active site 1380908012534 catalytic residues [active] 1380908012535 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1380908012536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908012537 Coenzyme A binding pocket [chemical binding]; other site 1380908012538 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1380908012539 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1380908012540 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1380908012541 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1380908012542 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 1380908012543 AMP binding site [chemical binding]; other site 1380908012544 metal binding site [ion binding]; metal-binding site 1380908012545 active site 1380908012546 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908012547 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 1380908012548 TM-ABC transporter signature motif; other site 1380908012549 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908012550 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 1380908012551 TM-ABC transporter signature motif; other site 1380908012552 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1380908012553 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1380908012554 putative ligand binding site [chemical binding]; other site 1380908012555 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 1380908012556 dimer interface [polypeptide binding]; other site 1380908012557 substrate binding site [chemical binding]; other site 1380908012558 metal binding sites [ion binding]; metal-binding site 1380908012559 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1380908012560 putative active site pocket [active] 1380908012561 dimerization interface [polypeptide binding]; other site 1380908012562 putative catalytic residue [active] 1380908012563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1380908012564 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1380908012565 Family of unknown function (DUF490); Region: DUF490; pfam04357 1380908012566 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1380908012567 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1380908012568 Surface antigen; Region: Bac_surface_Ag; pfam01103 1380908012569 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1380908012570 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1380908012571 Domain of unknown function DUF21; Region: DUF21; pfam01595 1380908012572 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 1380908012573 Transporter associated domain; Region: CorC_HlyC; smart01091 1380908012574 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 1380908012575 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 1380908012576 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1380908012577 active site 1380908012578 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1380908012579 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1380908012580 active site 1380908012581 metal binding site [ion binding]; metal-binding site 1380908012582 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1380908012583 Predicted transcriptional regulators [Transcription]; Region: COG1733 1380908012584 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1380908012585 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1380908012586 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1380908012587 NADP binding site [chemical binding]; other site 1380908012588 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908012589 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1380908012590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908012591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908012592 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1380908012593 EamA-like transporter family; Region: EamA; pfam00892 1380908012594 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1380908012595 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1380908012596 Hemerythrin-like domain; Region: Hr-like; cd12108 1380908012597 Fe binding site [ion binding]; other site 1380908012598 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1380908012599 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 1380908012600 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1380908012601 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1380908012602 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1380908012603 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1380908012604 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1380908012605 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1380908012606 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1380908012607 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908012608 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 1380908012609 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1380908012610 putative substrate translocation pore; other site 1380908012611 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1380908012612 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1380908012613 intersubunit interface [polypeptide binding]; other site 1380908012614 active site 1380908012615 Zn2+ binding site [ion binding]; other site 1380908012616 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 1380908012617 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1380908012618 AP (apurinic/apyrimidinic) site pocket; other site 1380908012619 DNA interaction; other site 1380908012620 Metal-binding active site; metal-binding site 1380908012621 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1380908012622 active site 1380908012623 dimer interface [polypeptide binding]; other site 1380908012624 magnesium binding site [ion binding]; other site 1380908012625 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 1380908012626 active site 1380908012627 phosphorylation site [posttranslational modification] 1380908012628 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1380908012629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1380908012630 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1380908012631 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1380908012632 transcriptional repressor UlaR; Provisional; Region: PRK13509 1380908012633 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1380908012634 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1380908012635 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 1380908012636 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1380908012637 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1380908012638 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1380908012639 active site 1380908012640 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1380908012641 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1380908012642 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1380908012643 exoribonuclease R; Provisional; Region: PRK11642 1380908012644 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1380908012645 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1380908012646 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1380908012647 RNB domain; Region: RNB; pfam00773 1380908012648 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 1380908012649 RNA binding site [nucleotide binding]; other site 1380908012650 Predicted transcriptional regulator [Transcription]; Region: COG1959 1380908012651 transcriptional repressor NsrR; Provisional; Region: PRK11014 1380908012652 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1380908012653 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 1380908012654 GDP-binding site [chemical binding]; other site 1380908012655 ACT binding site; other site 1380908012656 IMP binding site; other site 1380908012657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1380908012658 FtsH protease regulator HflC; Provisional; Region: PRK11029 1380908012659 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 1380908012660 FtsH protease regulator HflK; Provisional; Region: PRK10930 1380908012661 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1380908012662 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 1380908012663 GTPase HflX; Provisional; Region: PRK11058 1380908012664 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1380908012665 HflX GTPase family; Region: HflX; cd01878 1380908012666 G1 box; other site 1380908012667 GTP/Mg2+ binding site [chemical binding]; other site 1380908012668 Switch I region; other site 1380908012669 G2 box; other site 1380908012670 G3 box; other site 1380908012671 Switch II region; other site 1380908012672 G4 box; other site 1380908012673 G5 box; other site 1380908012674 bacterial Hfq-like; Region: Hfq; cd01716 1380908012675 hexamer interface [polypeptide binding]; other site 1380908012676 Sm1 motif; other site 1380908012677 RNA binding site [nucleotide binding]; other site 1380908012678 Sm2 motif; other site 1380908012679 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1380908012680 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1380908012681 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1380908012682 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 1380908012683 ATP binding site [chemical binding]; other site 1380908012684 Mg2+ binding site [ion binding]; other site 1380908012685 G-X-G motif; other site 1380908012686 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 1380908012687 ATP binding site [chemical binding]; other site 1380908012688 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1380908012689 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1380908012690 AMIN domain; Region: AMIN; pfam11741 1380908012691 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 1380908012692 active site 1380908012693 metal binding site [ion binding]; metal-binding site 1380908012694 ADP-binding protein; Provisional; Region: PRK10646 1380908012695 putative carbohydrate kinase; Provisional; Region: PRK10565 1380908012696 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1380908012697 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 1380908012698 putative substrate binding site [chemical binding]; other site 1380908012699 putative ATP binding site [chemical binding]; other site 1380908012700 epoxyqueuosine reductase; Region: TIGR00276 1380908012701 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1380908012702 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1380908012703 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 1380908012704 substrate binding pocket [chemical binding]; other site 1380908012705 membrane-bound complex binding site; other site 1380908012706 hinge residues; other site 1380908012707 GTPase RsgA; Reviewed; Region: PRK12288 1380908012708 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1380908012709 RNA binding site [nucleotide binding]; other site 1380908012710 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1380908012711 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1380908012712 GTP/Mg2+ binding site [chemical binding]; other site 1380908012713 G4 box; other site 1380908012714 G5 box; other site 1380908012715 G1 box; other site 1380908012716 Switch I region; other site 1380908012717 G2 box; other site 1380908012718 G3 box; other site 1380908012719 Switch II region; other site 1380908012720 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1380908012721 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1380908012722 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 1380908012723 putative YPXnL-motif binding site; other site 1380908012724 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1380908012725 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1380908012726 inner membrane transporter YjeM; Provisional; Region: PRK15238 1380908012727 poxB regulator PoxA; Provisional; Region: PRK09350 1380908012728 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 1380908012729 motif 1; other site 1380908012730 dimer interface [polypeptide binding]; other site 1380908012731 active site 1380908012732 motif 2; other site 1380908012733 motif 3; other site 1380908012734 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1380908012735 L-aspartate oxidase; Provisional; Region: PRK06175 1380908012736 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1380908012737 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1380908012738 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1380908012739 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1380908012740 D-subunit interface [polypeptide binding]; other site 1380908012741 Iron-sulfur protein interface; other site 1380908012742 proximal quinone binding site [chemical binding]; other site 1380908012743 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1380908012744 Iron-sulfur protein interface; other site 1380908012745 proximal quinone binding site [chemical binding]; other site 1380908012746 C-subunit interface; other site 1380908012747 distal quinone binding site; other site 1380908012748 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1380908012749 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1380908012750 Predicted small secreted protein [Function unknown]; Region: COG5510 1380908012751 elongation factor P; Validated; Region: PRK00529 1380908012752 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1380908012753 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 1380908012754 RNA binding site [nucleotide binding]; other site 1380908012755 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 1380908012756 RNA binding site [nucleotide binding]; other site 1380908012757 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 1380908012758 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1380908012759 FeS/SAM binding site; other site 1380908012760 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1380908012761 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1380908012762 DNA binding site [nucleotide binding] 1380908012763 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908012764 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 1380908012765 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908012766 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908012767 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908012768 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908012769 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908012770 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908012771 Fimbrial protein; Region: Fimbrial; pfam00419 1380908012772 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1380908012773 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1380908012774 HlyD family secretion protein; Region: HlyD_3; pfam13437 1380908012775 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1380908012776 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_C39C; cd02419 1380908012777 putative active site [active] 1380908012778 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1380908012779 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1380908012780 Walker A/P-loop; other site 1380908012781 ATP binding site [chemical binding]; other site 1380908012782 Q-loop/lid; other site 1380908012783 ABC transporter signature motif; other site 1380908012784 Walker B; other site 1380908012785 D-loop; other site 1380908012786 H-loop/switch region; other site 1380908012787 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1380908012788 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1380908012789 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 1380908012790 ring oligomerisation interface [polypeptide binding]; other site 1380908012791 ATP/Mg binding site [chemical binding]; other site 1380908012792 stacking interactions; other site 1380908012793 hinge regions; other site 1380908012794 putative transporter; Provisional; Region: PRK11021 1380908012795 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1380908012796 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1380908012797 Aspartase; Region: Aspartase; cd01357 1380908012798 active sites [active] 1380908012799 tetramer interface [polypeptide binding]; other site 1380908012800 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1380908012801 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1380908012802 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 1380908012803 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1380908012804 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1380908012805 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1380908012806 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 1380908012807 DsbD alpha interface [polypeptide binding]; other site 1380908012808 catalytic residues [active] 1380908012809 putative transcriptional regulator; Provisional; Region: PRK11640 1380908012810 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1380908012811 PerC transcriptional activator; Region: PerC; pfam06069 1380908012812 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1380908012813 dimerization interface [polypeptide binding]; other site 1380908012814 DNA binding residues [nucleotide binding] 1380908012815 N-glycosyltransferase; Provisional; Region: PRK11204 1380908012816 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1380908012817 DXD motif; other site 1380908012818 hemin storage system protein; Provisional; Region: hmsS; PRK14584 1380908012819 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1380908012820 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1380908012821 catalytic residues [active] 1380908012822 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1380908012823 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1380908012824 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 1380908012825 HSP70 interaction site [polypeptide binding]; other site 1380908012826 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1380908012827 substrate binding site [polypeptide binding]; other site 1380908012828 dimer interface [polypeptide binding]; other site 1380908012829 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1380908012830 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1380908012831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1380908012832 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908012833 Helix-turn-helix domain; Region: HTH_28; pfam13518 1380908012834 putative transposase OrfB; Reviewed; Region: PHA02517 1380908012835 HTH-like domain; Region: HTH_21; pfam13276 1380908012836 Integrase core domain; Region: rve; pfam00665 1380908012837 Integrase core domain; Region: rve_2; pfam13333 1380908012838 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 1380908012839 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1380908012840 PRTRC system protein D; Region: PRTRC_D; TIGR03739 1380908012841 Mg binding site [ion binding]; other site 1380908012842 nucleotide binding site [chemical binding]; other site 1380908012843 putative protofilament interface [polypeptide binding]; other site 1380908012844 melibiose:sodium symporter; Provisional; Region: PRK10429 1380908012845 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1380908012846 alpha-galactosidase; Provisional; Region: PRK15076 1380908012847 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1380908012848 NAD binding site [chemical binding]; other site 1380908012849 sugar binding site [chemical binding]; other site 1380908012850 divalent metal binding site [ion binding]; other site 1380908012851 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908012852 dimer interface [polypeptide binding]; other site 1380908012853 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 1380908012854 Cupin domain; Region: Cupin_2; cl17218 1380908012855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908012856 proline/glycine betaine transporter; Provisional; Region: PRK10642 1380908012857 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 1380908012858 putative substrate translocation pore; other site 1380908012859 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1380908012860 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1380908012861 PhnA protein; Region: PhnA; pfam03831 1380908012862 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 1380908012863 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1380908012864 dimer interface [polypeptide binding]; other site 1380908012865 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 1380908012866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908012867 DNA-binding site [nucleotide binding]; DNA binding site 1380908012868 UTRA domain; Region: UTRA; pfam07702 1380908012869 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1380908012870 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 1380908012871 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1380908012872 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 1380908012873 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1380908012874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908012875 Walker A/P-loop; other site 1380908012876 ATP binding site [chemical binding]; other site 1380908012877 Q-loop/lid; other site 1380908012878 ABC transporter signature motif; other site 1380908012879 Walker B; other site 1380908012880 D-loop; other site 1380908012881 H-loop/switch region; other site 1380908012882 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1380908012883 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1380908012884 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1380908012885 active site 1380908012886 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 1380908012887 active site 1380908012888 putative hydrolase; Provisional; Region: PRK02113 1380908012889 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1380908012890 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 1380908012891 dimerization interface [polypeptide binding]; other site 1380908012892 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 1380908012893 dimer interface [polypeptide binding]; other site 1380908012894 phosphorylation site [posttranslational modification] 1380908012895 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 1380908012896 ATP binding site [chemical binding]; other site 1380908012897 Mg2+ binding site [ion binding]; other site 1380908012898 G-X-G motif; other site 1380908012899 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 1380908012900 active site 1380908012901 phosphorylation site [posttranslational modification] 1380908012902 intermolecular recognition site; other site 1380908012903 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908012904 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908012905 Walker A/P-loop; other site 1380908012906 ATP binding site [chemical binding]; other site 1380908012907 Q-loop/lid; other site 1380908012908 ABC transporter signature motif; other site 1380908012909 Walker B; other site 1380908012910 D-loop; other site 1380908012911 H-loop/switch region; other site 1380908012912 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908012913 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908012914 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 1380908012915 TM-ABC transporter signature motif; other site 1380908012916 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1380908012917 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1380908012918 putative ligand binding site [chemical binding]; other site 1380908012919 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1380908012920 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1380908012921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1380908012922 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 1380908012923 active site 1380908012924 phosphorylation site [posttranslational modification] 1380908012925 intermolecular recognition site; other site 1380908012926 dimerization interface [polypeptide binding]; other site 1380908012927 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 1380908012928 DNA binding site [nucleotide binding] 1380908012929 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1380908012930 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1380908012931 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1380908012932 acetyl-CoA synthetase; Provisional; Region: PRK00174 1380908012933 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1380908012934 active site 1380908012935 CoA binding site [chemical binding]; other site 1380908012936 acyl-activating enzyme (AAE) consensus motif; other site 1380908012937 AMP binding site [chemical binding]; other site 1380908012938 acetate binding site [chemical binding]; other site 1380908012939 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1380908012940 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1380908012941 Na binding site [ion binding]; other site 1380908012942 putative major fimbrial protein SthE; Provisional; Region: PRK15292 1380908012943 Fimbrial protein; Region: Fimbrial; cl01416 1380908012944 Fimbrial protein; Region: Fimbrial; cl01416 1380908012945 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1380908012946 PapC N-terminal domain; Region: PapC_N; pfam13954 1380908012947 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1380908012948 PapC C-terminal domain; Region: PapC_C; pfam13953 1380908012949 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 1380908012950 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1380908012951 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1380908012952 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1380908012953 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1380908012954 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1380908012955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908012956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908012957 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1380908012958 putative dimerization interface [polypeptide binding]; other site 1380908012959 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1380908012960 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1380908012961 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1380908012962 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1380908012963 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1380908012964 putative C-terminal domain interface [polypeptide binding]; other site 1380908012965 putative GSH binding site (G-site) [chemical binding]; other site 1380908012966 putative dimer interface [polypeptide binding]; other site 1380908012967 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1380908012968 putative N-terminal domain interface [polypeptide binding]; other site 1380908012969 putative dimer interface [polypeptide binding]; other site 1380908012970 putative substrate binding pocket (H-site) [chemical binding]; other site 1380908012971 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 1380908012972 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1380908012973 DNA binding residues [nucleotide binding] 1380908012974 dimer interface [polypeptide binding]; other site 1380908012975 [2Fe-2S] cluster binding site [ion binding]; other site 1380908012976 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1380908012977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908012978 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1380908012979 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1380908012980 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 1380908012981 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1380908012982 hypothetical protein; Provisional; Region: PRK11622 1380908012983 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1380908012984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1380908012985 Walker A/P-loop; other site 1380908012986 ATP binding site [chemical binding]; other site 1380908012987 Q-loop/lid; other site 1380908012988 ABC transporter signature motif; other site 1380908012989 Walker B; other site 1380908012990 D-loop; other site 1380908012991 H-loop/switch region; other site 1380908012992 TOBE domain; Region: TOBE_2; pfam08402 1380908012993 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1380908012994 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908012995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1380908012996 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1380908012997 putative dimerization interface [polypeptide binding]; other site 1380908012998 putative ligand binding site [chemical binding]; other site 1380908012999 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1380908013000 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1380908013001 active site 1380908013002 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1380908013003 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1380908013004 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1380908013005 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1380908013006 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1380908013007 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1380908013008 Surface antigen; Region: Bac_surface_Ag; pfam01103 1380908013009 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1380908013010 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908013011 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908013012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908013013 outer membrane receptor FepA; Provisional; Region: PRK13524 1380908013014 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 1380908013015 N-terminal plug; other site 1380908013016 ligand-binding site [chemical binding]; other site 1380908013017 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1380908013018 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 1380908013019 substrate binding pocket [chemical binding]; other site 1380908013020 membrane-bound complex binding site; other site 1380908013021 hinge residues; other site 1380908013022 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 1380908013023 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1380908013024 catalytic residue [active] 1380908013025 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1380908013026 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 1380908013027 dimer interface [polypeptide binding]; other site 1380908013028 ssDNA binding site [nucleotide binding]; other site 1380908013029 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1380908013030 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1380908013031 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1380908013032 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1380908013033 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1380908013034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1380908013035 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1380908013036 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 1380908013037 active site 1380908013038 motif I; other site 1380908013039 motif II; other site 1380908013040 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1380908013041 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 1380908013042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908013043 homodimer interface [polypeptide binding]; other site 1380908013044 catalytic residue [active] 1380908013045 alanine racemase; Reviewed; Region: alr; PRK00053 1380908013046 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1380908013047 active site 1380908013048 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1380908013049 substrate binding site [chemical binding]; other site 1380908013050 catalytic residues [active] 1380908013051 dimer interface [polypeptide binding]; other site 1380908013052 replicative DNA helicase; Provisional; Region: PRK08006 1380908013053 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1380908013054 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 1380908013055 Walker A motif; other site 1380908013056 ATP binding site [chemical binding]; other site 1380908013057 Walker B motif; other site 1380908013058 DNA binding loops [nucleotide binding] 1380908013059 phage shock protein G; Reviewed; Region: pspG; PRK09459 1380908013060 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1380908013061 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 1380908013062 FMN binding site [chemical binding]; other site 1380908013063 active site 1380908013064 catalytic residues [active] 1380908013065 substrate binding site [chemical binding]; other site 1380908013066 Cupin domain; Region: Cupin_2; cl17218 1380908013067 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1380908013068 metal binding site 2 [ion binding]; metal-binding site 1380908013069 putative DNA binding helix; other site 1380908013070 metal binding site 1 [ion binding]; metal-binding site 1380908013071 dimer interface [polypeptide binding]; other site 1380908013072 structural Zn2+ binding site [ion binding]; other site 1380908013073 hypothetical protein; Provisional; Region: PRK10428 1380908013074 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1380908013075 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1380908013076 LexA repressor; Validated; Region: PRK00215 1380908013077 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1380908013078 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 1380908013079 Catalytic site [active] 1380908013080 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1380908013081 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1380908013082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1380908013083 putative acyl-acceptor binding pocket; other site 1380908013084 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1380908013085 UbiA prenyltransferase family; Region: UbiA; pfam01040 1380908013086 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 1380908013087 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1380908013088 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 1380908013089 trimer interface; other site 1380908013090 sugar binding site [chemical binding]; other site 1380908013091 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1380908013092 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1380908013093 Walker A/P-loop; other site 1380908013094 ATP binding site [chemical binding]; other site 1380908013095 Q-loop/lid; other site 1380908013096 ABC transporter signature motif; other site 1380908013097 Walker B; other site 1380908013098 D-loop; other site 1380908013099 H-loop/switch region; other site 1380908013100 TOBE domain; Region: TOBE_2; pfam08402 1380908013101 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1380908013102 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1380908013103 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1380908013104 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1380908013105 AzlC protein; Region: AzlC; pfam03591 1380908013106 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1380908013107 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 1380908013108 homotrimer interaction site [polypeptide binding]; other site 1380908013109 putative active site [active] 1380908013110 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1380908013111 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 1380908013112 putative trimer interface [polypeptide binding]; other site 1380908013113 putative active site [active] 1380908013114 putative substrate binding site [chemical binding]; other site 1380908013115 putative CoA binding site [chemical binding]; other site 1380908013116 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1380908013117 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 1380908013118 active site 1380908013119 dimer interface [polypeptide binding]; other site 1380908013120 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 1380908013121 dimer interface [polypeptide binding]; other site 1380908013122 active site 1380908013123 aspartate kinase III; Validated; Region: PRK09084 1380908013124 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1380908013125 nucleotide binding site [chemical binding]; other site 1380908013126 substrate binding site [chemical binding]; other site 1380908013127 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1380908013128 lysine allosteric regulatory site; other site 1380908013129 dimer interface [polypeptide binding]; other site 1380908013130 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1380908013131 dimer interface [polypeptide binding]; other site 1380908013132 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1380908013133 Sodium Bile acid symporter family; Region: SBF; pfam01758 1380908013134 hypothetical protein; Provisional; Region: PRK10515 1380908013135 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 1380908013136 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 1380908013137 RNA binding surface [nucleotide binding]; other site 1380908013138 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1380908013139 probable active site [active] 1380908013140 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1380908013141 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 1380908013142 putative DNA binding site [nucleotide binding]; other site 1380908013143 putative Zn2+ binding site [ion binding]; other site 1380908013144 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1380908013145 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1380908013146 classical (c) SDRs; Region: SDR_c; cd05233 1380908013147 NAD(P) binding site [chemical binding]; other site 1380908013148 active site 1380908013149 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 1380908013150 active pocket/dimerization site; other site 1380908013151 active site 1380908013152 phosphorylation site [posttranslational modification] 1380908013153 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1380908013154 active site 1380908013155 phosphorylation site [posttranslational modification] 1380908013156 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1380908013157 PTS system, mannose/fructose/sorbose family, IID component; Region: EIID-AGA; TIGR00828 1380908013158 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 1380908013159 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1380908013160 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1380908013161 shikimate binding site; other site 1380908013162 NAD(P) binding site [chemical binding]; other site 1380908013163 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1380908013164 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1380908013165 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 1380908013166 substrate binding pocket [chemical binding]; other site 1380908013167 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 1380908013168 B12 binding site [chemical binding]; other site 1380908013169 cobalt ligand [ion binding]; other site 1380908013170 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1380908013171 transcriptional repressor IclR; Provisional; Region: PRK11569 1380908013172 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1380908013173 Bacterial transcriptional regulator; Region: IclR; pfam01614 1380908013174 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1380908013175 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1380908013176 isocitrate lyase; Provisional; Region: PRK15063 1380908013177 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 1380908013178 tetramer interface [polypeptide binding]; other site 1380908013179 active site 1380908013180 Mg2+/Mn2+ binding site [ion binding]; other site 1380908013181 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1380908013182 malate synthase A; Region: malate_syn_A; TIGR01344 1380908013183 active site 1380908013184 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1380908013185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908013186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1380908013187 Coenzyme A binding pocket [chemical binding]; other site 1380908013188 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1380908013189 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 1380908013190 purine monophosphate binding site [chemical binding]; other site 1380908013191 dimer interface [polypeptide binding]; other site 1380908013192 putative catalytic residues [active] 1380908013193 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1380908013194 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1380908013195 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1380908013196 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1380908013197 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1380908013198 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1380908013199 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 1380908013200 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 1380908013201 active site 1380908013202 phosphorylation site [posttranslational modification] 1380908013203 intermolecular recognition site; other site 1380908013204 dimerization interface [polypeptide binding]; other site 1380908013205 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 1380908013206 Walker A motif; other site 1380908013207 ATP binding site [chemical binding]; other site 1380908013208 Walker B motif; other site 1380908013209 arginine finger; other site 1380908013210 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1380908013211 sensor protein ZraS; Provisional; Region: PRK10364 1380908013212 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 1380908013213 dimer interface [polypeptide binding]; other site 1380908013214 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 1380908013215 ATP binding site [chemical binding]; other site 1380908013216 Mg2+ binding site [ion binding]; other site 1380908013217 G-X-G motif; other site 1380908013218 zinc resistance protein; Provisional; Region: zraP; PRK11546 1380908013219 dimer interface [polypeptide binding]; other site 1380908013220 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 1380908013221 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 1380908013222 IHF dimer interface [polypeptide binding]; other site 1380908013223 IHF - DNA interface [nucleotide binding]; other site 1380908013224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 1380908013225 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1380908013226 Active_site [active] 1380908013227 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 1380908013228 substrate binding site [chemical binding]; other site 1380908013229 active site 1380908013230 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1380908013231 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1380908013232 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1380908013233 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 1380908013234 putative NADH binding site [chemical binding]; other site 1380908013235 putative active site [active] 1380908013236 nudix motif; other site 1380908013237 putative metal binding site [ion binding]; other site 1380908013238 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1380908013239 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1380908013240 ThiC-associated domain; Region: ThiC-associated; pfam13667 1380908013241 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1380908013242 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 1380908013243 thiamine phosphate binding site [chemical binding]; other site 1380908013244 active site 1380908013245 pyrophosphate binding site [ion binding]; other site 1380908013246 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 1380908013247 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 1380908013248 ATP binding site [chemical binding]; other site 1380908013249 substrate interface [chemical binding]; other site 1380908013250 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1380908013251 thiS-thiF/thiG interaction site; other site 1380908013252 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 1380908013253 ThiS interaction site; other site 1380908013254 putative active site [active] 1380908013255 tetramer interface [polypeptide binding]; other site 1380908013256 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1380908013257 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 1380908013258 FeS/SAM binding site; other site 1380908013259 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1380908013260 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1380908013261 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1380908013262 metal binding site [ion binding]; metal-binding site 1380908013263 active site 1380908013264 I-site; other site 1380908013265 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1380908013266 active site 1380908013267 P-loop; other site 1380908013268 phosphorylation site [posttranslational modification] 1380908013269 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1380908013270 methionine cluster; other site 1380908013271 active site 1380908013272 phosphorylation site [posttranslational modification] 1380908013273 metal binding site [ion binding]; metal-binding site 1380908013274 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1380908013275 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1380908013276 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1380908013277 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1380908013278 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1380908013279 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1380908013280 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1380908013281 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1380908013282 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1380908013283 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1380908013284 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1380908013285 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1380908013286 DNA binding site [nucleotide binding] 1380908013287 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1380908013288 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1380908013289 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 1380908013290 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1380908013291 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 1380908013292 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1380908013293 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 1380908013294 RPB3 interaction site [polypeptide binding]; other site 1380908013295 RPB1 interaction site [polypeptide binding]; other site 1380908013296 RPB11 interaction site [polypeptide binding]; other site 1380908013297 RPB10 interaction site [polypeptide binding]; other site 1380908013298 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 1380908013299 23S rRNA interface [nucleotide binding]; other site 1380908013300 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1380908013301 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 1380908013302 mRNA/rRNA interface [nucleotide binding]; other site 1380908013303 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1380908013304 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1380908013305 putative homodimer interface [polypeptide binding]; other site 1380908013306 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1380908013307 heterodimer interface [polypeptide binding]; other site 1380908013308 homodimer interface [polypeptide binding]; other site 1380908013309 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1380908013310 elongation factor Tu; Reviewed; Region: PRK00049 1380908013311 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1380908013312 G1 box; other site 1380908013313 GEF interaction site [polypeptide binding]; other site 1380908013314 GTP/Mg2+ binding site [chemical binding]; other site 1380908013315 Switch I region; other site 1380908013316 G2 box; other site 1380908013317 G3 box; other site 1380908013318 Switch II region; other site 1380908013319 G4 box; other site 1380908013320 G5 box; other site 1380908013321 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 1380908013322 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 1380908013323 Antibiotic Binding Site [chemical binding]; other site 1380908013324 pantothenate kinase; Provisional; Region: PRK05439 1380908013325 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1380908013326 ATP-binding site [chemical binding]; other site 1380908013327 CoA-binding site [chemical binding]; other site 1380908013328 Mg2+-binding site [ion binding]; other site 1380908013329 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1380908013330 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1380908013331 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1380908013332 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1380908013333 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 1380908013334 potassium transporter; Provisional; Region: PRK10750 1380908013335 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1380908013336 hypothetical protein; Provisional; Region: PRK11568 1380908013337 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1380908013338 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1380908013339 proline dipeptidase; Provisional; Region: PRK13607 1380908013340 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 1380908013341 active site 1380908013342 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1380908013343 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 1380908013344 substrate binding site [chemical binding]; other site 1380908013345 oxyanion hole (OAH) forming residues; other site 1380908013346 trimer interface [polypeptide binding]; other site 1380908013347 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1380908013348 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908013349 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1380908013350 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1380908013351 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 1380908013352 dimer interface [polypeptide binding]; other site 1380908013353 active site 1380908013354 FMN reductase; Validated; Region: fre; PRK08051 1380908013355 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 1380908013356 FAD binding pocket [chemical binding]; other site 1380908013357 FAD binding motif [chemical binding]; other site 1380908013358 phosphate binding motif [ion binding]; other site 1380908013359 beta-alpha-beta structure motif; other site 1380908013360 NAD binding pocket [chemical binding]; other site 1380908013361 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 1380908013362 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 1380908013363 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 1380908013364 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1380908013365 active site 1380908013366 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 1380908013367 sec-independent translocase; Provisional; Region: PRK01770 1380908013368 sec-independent translocase; Provisional; Region: tatB; PRK00404 1380908013369 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 1380908013370 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1380908013371 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1380908013372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1380908013373 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1380908013374 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1380908013375 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 1380908013376 S-adenosylmethionine binding site [chemical binding]; other site 1380908013377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1380908013378 DNA recombination protein RmuC; Provisional; Region: PRK10361 1380908013379 RmuC family; Region: RmuC; pfam02646 1380908013380 uridine phosphorylase; Provisional; Region: PRK11178 1380908013381 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 1380908013382 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1380908013383 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1380908013384 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1380908013385 EamA-like transporter family; Region: EamA; pfam00892 1380908013386 putative hydrolase; Provisional; Region: PRK10976 1380908013387 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 1380908013388 active site 1380908013389 motif I; other site 1380908013390 motif II; other site 1380908013391 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 1380908013392 lysophospholipase L2; Provisional; Region: PRK10749 1380908013393 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1380908013394 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 1380908013395 putative transposase; Provisional; Region: PRK09857 1380908013396 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1380908013397 threonine efflux system; Provisional; Region: PRK10229 1380908013398 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1380908013399 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 1380908013400 ATP binding site [chemical binding]; other site 1380908013401 putative Mg++ binding site [ion binding]; other site 1380908013402 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 1380908013403 nucleotide binding region [chemical binding]; other site 1380908013404 ATP-binding site [chemical binding]; other site 1380908013405 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1380908013406 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1380908013407 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 1380908013408 dimerization interface [polypeptide binding]; other site 1380908013409 substrate binding site [chemical binding]; other site 1380908013410 active site 1380908013411 calcium binding site [ion binding]; other site 1380908013412 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 1380908013413 CoenzymeA binding site [chemical binding]; other site 1380908013414 subunit interaction site [polypeptide binding]; other site 1380908013415 PHB binding site; other site 1380908013416 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 1380908013417 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1380908013418 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1380908013419 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1380908013420 Cl binding site [ion binding]; other site 1380908013421 oligomer interface [polypeptide binding]; other site 1380908013422 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1380908013423 Part of AAA domain; Region: AAA_19; pfam13245 1380908013424 Family description; Region: UvrD_C_2; pfam13538 1380908013425 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1380908013426 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 1380908013427 motif II; other site 1380908013428 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1380908013429 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 1380908013430 active site 1380908013431 Int/Topo IB signature motif; other site 1380908013432 hypothetical protein; Provisional; Region: PRK10963 1380908013433 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1380908013434 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1380908013435 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1380908013436 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1380908013437 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 1380908013438 putative iron binding site [ion binding]; other site 1380908013439 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1380908013440 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 1380908013441 domain interfaces; other site 1380908013442 active site 1380908013443 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1380908013444 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 1380908013445 active site 1380908013446 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1380908013447 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1380908013448 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 1380908013449 HemY protein N-terminus; Region: HemY_N; pfam07219 1380908013450 putative transport protein YifK; Provisional; Region: PRK10746 1380908013451 putative common antigen polymerase; Provisional; Region: PRK02975 1380908013452 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1380908013453 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1380908013454 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1380908013455 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1380908013456 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 1380908013457 inhibitor-cofactor binding pocket; inhibition site 1380908013458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908013459 catalytic residue [active] 1380908013460 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 1380908013461 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1380908013462 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1380908013463 substrate binding site; other site 1380908013464 tetramer interface; other site 1380908013465 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 1380908013466 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1380908013467 NAD binding site [chemical binding]; other site 1380908013468 substrate binding site [chemical binding]; other site 1380908013469 homodimer interface [polypeptide binding]; other site 1380908013470 active site 1380908013471 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1380908013472 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1380908013473 homodimer interface [polypeptide binding]; other site 1380908013474 active site 1380908013475 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 1380908013476 Chain length determinant protein; Region: Wzz; pfam02706 1380908013477 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 1380908013478 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1380908013479 Mg++ binding site [ion binding]; other site 1380908013480 putative catalytic motif [active] 1380908013481 substrate binding site [chemical binding]; other site 1380908013482 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1380908013483 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1380908013484 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 1380908013485 RNA binding site [nucleotide binding]; other site 1380908013486 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 1380908013487 multimer interface [polypeptide binding]; other site 1380908013488 Walker A motif; other site 1380908013489 ATP binding site [chemical binding]; other site 1380908013490 Walker B motif; other site 1380908013491 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1380908013492 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 1380908013493 ATP binding site [chemical binding]; other site 1380908013494 Mg++ binding site [ion binding]; other site 1380908013495 motif III; other site 1380908013496 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 1380908013497 nucleotide binding region [chemical binding]; other site 1380908013498 ATP-binding site [chemical binding]; other site 1380908013499 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1380908013500 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1380908013501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1380908013502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908013503 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 1380908013504 substrate binding pocket [chemical binding]; other site 1380908013505 dimerization interface [polypeptide binding]; other site 1380908013506 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1380908013507 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1380908013508 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 1380908013509 Part of AAA domain; Region: AAA_19; pfam13245 1380908013510 Family description; Region: UvrD_C_2; pfam13538 1380908013511 ketol-acid reductoisomerase; Validated; Region: PRK05225 1380908013512 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1380908013513 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1380908013514 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1380908013515 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 1380908013516 threonine dehydratase; Reviewed; Region: PRK09224 1380908013517 tetramer interface [polypeptide binding]; other site 1380908013518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908013519 catalytic residue [active] 1380908013520 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1380908013521 putative Ile/Val binding site [chemical binding]; other site 1380908013522 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1380908013523 putative Ile/Val binding site [chemical binding]; other site 1380908013524 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1380908013525 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1380908013526 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 1380908013527 homodimer interface [polypeptide binding]; other site 1380908013528 substrate-cofactor binding pocket; other site 1380908013529 catalytic residue [active] 1380908013530 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1380908013531 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1380908013532 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1380908013533 dimer interface [polypeptide binding]; other site 1380908013534 PYR/PP interface [polypeptide binding]; other site 1380908013535 TPP binding site [chemical binding]; other site 1380908013536 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1380908013537 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 1380908013538 TPP-binding site [chemical binding]; other site 1380908013539 dimer interface [polypeptide binding]; other site 1380908013540 putative ATP-dependent protease; Provisional; Region: PRK09862 1380908013541 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1380908013542 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 1380908013543 Walker A motif; other site 1380908013544 ATP binding site [chemical binding]; other site 1380908013545 Walker B motif; other site 1380908013546 arginine finger; other site 1380908013547 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1380908013548 hypothetical protein; Provisional; Region: PRK11027 1380908013549 transcriptional regulator HdfR; Provisional; Region: PRK03601 1380908013550 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1380908013551 glutamate racemase; Provisional; Region: PRK00865 1380908013552 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 1380908013553 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 1380908013554 N-terminal plug; other site 1380908013555 ligand-binding site [chemical binding]; other site 1380908013556 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1380908013557 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 1380908013558 S-adenosylmethionine binding site [chemical binding]; other site 1380908013559 hypothetical protein; Provisional; Region: PRK11056 1380908013560 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1380908013561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1380908013562 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1380908013563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1380908013564 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1380908013565 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1380908013566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908013567 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 1380908013568 dimerization interface [polypeptide binding]; other site 1380908013569 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1380908013570 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1380908013571 acetylornithine deacetylase; Provisional; Region: PRK05111 1380908013572 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1380908013573 metal binding site [ion binding]; metal-binding site 1380908013574 putative dimer interface [polypeptide binding]; other site 1380908013575 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1380908013576 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1380908013577 zinc/cadmium-binding protein; Provisional; Region: PRK10306 1380908013578 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1380908013579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908013580 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1380908013581 active site 1380908013582 intersubunit interactions; other site 1380908013583 catalytic residue [active] 1380908013584 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1380908013585 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1380908013586 dimer interface [polypeptide binding]; other site 1380908013587 active site 1380908013588 metal binding site [ion binding]; metal-binding site 1380908013589 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 1380908013590 FAD binding site [chemical binding]; other site 1380908013591 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1380908013592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1380908013593 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 1380908013594 dimerization interface [polypeptide binding]; other site 1380908013595 substrate binding pocket [chemical binding]; other site 1380908013596 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1380908013597 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1380908013598 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1380908013599 active site 1380908013600 metal binding site [ion binding]; metal-binding site 1380908013601 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1380908013602 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1380908013603 cystathionine gamma-synthase; Provisional; Region: PRK08045 1380908013604 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 1380908013605 homodimer interface [polypeptide binding]; other site 1380908013606 substrate-cofactor binding pocket; other site 1380908013607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1380908013608 catalytic residue [active] 1380908013609 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1380908013610 dimerization interface [polypeptide binding]; other site 1380908013611 DNA binding site [nucleotide binding] 1380908013612 corepressor binding sites; other site 1380908013613 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1380908013614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908013615 DNA binding site [nucleotide binding] 1380908013616 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 1380908013617 domain linker motif; other site 1380908013618 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1380908013619 dimerization interface [polypeptide binding]; other site 1380908013620 ligand binding site [chemical binding]; other site 1380908013621 essential cell division protein FtsN; Provisional; Region: PRK10927 1380908013622 cell division protein FtsN; Provisional; Region: PRK12757 1380908013623 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 1380908013624 active site 1380908013625 HslU subunit interaction site [polypeptide binding]; other site 1380908013626 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1380908013627 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 1380908013628 Walker A motif; other site 1380908013629 ATP binding site [chemical binding]; other site 1380908013630 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1380908013631 Walker B motif; other site 1380908013632 arginine finger; other site 1380908013633 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1380908013634 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1380908013635 UbiA prenyltransferase family; Region: UbiA; pfam01040 1380908013636 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1380908013637 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1380908013638 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1380908013639 active site 1380908013640 ADP/pyrophosphate binding site [chemical binding]; other site 1380908013641 dimerization interface [polypeptide binding]; other site 1380908013642 allosteric effector site; other site 1380908013643 fructose-1,6-bisphosphate binding site; other site 1380908013644 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 1380908013645 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1380908013646 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 1380908013647 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1380908013648 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 1380908013649 active site 1380908013650 phosphorylation site [posttranslational modification] 1380908013651 intermolecular recognition site; other site 1380908013652 dimerization interface [polypeptide binding]; other site 1380908013653 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 1380908013654 DNA binding site [nucleotide binding] 1380908013655 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1380908013656 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 1380908013657 dimerization interface [polypeptide binding]; other site 1380908013658 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 1380908013659 dimer interface [polypeptide binding]; other site 1380908013660 phosphorylation site [posttranslational modification] 1380908013661 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 1380908013662 ATP binding site [chemical binding]; other site 1380908013663 Mg2+ binding site [ion binding]; other site 1380908013664 G-X-G motif; other site 1380908013665 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1380908013666 MOSC domain; Region: MOSC; pfam03473 1380908013667 3-alpha domain; Region: 3-alpha; pfam03475 1380908013668 superoxide dismutase; Provisional; Region: PRK10925 1380908013669 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1380908013670 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1380908013671 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 1380908013672 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 1380908013673 transcriptional activator RhaR; Provisional; Region: PRK13502 1380908013674 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908013675 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908013676 transcriptional activator RhaS; Provisional; Region: PRK13503 1380908013677 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1380908013678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908013679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1380908013680 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1380908013681 N- and C-terminal domain interface [polypeptide binding]; other site 1380908013682 active site 1380908013683 putative catalytic site [active] 1380908013684 metal binding site [ion binding]; metal-binding site 1380908013685 ATP binding site [chemical binding]; other site 1380908013686 rhamnulokinase; Provisional; Region: rhaB; PRK10640 1380908013687 carbohydrate binding site [chemical binding]; other site 1380908013688 L-rhamnose isomerase; Provisional; Region: PRK01076 1380908013689 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1380908013690 intersubunit interface [polypeptide binding]; other site 1380908013691 active site 1380908013692 Zn2+ binding site [ion binding]; other site 1380908013693 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1380908013694 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908013695 Walker A/P-loop; other site 1380908013696 ATP binding site [chemical binding]; other site 1380908013697 Q-loop/lid; other site 1380908013698 ABC transporter signature motif; other site 1380908013699 Walker B; other site 1380908013700 D-loop; other site 1380908013701 H-loop/switch region; other site 1380908013702 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908013703 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908013704 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 1380908013705 TM-ABC transporter signature motif; other site 1380908013706 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908013707 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 1380908013708 TM-ABC transporter signature motif; other site 1380908013709 lactaldehyde reductase; Region: lactal_redase; TIGR02638 1380908013710 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1380908013711 dimer interface [polypeptide binding]; other site 1380908013712 active site 1380908013713 metal binding site [ion binding]; metal-binding site 1380908013714 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 1380908013715 galactoside permease; Reviewed; Region: lacY; PRK09528 1380908013716 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 1380908013717 putative substrate translocation pore; other site 1380908013718 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1380908013719 Melibiase; Region: Melibiase; pfam02065 1380908013720 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1380908013721 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908013722 DNA binding site [nucleotide binding] 1380908013723 domain linker motif; other site 1380908013724 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1380908013725 ligand binding site [chemical binding]; other site 1380908013726 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1380908013727 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 1380908013728 non-specific DNA binding site [nucleotide binding]; other site 1380908013729 salt bridge; other site 1380908013730 sequence-specific DNA binding site [nucleotide binding]; other site 1380908013731 Cupin domain; Region: Cupin_2; cl17218 1380908013732 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1380908013733 AAA domain; Region: AAA_18; pfam13238 1380908013734 AAA domain; Region: AAA_17; pfam13207 1380908013735 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 1380908013736 active site 1380908013737 phosphorylation site [posttranslational modification] 1380908013738 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 1380908013739 intersubunit interface [polypeptide binding]; other site 1380908013740 active site 1380908013741 zinc binding site [ion binding]; other site 1380908013742 Na+ binding site [ion binding]; other site 1380908013743 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1380908013744 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1380908013745 active site 1380908013746 P-loop; other site 1380908013747 phosphorylation site [posttranslational modification] 1380908013748 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 1380908013749 dimerization interface [polypeptide binding]; other site 1380908013750 allosteric effector site; other site 1380908013751 active site 1380908013752 ADP/pyrophosphate binding site [chemical binding]; other site 1380908013753 fructose-1,6-bisphosphate binding site; other site 1380908013754 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1380908013755 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 1380908013756 molybdopterin cofactor binding site; other site 1380908013757 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 1380908013758 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 1380908013759 molybdopterin cofactor binding site; other site 1380908013760 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1380908013761 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1380908013762 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 1380908013763 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1380908013764 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1380908013765 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1380908013766 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1380908013767 oligomeric interface; other site 1380908013768 putative active site [active] 1380908013769 homodimer interface [polypeptide binding]; other site 1380908013770 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 1380908013771 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1380908013772 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1380908013773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1380908013774 Coenzyme A binding pocket [chemical binding]; other site 1380908013775 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1380908013776 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 1380908013777 dimerization interface [polypeptide binding]; other site 1380908013778 putative tRNAtyr binding site [nucleotide binding]; other site 1380908013779 putative active site [active] 1380908013780 hypothetical protein; Reviewed; Region: PRK01637 1380908013781 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1380908013782 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 1380908013783 motif II; other site 1380908013784 GTP-binding protein; Provisional; Region: PRK10218 1380908013785 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1380908013786 G1 box; other site 1380908013787 putative GEF interaction site [polypeptide binding]; other site 1380908013788 GTP/Mg2+ binding site [chemical binding]; other site 1380908013789 Switch I region; other site 1380908013790 G2 box; other site 1380908013791 G3 box; other site 1380908013792 Switch II region; other site 1380908013793 G4 box; other site 1380908013794 G5 box; other site 1380908013795 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 1380908013796 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 1380908013797 glutamine synthetase; Provisional; Region: glnA; PRK09469 1380908013798 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1380908013799 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1380908013800 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1380908013801 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 1380908013802 putative active site [active] 1380908013803 heme pocket [chemical binding]; other site 1380908013804 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 1380908013805 dimer interface [polypeptide binding]; other site 1380908013806 phosphorylation site [posttranslational modification] 1380908013807 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 1380908013808 ATP binding site [chemical binding]; other site 1380908013809 Mg2+ binding site [ion binding]; other site 1380908013810 G-X-G motif; other site 1380908013811 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1380908013812 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 1380908013813 active site 1380908013814 phosphorylation site [posttranslational modification] 1380908013815 intermolecular recognition site; other site 1380908013816 dimerization interface [polypeptide binding]; other site 1380908013817 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 1380908013818 Walker A motif; other site 1380908013819 ATP binding site [chemical binding]; other site 1380908013820 Walker B motif; other site 1380908013821 arginine finger; other site 1380908013822 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1380908013823 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1380908013824 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 1380908013825 FeS/SAM binding site; other site 1380908013826 HemN C-terminal domain; Region: HemN_C; pfam06969 1380908013827 Der GTPase activator; Provisional; Region: PRK05244 1380908013828 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1380908013829 G1 box; other site 1380908013830 GTP/Mg2+ binding site [chemical binding]; other site 1380908013831 Switch I region; other site 1380908013832 G2 box; other site 1380908013833 G3 box; other site 1380908013834 Switch II region; other site 1380908013835 G4 box; other site 1380908013836 G5 box; other site 1380908013837 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1380908013838 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1380908013839 putative acyl-acceptor binding pocket; other site 1380908013840 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 1380908013841 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1380908013842 catalytic residues [active] 1380908013843 hinge region; other site 1380908013844 alpha helical domain; other site 1380908013845 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1380908013846 serine/threonine protein kinase; Provisional; Region: PRK11768 1380908013847 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1380908013848 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1380908013849 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1380908013850 GTP binding site; other site 1380908013851 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 1380908013852 Walker A motif; other site 1380908013853 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1380908013854 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1380908013855 DNA-binding site [nucleotide binding]; DNA binding site 1380908013856 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1380908013857 putative transporter; Provisional; Region: PRK10504 1380908013858 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 1380908013859 putative substrate translocation pore; other site 1380908013860 transcriptional repressor RbsR; Provisional; Region: PRK10423 1380908013861 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1380908013862 DNA binding site [nucleotide binding] 1380908013863 domain linker motif; other site 1380908013864 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1380908013865 dimerization interface [polypeptide binding]; other site 1380908013866 ligand binding site [chemical binding]; other site 1380908013867 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1380908013868 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 1380908013869 substrate binding site [chemical binding]; other site 1380908013870 dimer interface [polypeptide binding]; other site 1380908013871 ATP binding site [chemical binding]; other site 1380908013872 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1380908013873 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1380908013874 ligand binding site [chemical binding]; other site 1380908013875 dimerization interface [polypeptide binding]; other site 1380908013876 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1380908013877 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 1380908013878 TM-ABC transporter signature motif; other site 1380908013879 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1380908013880 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1380908013881 Walker A/P-loop; other site 1380908013882 ATP binding site [chemical binding]; other site 1380908013883 Q-loop/lid; other site 1380908013884 ABC transporter signature motif; other site 1380908013885 Walker B; other site 1380908013886 D-loop; other site 1380908013887 H-loop/switch region; other site 1380908013888 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1380908013889 D-ribose pyranase; Provisional; Region: PRK11797 1380908013890 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 1380908013891 potassium uptake protein; Region: kup; TIGR00794 1380908013892 regulatory ATPase RavA; Provisional; Region: PRK13531 1380908013893 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 1380908013894 Walker A motif; other site 1380908013895 ATP binding site [chemical binding]; other site 1380908013896 Walker B motif; other site 1380908013897 arginine finger; other site 1380908013898 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 1380908013899 hypothetical protein; Provisional; Region: yieM; PRK10997 1380908013900 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1380908013901 metal ion-dependent adhesion site (MIDAS); other site 1380908013902 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1380908013903 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 1380908013904 putative DNA binding site [nucleotide binding]; other site 1380908013905 putative Zn2+ binding site [ion binding]; other site 1380908013906 AsnC family; Region: AsnC_trans_reg; pfam01037 1380908013907 FMN-binding protein MioC; Provisional; Region: PRK09004 1380908013908 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1380908013909 hypothetical protein; Provisional; Region: PRK11239 1380908013910 Rop protein; Region: Rop; pfam01815 1380908013911 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1380908013912 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1380908013913 putative active site [active] 1380908013914 putative NTP binding site [chemical binding]; other site 1380908013915 putative nucleic acid binding site [nucleotide binding]; other site