-- dump date 20140619_103505 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1224746000001 Predicted methyltransferases [General function prediction only]; Region: COG0313 1224746000002 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1224746000003 putative SAM binding site [chemical binding]; other site 1224746000004 putative homodimer interface [polypeptide binding]; other site 1224746000005 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1224746000006 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1224746000007 glutamate--cysteine ligase; Region: PLN02611 1224746000008 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1224746000009 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1224746000010 UbiA prenyltransferase family; Region: UbiA; pfam01040 1224746000011 Predicted methyltransferase [General function prediction only]; Region: COG3897 1224746000012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000013 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1224746000014 putative substrate translocation pore; other site 1224746000015 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1224746000016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000017 putative substrate translocation pore; other site 1224746000018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000019 GTP-binding protein Der; Reviewed; Region: PRK00093 1224746000020 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1224746000021 G1 box; other site 1224746000022 GTP/Mg2+ binding site [chemical binding]; other site 1224746000023 Switch I region; other site 1224746000024 G2 box; other site 1224746000025 Switch II region; other site 1224746000026 G3 box; other site 1224746000027 G4 box; other site 1224746000028 G5 box; other site 1224746000029 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1224746000030 G1 box; other site 1224746000031 GTP/Mg2+ binding site [chemical binding]; other site 1224746000032 Switch I region; other site 1224746000033 G2 box; other site 1224746000034 G3 box; other site 1224746000035 Switch II region; other site 1224746000036 G4 box; other site 1224746000037 G5 box; other site 1224746000038 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1224746000039 Trp docking motif [polypeptide binding]; other site 1224746000040 active site 1224746000041 PQQ-like domain; Region: PQQ_2; pfam13360 1224746000042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1224746000043 dihydroorotase; Validated; Region: PRK09060 1224746000044 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 1224746000045 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1224746000046 active site 1224746000047 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 1224746000048 active site 1224746000049 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1224746000050 dimer interface [polypeptide binding]; other site 1224746000051 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 1224746000052 Ligand Binding Site [chemical binding]; other site 1224746000053 Molecular Tunnel; other site 1224746000054 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 1224746000055 putative ADP-binding pocket [chemical binding]; other site 1224746000056 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746000057 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1224746000058 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 1224746000059 putative active site [active] 1224746000060 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1224746000061 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 1224746000062 active site 1224746000063 catalytic site [active] 1224746000064 substrate binding site [chemical binding]; other site 1224746000065 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1224746000066 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 1224746000067 CoA-binding site [chemical binding]; other site 1224746000068 ATP-binding [chemical binding]; other site 1224746000069 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1224746000070 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1224746000071 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1224746000072 shikimate binding site; other site 1224746000073 NAD(P) binding site [chemical binding]; other site 1224746000074 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1224746000075 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1224746000076 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1224746000077 catalytic residues [active] 1224746000078 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1224746000079 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1224746000080 catalytic residues [active] 1224746000081 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1224746000082 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1224746000083 catalytic residues [active] 1224746000084 argininosuccinate lyase; Provisional; Region: PRK00855 1224746000085 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1224746000086 active sites [active] 1224746000087 tetramer interface [polypeptide binding]; other site 1224746000088 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1224746000089 active site 1224746000090 HIGH motif; other site 1224746000091 nucleotide binding site [chemical binding]; other site 1224746000092 active site 1224746000093 KMSKS motif; other site 1224746000094 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1224746000095 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 1224746000096 active site 1224746000097 CHRD domain; Region: CHRD; pfam07452 1224746000098 GMP synthase; Reviewed; Region: guaA; PRK00074 1224746000099 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1224746000100 AMP/PPi binding site [chemical binding]; other site 1224746000101 candidate oxyanion hole; other site 1224746000102 catalytic triad [active] 1224746000103 potential glutamine specificity residues [chemical binding]; other site 1224746000104 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 1224746000105 ATP Binding subdomain [chemical binding]; other site 1224746000106 Ligand Binding sites [chemical binding]; other site 1224746000107 Dimerization subdomain; other site 1224746000108 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746000109 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 1224746000110 active site 1224746000111 phosphorylation site [posttranslational modification] 1224746000112 intermolecular recognition site; other site 1224746000113 dimerization interface [polypeptide binding]; other site 1224746000114 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1224746000115 active site 1224746000116 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1224746000117 active site 1224746000118 catalytic motif [active] 1224746000119 Zn binding site [ion binding]; other site 1224746000120 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1224746000121 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1224746000122 active site 1224746000123 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1224746000124 substrate binding site [chemical binding]; other site 1224746000125 catalytic residues [active] 1224746000126 dimer interface [polypeptide binding]; other site 1224746000127 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1224746000128 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1224746000129 MFS transport protein AraJ; Provisional; Region: PRK10091 1224746000130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000131 putative substrate translocation pore; other site 1224746000132 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 1224746000133 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1224746000134 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1224746000135 polyphosphate kinase; Provisional; Region: PRK05443 1224746000136 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1224746000137 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1224746000138 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1224746000139 putative domain interface [polypeptide binding]; other site 1224746000140 putative active site [active] 1224746000141 catalytic site [active] 1224746000142 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1224746000143 putative domain interface [polypeptide binding]; other site 1224746000144 putative active site [active] 1224746000145 catalytic site [active] 1224746000146 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1224746000147 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 1224746000148 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1224746000149 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 1224746000150 dimerization interface [polypeptide binding]; other site 1224746000151 putative ATP binding site [chemical binding]; other site 1224746000152 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1224746000153 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1224746000154 active site 1224746000155 substrate binding site [chemical binding]; other site 1224746000156 cosubstrate binding site; other site 1224746000157 catalytic site [active] 1224746000158 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1224746000159 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1224746000160 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1224746000161 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1224746000162 Ligand binding site; other site 1224746000163 Putative Catalytic site; other site 1224746000164 DXD motif; other site 1224746000165 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 1224746000166 active site 1224746000167 multimer interface [polypeptide binding]; other site 1224746000168 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1224746000169 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746000170 ABC transporter; Region: ABC_tran_2; pfam12848 1224746000171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746000172 Hint domain; Region: Hint_2; pfam13403 1224746000173 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1224746000174 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1224746000175 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1224746000176 DNA binding residues [nucleotide binding] 1224746000177 dimer interface [polypeptide binding]; other site 1224746000178 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1224746000179 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1224746000180 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 1224746000181 inhibitor-cofactor binding pocket; inhibition site 1224746000182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746000183 catalytic residue [active] 1224746000184 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1224746000185 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1224746000186 NAD(P) binding site [chemical binding]; other site 1224746000187 homodimer interface [polypeptide binding]; other site 1224746000188 substrate binding site [chemical binding]; other site 1224746000189 active site 1224746000190 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1224746000191 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1224746000192 Mg++ binding site [ion binding]; other site 1224746000193 putative catalytic motif [active] 1224746000194 putative substrate binding site [chemical binding]; other site 1224746000195 MarR family; Region: MarR; pfam01047 1224746000196 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 1224746000197 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1224746000198 interface (dimer of trimers) [polypeptide binding]; other site 1224746000199 Substrate-binding/catalytic site; other site 1224746000200 Zn-binding sites [ion binding]; other site 1224746000201 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1224746000202 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 1224746000203 nucleotide binding region [chemical binding]; other site 1224746000204 ATP-binding site [chemical binding]; other site 1224746000205 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 1224746000206 RNA binding surface [nucleotide binding]; other site 1224746000207 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1224746000208 4Fe-4S binding domain; Region: Fer4; pfam00037 1224746000209 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1224746000210 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1224746000211 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 1224746000212 Subunit I/III interface [polypeptide binding]; other site 1224746000213 Subunit III/IV interface [polypeptide binding]; other site 1224746000214 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1224746000215 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1224746000216 D-pathway; other site 1224746000217 Putative ubiquinol binding site [chemical binding]; other site 1224746000218 Low-spin heme (heme b) binding site [chemical binding]; other site 1224746000219 Putative water exit pathway; other site 1224746000220 Binuclear center (heme o3/CuB) [ion binding]; other site 1224746000221 K-pathway; other site 1224746000222 Putative proton exit pathway; other site 1224746000223 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1224746000224 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1224746000225 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1224746000226 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1224746000227 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1224746000228 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1224746000229 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1224746000230 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1224746000231 Predicted integral membrane protein [Function unknown]; Region: COG0392 1224746000232 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1224746000233 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1224746000234 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746000235 active site 1224746000236 nucleotide binding site [chemical binding]; other site 1224746000237 HIGH motif; other site 1224746000238 KMSKS motif; other site 1224746000239 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1224746000240 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746000241 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 1224746000242 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 1224746000243 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1224746000244 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 1224746000245 ring oligomerisation interface [polypeptide binding]; other site 1224746000246 ATP/Mg binding site [chemical binding]; other site 1224746000247 stacking interactions; other site 1224746000248 hinge regions; other site 1224746000249 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1224746000250 oligomerisation interface [polypeptide binding]; other site 1224746000251 mobile loop; other site 1224746000252 roof hairpin; other site 1224746000253 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1224746000254 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1224746000255 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1224746000256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746000257 NAD(P) binding site [chemical binding]; other site 1224746000258 active site 1224746000259 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1224746000260 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 1224746000261 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1224746000262 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1224746000263 Smr domain; Region: Smr; pfam01713 1224746000264 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1224746000265 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1224746000266 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1224746000267 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 1224746000268 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 1224746000269 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 1224746000270 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1224746000271 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 1224746000272 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1224746000273 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1224746000274 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 1224746000275 Haem-binding domain; Region: Haem_bd; pfam14376 1224746000276 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1224746000277 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1224746000278 DNA methylase; Region: N6_N4_Mtase; pfam01555 1224746000279 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1224746000280 MltA specific insert domain; Region: MltA; smart00925 1224746000281 3D domain; Region: 3D; pfam06725 1224746000282 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1224746000283 preprotein translocase subunit SecB; Validated; Region: PRK05751 1224746000284 SecA binding site; other site 1224746000285 Preprotein binding site; other site 1224746000286 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1224746000287 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 1224746000288 active site 1224746000289 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1224746000290 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; cl17708 1224746000291 domain interfaces; other site 1224746000292 active site 1224746000293 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1224746000294 UGMP family protein; Validated; Region: PRK09604 1224746000295 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1224746000296 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1224746000297 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1224746000298 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1224746000299 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1224746000300 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1224746000301 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1224746000302 Nucleoside recognition; Region: Gate; pfam07670 1224746000303 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1224746000304 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 1224746000305 catalytic residues [active] 1224746000306 dimer interface [polypeptide binding]; other site 1224746000307 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1224746000308 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1224746000309 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1224746000310 MutS domain I; Region: MutS_I; pfam01624 1224746000311 MutS domain II; Region: MutS_II; pfam05188 1224746000312 MutS domain III; Region: MutS_III; pfam05192 1224746000313 MutS domain V; Region: MutS_V; pfam00488 1224746000314 Walker A/P-loop; other site 1224746000315 ATP binding site [chemical binding]; other site 1224746000316 Q-loop/lid; other site 1224746000317 ABC transporter signature motif; other site 1224746000318 Walker B; other site 1224746000319 D-loop; other site 1224746000320 H-loop/switch region; other site 1224746000321 PII uridylyl-transferase; Provisional; Region: PRK05092 1224746000322 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1224746000323 metal binding triad; other site 1224746000324 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1224746000325 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 1224746000326 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 1224746000327 TPR repeat; Region: TPR_11; pfam13414 1224746000328 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 1224746000329 binding surface 1224746000330 TPR motif; other site 1224746000331 TPR repeat; Region: TPR_11; pfam13414 1224746000332 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 1224746000333 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1224746000334 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 1224746000335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746000336 catalytic residue [active] 1224746000337 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1224746000338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1224746000339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1224746000340 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1224746000341 Tim44-like domain; Region: Tim44; pfam04280 1224746000342 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1224746000343 UbiA prenyltransferase family; Region: UbiA; pfam01040 1224746000344 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1224746000345 Low-spin heme binding site [chemical binding]; other site 1224746000346 D-pathway; other site 1224746000347 K-pathway; other site 1224746000348 Binuclear center (active site) [active] 1224746000349 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 1224746000350 S-adenosylmethionine binding site [chemical binding]; other site 1224746000351 glutathione synthetase; Provisional; Region: PRK05246 1224746000352 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1224746000353 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1224746000354 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1224746000355 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1224746000356 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1224746000357 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1224746000358 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1224746000359 active site 1224746000360 catalytic residues [active] 1224746000361 excinuclease ABC subunit B; Provisional; Region: PRK05298 1224746000362 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 1224746000363 ATP binding site [chemical binding]; other site 1224746000364 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 1224746000365 nucleotide binding region [chemical binding]; other site 1224746000366 ATP-binding site [chemical binding]; other site 1224746000367 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1224746000368 UvrB/uvrC motif; Region: UVR; pfam02151 1224746000369 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1224746000370 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746000371 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 1224746000372 dimerization interface [polypeptide binding]; other site 1224746000373 putative DNA binding site [nucleotide binding]; other site 1224746000374 putative Zn2+ binding site [ion binding]; other site 1224746000375 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746000376 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1224746000377 ABC1 family; Region: ABC1; cl17513 1224746000378 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1224746000379 active site 1224746000380 ATP binding site [chemical binding]; other site 1224746000381 substrate binding site [chemical binding]; other site 1224746000382 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1224746000383 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1224746000384 active site 1224746000385 Zn binding site [ion binding]; other site 1224746000386 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1224746000387 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1224746000388 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 1224746000389 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 1224746000390 active site 1224746000391 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1224746000392 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1224746000393 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746000394 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746000395 TAP-like protein; Region: Abhydrolase_4; pfam08386 1224746000396 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1224746000397 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746000398 glutathione reductase; Validated; Region: PRK06116 1224746000399 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746000400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746000401 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1224746000402 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1224746000403 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 1224746000404 FAD binding pocket [chemical binding]; other site 1224746000405 FAD binding motif [chemical binding]; other site 1224746000406 phosphate binding motif [ion binding]; other site 1224746000407 beta-alpha-beta structure motif; other site 1224746000408 NAD binding pocket [chemical binding]; other site 1224746000409 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1224746000410 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 1224746000411 ATP binding site [chemical binding]; other site 1224746000412 putative Mg++ binding site [ion binding]; other site 1224746000413 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 1224746000414 nucleotide binding region [chemical binding]; other site 1224746000415 ATP-binding site [chemical binding]; other site 1224746000416 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 1224746000417 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 1224746000418 sequence-specific DNA binding site [nucleotide binding]; other site 1224746000419 salt bridge; other site 1224746000420 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1224746000421 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1224746000422 seryl-tRNA synthetase; Provisional; Region: PRK05431 1224746000423 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1224746000424 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 1224746000425 dimer interface [polypeptide binding]; other site 1224746000426 active site 1224746000427 motif 1; other site 1224746000428 motif 2; other site 1224746000429 motif 3; other site 1224746000430 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1224746000431 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1224746000432 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1224746000433 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1224746000434 Sporulation related domain; Region: SPOR; pfam05036 1224746000435 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1224746000436 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1224746000437 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746000438 active site 1224746000439 HIGH motif; other site 1224746000440 nucleotide binding site [chemical binding]; other site 1224746000441 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1224746000442 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746000443 KMSK motif region; other site 1224746000444 tRNA binding surface [nucleotide binding]; other site 1224746000445 DALR anticodon binding domain; Region: DALR_1; smart00836 1224746000446 anticodon binding site; other site 1224746000447 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1224746000448 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1224746000449 Zn2+ binding site [ion binding]; other site 1224746000450 Mg2+ binding site [ion binding]; other site 1224746000451 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1224746000452 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1224746000453 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 1224746000454 putative catalytic site [active] 1224746000455 putative phosphate binding site [ion binding]; other site 1224746000456 active site 1224746000457 metal binding site A [ion binding]; metal-binding site 1224746000458 DNA binding site [nucleotide binding] 1224746000459 putative AP binding site [nucleotide binding]; other site 1224746000460 putative metal binding site B [ion binding]; other site 1224746000461 CAAX protease self-immunity; Region: Abi; pfam02517 1224746000462 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1224746000463 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1224746000464 dimer interface [polypeptide binding]; other site 1224746000465 anticodon binding site; other site 1224746000466 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1224746000467 homodimer interface [polypeptide binding]; other site 1224746000468 motif 1; other site 1224746000469 active site 1224746000470 motif 2; other site 1224746000471 GAD domain; Region: GAD; pfam02938 1224746000472 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 1224746000473 active site 1224746000474 motif 3; other site 1224746000475 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 1224746000476 iron-sulfur cluster [ion binding]; other site 1224746000477 [2Fe-2S] cluster binding site [ion binding]; other site 1224746000478 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1224746000479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746000480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746000481 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1224746000482 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1224746000483 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1224746000484 conserved cys residue [active] 1224746000485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746000486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746000487 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1224746000488 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 1224746000489 C-terminal domain interface [polypeptide binding]; other site 1224746000490 GSH binding site (G-site) [chemical binding]; other site 1224746000491 dimer interface [polypeptide binding]; other site 1224746000492 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1224746000493 substrate binding pocket (H-site) [chemical binding]; other site 1224746000494 N-terminal domain interface [polypeptide binding]; other site 1224746000495 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1224746000496 motif 1; other site 1224746000497 dimer interface [polypeptide binding]; other site 1224746000498 active site 1224746000499 motif 2; other site 1224746000500 motif 3; other site 1224746000501 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1224746000502 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1224746000503 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1224746000504 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1224746000505 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1224746000506 putative NAD(P) binding site [chemical binding]; other site 1224746000507 catalytic Zn binding site [ion binding]; other site 1224746000508 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1224746000509 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1224746000510 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1224746000511 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1224746000512 rod shape-determining protein MreC; Provisional; Region: PRK13922 1224746000513 rod shape-determining protein MreC; Region: MreC; pfam04085 1224746000514 rod shape-determining protein MreB; Provisional; Region: PRK13927 1224746000515 MreB and similar proteins; Region: MreB_like; cd10225 1224746000516 nucleotide binding site [chemical binding]; other site 1224746000517 Mg binding site [ion binding]; other site 1224746000518 putative protofilament interaction site [polypeptide binding]; other site 1224746000519 RodZ interaction site [polypeptide binding]; other site 1224746000520 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1224746000521 2-isopropylmalate synthase; Validated; Region: PRK00915 1224746000522 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1224746000523 active site 1224746000524 metal binding site [ion binding]; metal-binding site 1224746000525 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1224746000526 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 1224746000527 active site 1224746000528 metal binding site [ion binding]; metal-binding site 1224746000529 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 1224746000530 homodimer interface [polypeptide binding]; other site 1224746000531 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1224746000532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746000533 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1224746000534 NAD(P) binding site [chemical binding]; other site 1224746000535 active site 1224746000536 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1224746000537 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1224746000538 PhnA protein; Region: PhnA; pfam03831 1224746000539 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1224746000540 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1224746000541 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 1224746000542 generic binding surface II; other site 1224746000543 generic binding surface I; other site 1224746000544 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1224746000545 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1224746000546 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1224746000547 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1224746000548 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 1224746000549 peptide binding site [polypeptide binding]; other site 1224746000550 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1224746000551 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1224746000552 DNA polymerase I; Provisional; Region: PRK05755 1224746000553 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1224746000554 active site 1224746000555 metal binding site 1 [ion binding]; metal-binding site 1224746000556 putative 5' ssDNA interaction site; other site 1224746000557 metal binding site 3; metal-binding site 1224746000558 metal binding site 2 [ion binding]; metal-binding site 1224746000559 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1224746000560 putative DNA binding site [nucleotide binding]; other site 1224746000561 putative metal binding site [ion binding]; other site 1224746000562 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1224746000563 active site 1224746000564 catalytic site [active] 1224746000565 substrate binding site [chemical binding]; other site 1224746000566 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1224746000567 active site 1224746000568 DNA binding site [nucleotide binding] 1224746000569 catalytic site [active] 1224746000570 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1224746000571 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746000572 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1224746000573 nucleophilic elbow; other site 1224746000574 catalytic triad; other site 1224746000575 Conserved TM helix; Region: TM_helix; pfam05552 1224746000576 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1224746000577 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 1224746000578 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1224746000579 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1224746000580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1224746000581 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1224746000582 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1224746000583 NAD binding site [chemical binding]; other site 1224746000584 catalytic Zn binding site [ion binding]; other site 1224746000585 structural Zn binding site [ion binding]; other site 1224746000586 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1224746000587 Predicted flavoprotein [General function prediction only]; Region: COG0431 1224746000588 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1224746000589 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 1224746000590 active site 1224746000591 dimer interface [polypeptide binding]; other site 1224746000592 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1224746000593 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 1224746000594 active site 1224746000595 FMN binding site [chemical binding]; other site 1224746000596 substrate binding site [chemical binding]; other site 1224746000597 3Fe-4S cluster binding site [ion binding]; other site 1224746000598 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 1224746000599 domain interface; other site 1224746000600 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1224746000601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746000602 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746000603 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1224746000604 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1224746000605 putative NAD(P) binding site [chemical binding]; other site 1224746000606 active site 1224746000607 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1224746000608 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1224746000609 catalytic site [active] 1224746000610 putative active site [active] 1224746000611 putative substrate binding site [chemical binding]; other site 1224746000612 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1224746000613 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 1224746000614 putative active site [active] 1224746000615 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 1224746000616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1224746000617 OstA-like protein; Region: OstA; cl00844 1224746000618 OstA-like protein; Region: OstA; cl00844 1224746000619 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1224746000620 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1224746000621 Walker A/P-loop; other site 1224746000622 ATP binding site [chemical binding]; other site 1224746000623 Q-loop/lid; other site 1224746000624 ABC transporter signature motif; other site 1224746000625 Walker B; other site 1224746000626 D-loop; other site 1224746000627 H-loop/switch region; other site 1224746000628 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1224746000629 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1224746000630 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1224746000631 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1224746000632 hypothetical protein; Provisional; Region: PRK09272 1224746000633 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1224746000634 Helix-turn-helix domain; Region: HTH_18; pfam12833 1224746000635 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746000636 SnoaL-like domain; Region: SnoaL_2; pfam12680 1224746000637 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1224746000638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746000639 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746000640 ABC transporter; Region: ABC_tran_2; pfam12848 1224746000641 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746000642 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1224746000643 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000644 putative substrate translocation pore; other site 1224746000645 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 1224746000646 putative active site [active] 1224746000647 catalytic site [active] 1224746000648 putative metal binding site [ion binding]; other site 1224746000649 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746000650 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 1224746000651 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 1224746000652 homotrimer interaction site [polypeptide binding]; other site 1224746000653 putative active site [active] 1224746000654 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 1224746000655 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1224746000656 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 1224746000657 putative dimer interface [polypeptide binding]; other site 1224746000658 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 1224746000659 active site 1224746000660 catalytic residues [active] 1224746000661 metal binding site [ion binding]; metal-binding site 1224746000662 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1224746000663 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1224746000664 putative active site [active] 1224746000665 substrate binding site [chemical binding]; other site 1224746000666 putative cosubstrate binding site; other site 1224746000667 catalytic site [active] 1224746000668 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1224746000669 substrate binding site [chemical binding]; other site 1224746000670 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1224746000671 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1224746000672 dimerization interface 3.5A [polypeptide binding]; other site 1224746000673 active site 1224746000674 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1224746000675 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1224746000676 metal binding site [ion binding]; metal-binding site 1224746000677 dimer interface [polypeptide binding]; other site 1224746000678 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1224746000679 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 1224746000680 trimer interface [polypeptide binding]; other site 1224746000681 active site 1224746000682 substrate binding site [chemical binding]; other site 1224746000683 CoA binding site [chemical binding]; other site 1224746000684 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746000685 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746000686 metal binding site [ion binding]; metal-binding site 1224746000687 active site 1224746000688 I-site; other site 1224746000689 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1224746000690 feedback inhibition sensing region; other site 1224746000691 homohexameric interface [polypeptide binding]; other site 1224746000692 nucleotide binding site [chemical binding]; other site 1224746000693 N-acetyl-L-glutamate binding site [chemical binding]; other site 1224746000694 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1224746000695 G1 box; other site 1224746000696 GTP/Mg2+ binding site [chemical binding]; other site 1224746000697 Switch I region; other site 1224746000698 G2 box; other site 1224746000699 G3 box; other site 1224746000700 Switch II region; other site 1224746000701 G4 box; other site 1224746000702 G5 box; other site 1224746000703 membrane protein insertase; Provisional; Region: PRK01318 1224746000704 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1224746000705 Ribonuclease P; Region: Ribonuclease_P; pfam00825 1224746000706 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1224746000707 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746000708 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1224746000709 dimer interface [polypeptide binding]; other site 1224746000710 active site 1224746000711 metal binding site [ion binding]; metal-binding site 1224746000712 glutathione binding site [chemical binding]; other site 1224746000713 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 1224746000714 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1224746000715 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 1224746000716 active site 1224746000717 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 1224746000718 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1224746000719 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1224746000720 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 1224746000721 trimer interface [polypeptide binding]; other site 1224746000722 active site 1224746000723 UDP-GlcNAc binding site [chemical binding]; other site 1224746000724 lipid binding site [chemical binding]; lipid-binding site 1224746000725 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1224746000726 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1224746000727 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746000728 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746000729 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746000730 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746000731 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746000732 Surface antigen; Region: Bac_surface_Ag; pfam01103 1224746000733 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1224746000734 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 1224746000735 active site 1224746000736 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 1224746000737 protein binding site [polypeptide binding]; other site 1224746000738 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 1224746000739 putative substrate binding region [chemical binding]; other site 1224746000740 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1224746000741 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1224746000742 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1224746000743 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1224746000744 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1224746000745 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1224746000746 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1224746000747 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1224746000748 catalytic residue [active] 1224746000749 putative FPP diphosphate binding site; other site 1224746000750 putative FPP binding hydrophobic cleft; other site 1224746000751 dimer interface [polypeptide binding]; other site 1224746000752 putative IPP diphosphate binding site; other site 1224746000753 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1224746000754 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 1224746000755 hinge region; other site 1224746000756 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 1224746000757 putative nucleotide binding site [chemical binding]; other site 1224746000758 uridine monophosphate binding site [chemical binding]; other site 1224746000759 homohexameric interface [polypeptide binding]; other site 1224746000760 GTPase Era; Reviewed; Region: era; PRK00089 1224746000761 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1224746000762 G1 box; other site 1224746000763 GTP/Mg2+ binding site [chemical binding]; other site 1224746000764 Switch I region; other site 1224746000765 G2 box; other site 1224746000766 Switch II region; other site 1224746000767 G3 box; other site 1224746000768 G4 box; other site 1224746000769 G5 box; other site 1224746000770 KH domain; Region: KH_2; pfam07650 1224746000771 G-X-X-G motif; other site 1224746000772 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1224746000773 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 1224746000774 dimerization interface [polypeptide binding]; other site 1224746000775 active site 1224746000776 metal binding site [ion binding]; metal-binding site 1224746000777 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 1224746000778 dsRNA binding site [nucleotide binding]; other site 1224746000779 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 1224746000780 Catalytic site [active] 1224746000781 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 1224746000782 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1224746000783 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1224746000784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1224746000785 Zn2+ binding site [ion binding]; other site 1224746000786 Mg2+ binding site [ion binding]; other site 1224746000787 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1224746000788 synthetase active site [active] 1224746000789 NTP binding site [chemical binding]; other site 1224746000790 metal binding site [ion binding]; metal-binding site 1224746000791 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 1224746000792 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1224746000793 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1224746000794 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1224746000795 LabA_like proteins; Region: LabA; cd10911 1224746000796 putative metal binding site [ion binding]; other site 1224746000797 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1224746000798 ligand binding site [chemical binding]; other site 1224746000799 active site 1224746000800 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1224746000801 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1224746000802 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1224746000803 Moco binding site; other site 1224746000804 metal coordination site [ion binding]; other site 1224746000805 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1224746000806 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1224746000807 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1224746000808 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1224746000809 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1224746000810 Preprotein translocase subunit; Region: YajC; pfam02699 1224746000811 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1224746000812 Protein of unknown function (DUF815); Region: DUF815; pfam05673 1224746000813 Walker A motif; other site 1224746000814 ATP binding site [chemical binding]; other site 1224746000815 Walker B motif; other site 1224746000816 Hint domain; Region: Hint_2; pfam13403 1224746000817 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746000818 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 1224746000819 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1224746000820 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 1224746000821 [2Fe-2S] cluster binding site [ion binding]; other site 1224746000822 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1224746000823 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1224746000824 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 1224746000825 active site 1224746000826 8-oxo-dGMP binding site [chemical binding]; other site 1224746000827 nudix motif; other site 1224746000828 metal binding site [ion binding]; metal-binding site 1224746000829 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1224746000830 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1224746000831 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 1224746000832 putative MPT binding site; other site 1224746000833 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1224746000834 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1224746000835 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1224746000836 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 1224746000837 active site 1224746000838 DNA binding site [nucleotide binding] 1224746000839 Int/Topo IB signature motif; other site 1224746000840 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 1224746000841 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 1224746000842 ADP binding site [chemical binding]; other site 1224746000843 magnesium binding site [ion binding]; other site 1224746000844 putative shikimate binding site; other site 1224746000845 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1224746000846 active site 1224746000847 dimer interface [polypeptide binding]; other site 1224746000848 metal binding site [ion binding]; metal-binding site 1224746000849 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1224746000850 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1224746000851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1224746000852 ligand binding site [chemical binding]; other site 1224746000853 Predicted membrane protein [Function unknown]; Region: COG2246 1224746000854 GtrA-like protein; Region: GtrA; pfam04138 1224746000855 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1224746000856 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 1224746000857 motif 1; other site 1224746000858 active site 1224746000859 motif 2; other site 1224746000860 motif 3; other site 1224746000861 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1224746000862 DHHA1 domain; Region: DHHA1; pfam02272 1224746000863 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 1224746000864 active site clefts [active] 1224746000865 zinc binding site [ion binding]; other site 1224746000866 dimer interface [polypeptide binding]; other site 1224746000867 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1224746000868 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1224746000869 putative catalytic site [active] 1224746000870 putative metal binding site [ion binding]; other site 1224746000871 putative phosphate binding site [ion binding]; other site 1224746000872 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1224746000873 nudix motif; other site 1224746000874 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 1224746000875 Phosphotransferase enzyme family; Region: APH; pfam01636 1224746000876 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1224746000877 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1224746000878 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1224746000879 G1 box; other site 1224746000880 putative GEF interaction site [polypeptide binding]; other site 1224746000881 GTP/Mg2+ binding site [chemical binding]; other site 1224746000882 Switch I region; other site 1224746000883 G2 box; other site 1224746000884 G3 box; other site 1224746000885 Switch II region; other site 1224746000886 G4 box; other site 1224746000887 G5 box; other site 1224746000888 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 1224746000889 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1224746000890 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1224746000891 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 1224746000892 RNA binding surface [nucleotide binding]; other site 1224746000893 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1224746000894 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1224746000895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000896 putative substrate translocation pore; other site 1224746000897 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1224746000898 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1224746000899 cation binding site [ion binding]; other site 1224746000900 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1224746000901 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746000902 active site 1224746000903 HIGH motif; other site 1224746000904 nucleotide binding site [chemical binding]; other site 1224746000905 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1224746000906 KMSKS motif; other site 1224746000907 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1224746000908 tRNA binding surface [nucleotide binding]; other site 1224746000909 anticodon binding site; other site 1224746000910 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1224746000911 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1224746000912 Inward rectifier potassium channel; Region: IRK; pfam01007 1224746000913 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1224746000914 active site 1224746000915 catalytic residues [active] 1224746000916 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1224746000917 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1224746000918 HIGH motif; other site 1224746000919 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1224746000920 active site 1224746000921 KMSKS motif; other site 1224746000922 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1224746000923 Repair protein; Region: Repair_PSII; pfam04536 1224746000924 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1224746000925 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 1224746000926 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1224746000927 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000928 putative substrate translocation pore; other site 1224746000929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746000930 Predicted small secreted protein [Function unknown]; Region: COG5510 1224746000931 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1224746000932 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 1224746000933 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 1224746000934 active site 1224746000935 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1224746000936 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746000937 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 1224746000938 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1224746000939 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1224746000940 Domain of unknown function DUF87; Region: DUF87; pfam01935 1224746000941 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1224746000942 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 1224746000943 Walker A motif; other site 1224746000944 ATP binding site [chemical binding]; other site 1224746000945 Walker B motif; other site 1224746000946 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746000947 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 1224746000948 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1224746000949 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1224746000950 active site 1224746000951 catalytic site [active] 1224746000952 Secretin and TonB N terminus short domain; Region: STN; smart00965 1224746000953 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1224746000954 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1224746000955 proposed catalytic triad [active] 1224746000956 conserved cys residue [active] 1224746000957 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1224746000958 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1224746000959 NAD binding site [chemical binding]; other site 1224746000960 catalytic residues [active] 1224746000961 substrate binding site [chemical binding]; other site 1224746000962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746000963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746000964 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 1224746000965 dimerization interface [polypeptide binding]; other site 1224746000966 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1224746000967 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 1224746000968 AAA domain; Region: AAA_33; pfam13671 1224746000969 ATP-binding site [chemical binding]; other site 1224746000970 Gluconate-6-phosphate binding site [chemical binding]; other site 1224746000971 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 1224746000972 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1224746000973 active site 1224746000974 dimer interface [polypeptide binding]; other site 1224746000975 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1224746000976 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1224746000977 putative active site [active] 1224746000978 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1224746000979 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 1224746000980 active site 1224746000981 motif I; other site 1224746000982 motif II; other site 1224746000983 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1224746000984 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1224746000985 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1224746000986 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 1224746000987 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1224746000988 putative active site [active] 1224746000989 catalytic residue [active] 1224746000990 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 1224746000991 active site 1224746000992 dimer interface [polypeptide binding]; other site 1224746000993 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 1224746000994 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1224746000995 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 1224746000996 TPP-binding site [chemical binding]; other site 1224746000997 dimer interface [polypeptide binding]; other site 1224746000998 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 1224746000999 PYR/PP interface [polypeptide binding]; other site 1224746001000 dimer interface [polypeptide binding]; other site 1224746001001 TPP binding site [chemical binding]; other site 1224746001002 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1224746001003 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1224746001004 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1224746001005 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1224746001006 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1224746001007 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1224746001008 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1224746001009 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 1224746001010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746001011 homodimer interface [polypeptide binding]; other site 1224746001012 catalytic residue [active] 1224746001013 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 1224746001014 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1224746001015 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1224746001016 Flagellar FliJ protein; Region: FliJ; pfam02050 1224746001017 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 1224746001018 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1224746001019 Walker A motif/ATP binding site; other site 1224746001020 Walker B motif; other site 1224746001021 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746001022 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 1224746001023 active site 1224746001024 phosphorylation site [posttranslational modification] 1224746001025 intermolecular recognition site; other site 1224746001026 dimerization interface [polypeptide binding]; other site 1224746001027 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 1224746001028 DNA binding site [nucleotide binding] 1224746001029 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1224746001030 dimer interface [polypeptide binding]; other site 1224746001031 substrate binding site [chemical binding]; other site 1224746001032 ATP binding site [chemical binding]; other site 1224746001033 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1224746001034 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 1224746001035 active site 1224746001036 substrate binding site [chemical binding]; other site 1224746001037 metal binding site [ion binding]; metal-binding site 1224746001038 FtsH Extracellular; Region: FtsH_ext; pfam06480 1224746001039 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1224746001040 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 1224746001041 Walker A motif; other site 1224746001042 ATP binding site [chemical binding]; other site 1224746001043 Walker B motif; other site 1224746001044 arginine finger; other site 1224746001045 Peptidase family M41; Region: Peptidase_M41; pfam01434 1224746001046 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 1224746001047 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1224746001048 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1224746001049 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1224746001050 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1224746001051 ligand binding site [chemical binding]; other site 1224746001052 translocation protein TolB; Provisional; Region: tolB; PRK05137 1224746001053 TolB amino-terminal domain; Region: TolB_N; pfam04052 1224746001054 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1224746001055 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1224746001056 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1224746001057 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1224746001058 TolR protein; Region: tolR; TIGR02801 1224746001059 TolQ protein; Region: tolQ; TIGR02796 1224746001060 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 1224746001061 active site 1224746001062 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1224746001063 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 1224746001064 Walker A motif; other site 1224746001065 ATP binding site [chemical binding]; other site 1224746001066 Walker B motif; other site 1224746001067 arginine finger; other site 1224746001068 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1224746001069 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1224746001070 RuvA N terminal domain; Region: RuvA_N; pfam01330 1224746001071 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 1224746001072 active site 1224746001073 putative DNA-binding cleft [nucleotide binding]; other site 1224746001074 dimer interface [polypeptide binding]; other site 1224746001075 hypothetical protein; Validated; Region: PRK00110 1224746001076 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1224746001077 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1224746001078 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1224746001079 nucleotide binding region [chemical binding]; other site 1224746001080 SEC-C motif; Region: SEC-C; pfam02810 1224746001081 SurA N-terminal domain; Region: SurA_N_3; cl07813 1224746001082 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1224746001083 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1224746001084 heterotetramer interface [polypeptide binding]; other site 1224746001085 active site pocket [active] 1224746001086 cleavage site 1224746001087 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1224746001088 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746001089 Biofilm formation and stress response factor; Region: BsmA; pfam10014 1224746001090 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1224746001091 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 1224746001092 homodimer interface [polypeptide binding]; other site 1224746001093 substrate-cofactor binding pocket; other site 1224746001094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746001095 catalytic residue [active] 1224746001096 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1224746001097 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1224746001098 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1224746001099 substrate binding site; other site 1224746001100 dimer interface; other site 1224746001101 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 1224746001102 homotrimer interaction site [polypeptide binding]; other site 1224746001103 zinc binding site [ion binding]; other site 1224746001104 CDP-binding sites; other site 1224746001105 ATP12 chaperone protein; Region: ATP12; pfam07542 1224746001106 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1224746001107 AsmA family; Region: AsmA; pfam05170 1224746001108 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1224746001109 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 1224746001110 RNA binding surface [nucleotide binding]; other site 1224746001111 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1224746001112 active site 1224746001113 recombination factor protein RarA; Reviewed; Region: PRK13342 1224746001114 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 1224746001115 Walker A motif; other site 1224746001116 ATP binding site [chemical binding]; other site 1224746001117 Walker B motif; other site 1224746001118 arginine finger; other site 1224746001119 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1224746001120 Protein of unknown function; Region: DUF3971; pfam13116 1224746001121 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1224746001122 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1224746001123 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 1224746001124 catalytic triad [active] 1224746001125 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1224746001126 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1224746001127 MAPEG family; Region: MAPEG; cl09190 1224746001128 EcsC protein family; Region: EcsC; pfam12787 1224746001129 EVE domain; Region: EVE; pfam01878 1224746001130 heme exporter protein CcmC; Region: ccmC; TIGR01191 1224746001131 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1224746001132 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1224746001133 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1224746001134 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 1224746001135 catalytic residues [active] 1224746001136 central insert; other site 1224746001137 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1224746001138 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1224746001139 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1224746001140 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 1224746001141 Class II fumarases; Region: Fumarase_classII; cd01362 1224746001142 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1224746001143 active site 1224746001144 tetramer interface [polypeptide binding]; other site 1224746001145 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1224746001146 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1224746001147 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1224746001148 GAF domain; Region: GAF; pfam01590 1224746001149 Phytochrome region; Region: PHY; pfam00360 1224746001150 Histidine kinase; Region: HisKA_2; pfam07568 1224746001151 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 1224746001152 ATP binding site [chemical binding]; other site 1224746001153 Mg2+ binding site [ion binding]; other site 1224746001154 G-X-G motif; other site 1224746001155 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746001156 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746001157 metal binding site [ion binding]; metal-binding site 1224746001158 active site 1224746001159 I-site; other site 1224746001160 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1224746001161 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 1224746001162 active site 1224746001163 tetramer interface [polypeptide binding]; other site 1224746001164 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746001165 active site 1224746001166 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1224746001167 Colicin V production protein; Region: Colicin_V; pfam02674 1224746001168 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1224746001169 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1224746001170 ThiC-associated domain; Region: ThiC-associated; pfam13667 1224746001171 ThiC family; Region: ThiC; pfam01964 1224746001172 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1224746001173 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 1224746001174 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 1224746001175 putative active site pocket [active] 1224746001176 dimerization interface [polypeptide binding]; other site 1224746001177 putative catalytic residue [active] 1224746001178 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1224746001179 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 1224746001180 substrate-cofactor binding pocket; other site 1224746001181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746001182 catalytic residue [active] 1224746001183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746001184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746001185 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 1224746001186 putative effector binding pocket; other site 1224746001187 dimerization interface [polypeptide binding]; other site 1224746001188 Pirin-related protein [General function prediction only]; Region: COG1741 1224746001189 Pirin; Region: Pirin; pfam02678 1224746001190 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 1224746001191 putative sialic acid transporter; Region: 2A0112; TIGR00891 1224746001192 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746001193 putative substrate translocation pore; other site 1224746001194 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1224746001195 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746001196 hypothetical protein; Provisional; Region: PRK05208 1224746001197 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1224746001198 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1224746001199 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1224746001200 conserved cys residue [active] 1224746001201 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1224746001202 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 1224746001203 Walker A/P-loop; other site 1224746001204 ATP binding site [chemical binding]; other site 1224746001205 Q-loop/lid; other site 1224746001206 ABC transporter signature motif; other site 1224746001207 Walker B; other site 1224746001208 D-loop; other site 1224746001209 H-loop/switch region; other site 1224746001210 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1224746001211 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1224746001212 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1224746001213 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1224746001214 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1224746001215 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1224746001216 Cation efflux family; Region: Cation_efflux; pfam01545 1224746001217 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1224746001218 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1224746001219 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1224746001220 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1224746001221 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1224746001222 putative ion selectivity filter; other site 1224746001223 putative pore gating glutamate residue; other site 1224746001224 putative H+/Cl- coupling transport residue; other site 1224746001225 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 1224746001226 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1224746001227 active site 1224746001228 Rdx family; Region: Rdx; cl01407 1224746001229 DinB family; Region: DinB; cl17821 1224746001230 DinB superfamily; Region: DinB_2; pfam12867 1224746001231 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1224746001232 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 1224746001233 [2Fe-2S] cluster binding site [ion binding]; other site 1224746001234 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1224746001235 hydrophobic ligand binding site; other site 1224746001236 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1224746001237 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1224746001238 structural tetrad; other site 1224746001239 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1224746001240 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 1224746001241 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1224746001242 G4 box; other site 1224746001243 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1224746001244 O-Antigen ligase; Region: Wzy_C; pfam04932 1224746001245 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1224746001246 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 1224746001247 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746001248 active site 1224746001249 catalytic tetrad [active] 1224746001250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746001251 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 1224746001252 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1224746001253 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1224746001254 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 1224746001255 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 1224746001256 active site residue [active] 1224746001257 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1224746001258 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 1224746001259 dimer interface [polypeptide binding]; other site 1224746001260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746001261 catalytic residue [active] 1224746001262 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746001263 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 1224746001264 active site 1224746001265 phosphorylation site [posttranslational modification] 1224746001266 intermolecular recognition site; other site 1224746001267 dimerization interface [polypeptide binding]; other site 1224746001268 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 1224746001269 DNA binding site [nucleotide binding] 1224746001270 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 1224746001271 dimerization interface [polypeptide binding]; other site 1224746001272 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 1224746001273 dimer interface [polypeptide binding]; other site 1224746001274 phosphorylation site [posttranslational modification] 1224746001275 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 1224746001276 ATP binding site [chemical binding]; other site 1224746001277 Mg2+ binding site [ion binding]; other site 1224746001278 G-X-G motif; other site 1224746001279 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1224746001280 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1224746001281 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1224746001282 shikimate binding site; other site 1224746001283 NAD(P) binding site [chemical binding]; other site 1224746001284 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1224746001285 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1224746001286 Walker A/P-loop; other site 1224746001287 ATP binding site [chemical binding]; other site 1224746001288 Q-loop/lid; other site 1224746001289 ABC transporter signature motif; other site 1224746001290 Walker B; other site 1224746001291 D-loop; other site 1224746001292 H-loop/switch region; other site 1224746001293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746001294 DNA-binding site [nucleotide binding]; DNA binding site 1224746001295 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1224746001296 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 1224746001297 active site 1224746001298 phosphorylation site [posttranslational modification] 1224746001299 intermolecular recognition site; other site 1224746001300 dimerization interface [polypeptide binding]; other site 1224746001301 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 1224746001302 DNA binding site [nucleotide binding] 1224746001303 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1224746001304 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 1224746001305 dimerization interface [polypeptide binding]; other site 1224746001306 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 1224746001307 dimer interface [polypeptide binding]; other site 1224746001308 phosphorylation site [posttranslational modification] 1224746001309 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 1224746001310 ATP binding site [chemical binding]; other site 1224746001311 Mg2+ binding site [ion binding]; other site 1224746001312 G-X-G motif; other site 1224746001313 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1224746001314 putative RNA binding site [nucleotide binding]; other site 1224746001315 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1224746001316 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 1224746001317 S-adenosylmethionine binding site [chemical binding]; other site 1224746001318 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1224746001319 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1224746001320 catalytic residue [active] 1224746001321 potassium uptake protein; Region: kup; TIGR00794 1224746001322 K+ potassium transporter; Region: K_trans; pfam02705 1224746001323 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1224746001324 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 1224746001325 FeS/SAM binding site; other site 1224746001326 HemN C-terminal domain; Region: HemN_C; pfam06969 1224746001327 nuc_hydro_CjNH. Nucleoside hydrolases similar to Campylobacter jejuni nucleoside hydrolase. This group contains eukaryotic and bacterial proteins similar to C. jejuni nucleoside hydrolase. Nucleoside hydrolases cleave the N-glycosidic bond in...; Region: nuc_hydro_CjNH; cd02654 1224746001328 active site 1224746001329 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 1224746001330 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746001331 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 1224746001332 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 1224746001333 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746001334 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 1224746001335 FMN binding site [chemical binding]; other site 1224746001336 substrate binding site [chemical binding]; other site 1224746001337 putative catalytic residue [active] 1224746001338 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1224746001339 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1224746001340 RNase E interface [polypeptide binding]; other site 1224746001341 trimer interface [polypeptide binding]; other site 1224746001342 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1224746001343 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1224746001344 RNase E interface [polypeptide binding]; other site 1224746001345 trimer interface [polypeptide binding]; other site 1224746001346 active site 1224746001347 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1224746001348 putative nucleic acid binding region [nucleotide binding]; other site 1224746001349 G-X-X-G motif; other site 1224746001350 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1224746001351 RNA binding site [nucleotide binding]; other site 1224746001352 domain interface; other site 1224746001353 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 1224746001354 16S/18S rRNA binding site [nucleotide binding]; other site 1224746001355 S13e-L30e interaction site [polypeptide binding]; other site 1224746001356 25S rRNA binding site [nucleotide binding]; other site 1224746001357 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1224746001358 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1224746001359 RNA binding site [nucleotide binding]; other site 1224746001360 active site 1224746001361 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1224746001362 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1224746001363 translation initiation factor IF-2; Region: IF-2; TIGR00487 1224746001364 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1224746001365 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1224746001366 G1 box; other site 1224746001367 putative GEF interaction site [polypeptide binding]; other site 1224746001368 GTP/Mg2+ binding site [chemical binding]; other site 1224746001369 Switch I region; other site 1224746001370 G2 box; other site 1224746001371 G3 box; other site 1224746001372 Switch II region; other site 1224746001373 G4 box; other site 1224746001374 G5 box; other site 1224746001375 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1224746001376 Translation-initiation factor 2; Region: IF-2; pfam11987 1224746001377 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1224746001378 hypothetical protein; Provisional; Region: PRK09190 1224746001379 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1224746001380 putative RNA binding cleft [nucleotide binding]; other site 1224746001381 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1224746001382 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1224746001383 NusA N-terminal domain; Region: NusA_N; pfam08529 1224746001384 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 1224746001385 RNA binding site [nucleotide binding]; other site 1224746001386 homodimer interface [polypeptide binding]; other site 1224746001387 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 1224746001388 G-X-X-G motif; other site 1224746001389 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 1224746001390 G-X-X-G motif; other site 1224746001391 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1224746001392 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1224746001393 Sm and related proteins; Region: Sm_like; cl00259 1224746001394 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1224746001395 putative oligomer interface [polypeptide binding]; other site 1224746001396 putative RNA binding site [nucleotide binding]; other site 1224746001397 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1224746001398 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 1224746001399 Walker A motif; other site 1224746001400 ATP binding site [chemical binding]; other site 1224746001401 Walker B motif; other site 1224746001402 arginine finger; other site 1224746001403 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1224746001404 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 1224746001405 substrate binding pocket [chemical binding]; other site 1224746001406 membrane-bound complex binding site; other site 1224746001407 hinge residues; other site 1224746001408 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1224746001409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746001410 dimer interface [polypeptide binding]; other site 1224746001411 conserved gate region; other site 1224746001412 putative PBP binding loops; other site 1224746001413 ABC-ATPase subunit interface; other site 1224746001414 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1224746001415 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1224746001416 Walker A/P-loop; other site 1224746001417 ATP binding site [chemical binding]; other site 1224746001418 Q-loop/lid; other site 1224746001419 ABC transporter signature motif; other site 1224746001420 Walker B; other site 1224746001421 D-loop; other site 1224746001422 H-loop/switch region; other site 1224746001423 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1224746001424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746001425 Walker A/P-loop; other site 1224746001426 ATP binding site [chemical binding]; other site 1224746001427 Q-loop/lid; other site 1224746001428 ABC transporter signature motif; other site 1224746001429 Walker B; other site 1224746001430 D-loop; other site 1224746001431 H-loop/switch region; other site 1224746001432 CcmB protein; Region: CcmB; pfam03379 1224746001433 Hint domain; Region: Hint_2; pfam13403 1224746001434 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 1224746001435 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1224746001436 C-terminal peptidase (prc); Region: prc; TIGR00225 1224746001437 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1224746001438 protein binding site [polypeptide binding]; other site 1224746001439 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 1224746001440 Domain interface; other site 1224746001441 Peptide binding site; other site 1224746001442 Active site tetrad [active] 1224746001443 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1224746001444 Predicted membrane protein [Function unknown]; Region: COG1238 1224746001445 polyol permease family; Region: 2A0118; TIGR00897 1224746001446 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746001447 putative substrate translocation pore; other site 1224746001448 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746001449 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 1224746001450 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746001451 catalytic residue [active] 1224746001452 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1224746001453 active site 1224746001454 Fe-S cluster binding site [ion binding]; other site 1224746001455 TPR repeat; Region: TPR_11; pfam13414 1224746001456 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 1224746001457 binding surface 1224746001458 TPR motif; other site 1224746001459 TPR repeat; Region: TPR_11; pfam13414 1224746001460 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 1224746001461 TPR motif; other site 1224746001462 binding surface 1224746001463 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1224746001464 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1224746001465 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746001466 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 1224746001467 active site 1224746001468 phosphorylation site [posttranslational modification] 1224746001469 intermolecular recognition site; other site 1224746001470 dimerization interface [polypeptide binding]; other site 1224746001471 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1224746001472 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 1224746001473 active site 1224746001474 phosphorylation site [posttranslational modification] 1224746001475 intermolecular recognition site; other site 1224746001476 CheB methylesterase; Region: CheB_methylest; pfam01339 1224746001477 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1224746001478 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1224746001479 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1224746001480 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1224746001481 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1224746001482 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 1224746001483 putative binding surface; other site 1224746001484 active site 1224746001485 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1224746001486 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 1224746001487 ATP binding site [chemical binding]; other site 1224746001488 Mg2+ binding site [ion binding]; other site 1224746001489 G-X-G motif; other site 1224746001490 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1224746001491 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746001492 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 1224746001493 active site 1224746001494 phosphorylation site [posttranslational modification] 1224746001495 intermolecular recognition site; other site 1224746001496 dimerization interface [polypeptide binding]; other site 1224746001497 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 1224746001498 anti sigma factor interaction site; other site 1224746001499 regulatory phosphorylation site [posttranslational modification]; other site 1224746001500 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1224746001501 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1224746001502 dimer interface [polypeptide binding]; other site 1224746001503 putative CheW interface [polypeptide binding]; other site 1224746001504 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1224746001505 catalytic motif [active] 1224746001506 Catalytic residue [active] 1224746001507 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1224746001508 catalytic motif [active] 1224746001509 Catalytic residue [active] 1224746001510 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1224746001511 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1224746001512 Walker A/P-loop; other site 1224746001513 ATP binding site [chemical binding]; other site 1224746001514 Q-loop/lid; other site 1224746001515 ABC transporter signature motif; other site 1224746001516 Walker B; other site 1224746001517 D-loop; other site 1224746001518 H-loop/switch region; other site 1224746001519 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1224746001520 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1224746001521 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1224746001522 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 1224746001523 FeS/SAM binding site; other site 1224746001524 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 1224746001525 Ligand Binding Site [chemical binding]; other site 1224746001526 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 1224746001527 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1224746001528 homodecamer interface [polypeptide binding]; other site 1224746001529 GTP cyclohydrolase I; Provisional; Region: PLN03044 1224746001530 active site 1224746001531 putative catalytic site residues [active] 1224746001532 zinc binding site [ion binding]; other site 1224746001533 GTP-CH-I/GFRP interaction surface; other site 1224746001534 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 1224746001535 homooctamer interface [polypeptide binding]; other site 1224746001536 active site 1224746001537 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 1224746001538 catalytic center binding site [active] 1224746001539 ATP binding site [chemical binding]; other site 1224746001540 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1224746001541 dihydropteroate synthase; Region: DHPS; TIGR01496 1224746001542 substrate binding pocket [chemical binding]; other site 1224746001543 dimer interface [polypeptide binding]; other site 1224746001544 inhibitor binding site; inhibition site 1224746001545 PAS domain; Region: PAS_9; pfam13426 1224746001546 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746001547 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746001548 metal binding site [ion binding]; metal-binding site 1224746001549 active site 1224746001550 I-site; other site 1224746001551 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 1224746001552 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1224746001553 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 1224746001554 catalytic residues [active] 1224746001555 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1224746001556 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1224746001557 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1224746001558 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1224746001559 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 1224746001560 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1224746001561 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1224746001562 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1224746001563 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1224746001564 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1224746001565 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1224746001566 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1224746001567 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1224746001568 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1224746001569 recombinase A; Provisional; Region: recA; PRK09354 1224746001570 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 1224746001571 hexamer interface [polypeptide binding]; other site 1224746001572 Walker A motif; other site 1224746001573 ATP binding site [chemical binding]; other site 1224746001574 Walker B motif; other site 1224746001575 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1224746001576 dinuclear metal binding motif [ion binding]; other site 1224746001577 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1224746001578 dinuclear metal binding motif [ion binding]; other site 1224746001579 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1224746001580 Clp protease; Region: CLP_protease; pfam00574 1224746001581 oligomer interface [polypeptide binding]; other site 1224746001582 active site residues [active] 1224746001583 OmpA family; Region: OmpA; pfam00691 1224746001584 ligand binding site [chemical binding]; other site 1224746001585 aminotransferase; Validated; Region: PRK09148 1224746001586 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 1224746001587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746001588 homodimer interface [polypeptide binding]; other site 1224746001589 catalytic residue [active] 1224746001590 homoserine dehydrogenase; Provisional; Region: PRK06349 1224746001591 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1224746001592 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1224746001593 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1224746001594 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 1224746001595 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1224746001596 putative active site [active] 1224746001597 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1224746001598 DHH family; Region: DHH; pfam01368 1224746001599 DHHA1 domain; Region: DHHA1; pfam02272 1224746001600 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 1224746001601 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1224746001602 active site 1224746001603 DNA binding site [nucleotide binding] 1224746001604 Int/Topo IB signature motif; other site 1224746001605 Helix-turn-helix domain; Region: HTH_17; cl17695 1224746001606 Integral membrane protein S linking to the trans Golgi network; Region: SYS1; pfam09801 1224746001607 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1224746001608 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1224746001609 putative active site [active] 1224746001610 putative PHP Thumb interface [polypeptide binding]; other site 1224746001611 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1224746001612 generic binding surface II; other site 1224746001613 generic binding surface I; other site 1224746001614 DNA Polymerase Y-family; Region: PolY_like; cd03468 1224746001615 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1224746001616 DNA binding site [nucleotide binding] 1224746001617 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1224746001618 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1224746001619 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1224746001620 potential catalytic triad [active] 1224746001621 conserved cys residue [active] 1224746001622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746001623 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1224746001624 NAD(P) binding site [chemical binding]; other site 1224746001625 active site 1224746001626 Cupin; Region: Cupin_6; pfam12852 1224746001627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746001628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746001629 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 1224746001630 putative substrate binding pocket [chemical binding]; other site 1224746001631 putative dimerization interface [polypeptide binding]; other site 1224746001632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746001633 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1224746001634 NAD(P) binding site [chemical binding]; other site 1224746001635 active site 1224746001636 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1224746001637 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 1224746001638 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1224746001639 putative NAD(P) binding site [chemical binding]; other site 1224746001640 putative active site [active] 1224746001641 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1224746001642 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1224746001643 potential catalytic triad [active] 1224746001644 conserved cys residue [active] 1224746001645 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1224746001646 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1224746001647 DNA binding residues [nucleotide binding] 1224746001648 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746001649 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746001650 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746001651 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 1224746001652 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1224746001653 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 1224746001654 Cupin; Region: Cupin_1; smart00835 1224746001655 Cupin; Region: Cupin_1; smart00835 1224746001656 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 1224746001657 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1224746001658 putative active site [active] 1224746001659 heme pocket [chemical binding]; other site 1224746001660 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1224746001661 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 1224746001662 dimer interface [polypeptide binding]; other site 1224746001663 phosphorylation site [posttranslational modification] 1224746001664 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 1224746001665 ATP binding site [chemical binding]; other site 1224746001666 Mg2+ binding site [ion binding]; other site 1224746001667 G-X-G motif; other site 1224746001668 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1224746001669 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 1224746001670 active site 1224746001671 phosphorylation site [posttranslational modification] 1224746001672 intermolecular recognition site; other site 1224746001673 dimerization interface [polypeptide binding]; other site 1224746001674 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 1224746001675 DNA binding residues [nucleotide binding] 1224746001676 dimerization interface [polypeptide binding]; other site 1224746001677 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 1224746001678 Cupin; Region: Cupin_1; smart00835 1224746001679 Cupin; Region: Cupin_1; smart00835 1224746001680 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1224746001681 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 1224746001682 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1224746001683 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1224746001684 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1224746001685 putative molybdopterin cofactor binding site [chemical binding]; other site 1224746001686 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1224746001687 putative molybdopterin cofactor binding site; other site 1224746001688 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 1224746001689 Cupin domain; Region: Cupin_2; cl17218 1224746001690 Cupin domain; Region: Cupin_2; pfam07883 1224746001691 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1224746001692 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1224746001693 classical (c) SDRs; Region: SDR_c; cd05233 1224746001694 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 1224746001695 NAD(P) binding site [chemical binding]; other site 1224746001696 active site 1224746001697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746001698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746001699 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 1224746001700 putative effector binding pocket; other site 1224746001701 dimerization interface [polypeptide binding]; other site 1224746001702 Integrase core domain; Region: rve; pfam00665 1224746001703 Integrase core domain; Region: rve; pfam00665 1224746001704 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1224746001705 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746001706 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1224746001707 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 1224746001708 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 1224746001709 non-specific DNA binding site [nucleotide binding]; other site 1224746001710 salt bridge; other site 1224746001711 sequence-specific DNA binding site [nucleotide binding]; other site 1224746001712 Predicted transcriptional regulator [Transcription]; Region: COG2932 1224746001713 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 1224746001714 Catalytic site [active] 1224746001715 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1224746001716 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1224746001717 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1224746001718 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 1224746001719 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 1224746001720 active site 1224746001721 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1224746001722 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1224746001723 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 1224746001724 FAD binding pocket [chemical binding]; other site 1224746001725 FAD binding motif [chemical binding]; other site 1224746001726 phosphate binding motif [ion binding]; other site 1224746001727 NAD binding pocket [chemical binding]; other site 1224746001728 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1224746001729 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1224746001730 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1224746001731 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1224746001732 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1224746001733 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1224746001734 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1224746001735 Sel1-like repeats; Region: SEL1; smart00671 1224746001736 Sel1-like repeats; Region: SEL1; smart00671 1224746001737 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746001738 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 1224746001739 N-terminal plug; other site 1224746001740 ligand-binding site [chemical binding]; other site 1224746001741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746001742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746001743 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 1224746001744 putative substrate binding pocket [chemical binding]; other site 1224746001745 putative dimerization interface [polypeptide binding]; other site 1224746001746 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1224746001747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746001748 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1224746001749 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746001750 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746001751 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746001752 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 1224746001753 PAS domain; Region: PAS_9; pfam13426 1224746001754 putative active site [active] 1224746001755 heme pocket [chemical binding]; other site 1224746001756 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746001757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746001758 metal binding site [ion binding]; metal-binding site 1224746001759 active site 1224746001760 I-site; other site 1224746001761 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 1224746001762 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746001763 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 1224746001764 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746001765 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 1224746001766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746001767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746001768 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746001769 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1224746001770 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 1224746001771 non-specific DNA binding site [nucleotide binding]; other site 1224746001772 salt bridge; other site 1224746001773 sequence-specific DNA binding site [nucleotide binding]; other site 1224746001774 Cupin domain; Region: Cupin_2; pfam07883 1224746001775 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1224746001776 Putative phosphatase (DUF442); Region: DUF442; cl17385 1224746001777 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1224746001778 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1224746001779 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1224746001780 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1224746001781 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 1224746001782 dimerization interface [polypeptide binding]; other site 1224746001783 putative DNA binding site [nucleotide binding]; other site 1224746001784 putative Zn2+ binding site [ion binding]; other site 1224746001785 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1224746001786 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1224746001787 DNA binding site [nucleotide binding] 1224746001788 domain linker motif; other site 1224746001789 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_3; cd06279 1224746001790 putative dimerization interface [polypeptide binding]; other site 1224746001791 putative ligand binding site [chemical binding]; other site 1224746001792 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1224746001793 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 1224746001794 motif II; other site 1224746001795 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 1224746001796 FAD binding site [chemical binding]; other site 1224746001797 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 1224746001798 dimerization interface [polypeptide binding]; other site 1224746001799 putative DNA binding site [nucleotide binding]; other site 1224746001800 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1224746001801 putative Zn2+ binding site [ion binding]; other site 1224746001802 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 1224746001803 S-adenosylmethionine binding site [chemical binding]; other site 1224746001804 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 1224746001805 zinc-binding site [ion binding]; other site 1224746001806 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1224746001807 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1224746001808 active site 1224746001809 Zn binding site [ion binding]; other site 1224746001810 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1224746001811 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 1224746001812 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1224746001813 active site 1224746001814 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 1224746001815 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1224746001816 intersubunit interface [polypeptide binding]; other site 1224746001817 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1224746001818 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1224746001819 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1224746001820 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 1224746001821 ABC-ATPase subunit interface; other site 1224746001822 dimer interface [polypeptide binding]; other site 1224746001823 putative PBP binding regions; other site 1224746001824 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746001825 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1224746001826 Cytochrome c; Region: Cytochrom_C; pfam00034 1224746001827 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1224746001828 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 1224746001829 catalytic loop [active] 1224746001830 iron binding site [ion binding]; other site 1224746001831 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1224746001832 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1224746001833 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746001834 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1224746001835 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746001836 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746001837 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1224746001838 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 1224746001839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746001840 catalytic residue [active] 1224746001841 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746001842 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 1224746001843 putative DNA binding site [nucleotide binding]; other site 1224746001844 putative Zn2+ binding site [ion binding]; other site 1224746001845 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746001846 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1224746001847 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1224746001848 active site 1224746001849 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1224746001850 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1224746001851 putative acyl-acceptor binding pocket; other site 1224746001852 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1224746001853 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 1224746001854 active site 1224746001855 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1224746001856 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1224746001857 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746001858 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 1224746001859 putative ADP-binding pocket [chemical binding]; other site 1224746001860 potential frameshift: common BLAST hit: gi|58039061|ref|YP_191025.1| Zinc protease 1224746001861 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1224746001862 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1224746001863 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1224746001864 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1224746001865 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1224746001866 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 1224746001867 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1224746001868 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1224746001869 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1224746001870 Probable Catalytic site; other site 1224746001871 metal-binding site 1224746001872 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746001873 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1224746001874 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 1224746001875 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1224746001876 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 1224746001877 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746001878 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1224746001879 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1224746001880 RNA binding site [nucleotide binding]; other site 1224746001881 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 1224746001882 RNA binding site [nucleotide binding]; other site 1224746001883 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 1224746001884 RNA binding site [nucleotide binding]; other site 1224746001885 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 1224746001886 RNA binding site [nucleotide binding]; other site 1224746001887 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 1224746001888 RNA binding site [nucleotide binding]; other site 1224746001889 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 1224746001890 RNA binding site [nucleotide binding]; other site 1224746001891 cytidylate kinase; Provisional; Region: cmk; PRK00023 1224746001892 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 1224746001893 CMP-binding site; other site 1224746001894 The sites determining sugar specificity; other site 1224746001895 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1224746001896 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 1224746001897 hinge; other site 1224746001898 active site 1224746001899 short chain dehydrogenase; Provisional; Region: PRK09134 1224746001900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746001901 NAD(P) binding site [chemical binding]; other site 1224746001902 active site 1224746001903 recombination protein RecR; Reviewed; Region: recR; PRK00076 1224746001904 RecR protein; Region: RecR; pfam02132 1224746001905 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 1224746001906 putative active site [active] 1224746001907 putative metal-binding site [ion binding]; other site 1224746001908 tetramer interface [polypeptide binding]; other site 1224746001909 hypothetical protein; Validated; Region: PRK00153 1224746001910 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1224746001911 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 1224746001912 Walker A motif; other site 1224746001913 ATP binding site [chemical binding]; other site 1224746001914 Walker B motif; other site 1224746001915 arginine finger; other site 1224746001916 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1224746001917 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1224746001918 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1224746001919 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1224746001920 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 1224746001921 active site 1224746001922 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1224746001923 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1224746001924 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1224746001925 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1224746001926 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 1224746001927 Walker A motif; other site 1224746001928 ATP binding site [chemical binding]; other site 1224746001929 Walker B motif; other site 1224746001930 arginine finger; other site 1224746001931 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 1224746001932 Walker A motif; other site 1224746001933 ATP binding site [chemical binding]; other site 1224746001934 Walker B motif; other site 1224746001935 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1224746001936 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 1224746001937 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1224746001938 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1224746001939 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1224746001940 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1224746001941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746001942 putative substrate translocation pore; other site 1224746001943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746001944 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1224746001945 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1224746001946 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1224746001947 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1224746001948 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1224746001949 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1224746001950 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1224746001951 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1224746001952 Ligand binding site [chemical binding]; other site 1224746001953 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1224746001954 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1224746001955 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1224746001956 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1224746001957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746001958 NAD(P) binding site [chemical binding]; other site 1224746001959 active site 1224746001960 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1224746001961 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1224746001962 active site 1224746001963 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1224746001964 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1224746001965 MOFRL family; Region: MOFRL; pfam05161 1224746001966 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1224746001967 Coenzyme A transferase; Region: CoA_trans; smart00882 1224746001968 Coenzyme A transferase; Region: CoA_trans; cl17247 1224746001969 choline dehydrogenase; Validated; Region: PRK02106 1224746001970 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1224746001971 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1224746001972 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1224746001973 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1224746001974 NAD(P) binding site [chemical binding]; other site 1224746001975 catalytic residues [active] 1224746001976 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746001977 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746001978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746001979 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746001980 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746001981 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1224746001982 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1224746001983 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746001984 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1224746001985 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746001986 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746001987 Integrase core domain; Region: rve; pfam00665 1224746001988 Integrase core domain; Region: rve_3; cl15866 1224746001989 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746001990 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746001991 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1224746001992 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1224746001993 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746001994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1224746001995 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1224746001996 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746001997 Winged helix-turn helix; Region: HTH_29; pfam13551 1224746001998 Helix-turn-helix domain; Region: HTH_28; pfam13518 1224746001999 Integrase core domain; Region: rve; pfam00665 1224746002000 Integrase core domain; Region: rve_3; cl15866 1224746002001 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1224746002002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746002003 D-loop; other site 1224746002004 H-loop/switch region; other site 1224746002005 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746002006 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1224746002007 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1224746002008 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1224746002009 Rod binding protein; Region: Rod-binding; pfam10135 1224746002010 FlgN protein; Region: FlgN; cl09176 1224746002011 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1224746002012 Domain of unknown function DUF21; Region: DUF21; pfam01595 1224746002013 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 1224746002014 Transporter associated domain; Region: CorC_HlyC; smart01091 1224746002015 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 1224746002016 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 1224746002017 FeS/SAM binding site; other site 1224746002018 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 1224746002019 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1224746002020 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 1224746002021 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1224746002022 ligand binding site; other site 1224746002023 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 1224746002024 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1224746002025 B12 binding site [chemical binding]; other site 1224746002026 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 1224746002027 FeS/SAM binding site; other site 1224746002028 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 1224746002029 putative active site [active] 1224746002030 YdjC motif; other site 1224746002031 Mg binding site [ion binding]; other site 1224746002032 putative homodimer interface [polypeptide binding]; other site 1224746002033 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1224746002034 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1224746002035 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1224746002036 substrate binding site [chemical binding]; other site 1224746002037 ATP binding site [chemical binding]; other site 1224746002038 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1224746002039 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1224746002040 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746002041 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746002042 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746002043 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746002044 GcrA cell cycle regulator; Region: GcrA; cl11564 1224746002045 GcrA cell cycle regulator; Region: GcrA; cl11564 1224746002046 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1224746002047 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1224746002048 catalytic site [active] 1224746002049 putative active site [active] 1224746002050 putative substrate binding site [chemical binding]; other site 1224746002051 HRDC domain; Region: HRDC; pfam00570 1224746002052 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 1224746002053 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1224746002054 catalytic residues [active] 1224746002055 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1224746002056 Family description; Region: UvrD_C_2; pfam13538 1224746002057 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1224746002058 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1224746002059 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1224746002060 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1224746002061 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1224746002062 putative catalytic site [active] 1224746002063 putative metal binding site [ion binding]; other site 1224746002064 putative phosphate binding site [ion binding]; other site 1224746002065 Hint domain; Region: Hint_2; pfam13403 1224746002066 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; pfam13579 1224746002067 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1224746002068 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746002069 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1224746002070 putative ADP-binding pocket [chemical binding]; other site 1224746002071 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1224746002072 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746002073 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1224746002074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1224746002075 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1224746002076 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1224746002077 G1 box; other site 1224746002078 putative GEF interaction site [polypeptide binding]; other site 1224746002079 GTP/Mg2+ binding site [chemical binding]; other site 1224746002080 Switch I region; other site 1224746002081 G2 box; other site 1224746002082 G3 box; other site 1224746002083 Switch II region; other site 1224746002084 G4 box; other site 1224746002085 G5 box; other site 1224746002086 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 1224746002087 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 1224746002088 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1224746002089 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 1224746002090 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1224746002091 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1224746002092 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1224746002093 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1224746002094 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 1224746002095 N-terminal plug; other site 1224746002096 ligand-binding site [chemical binding]; other site 1224746002097 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1224746002098 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 1224746002099 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746002100 active site 1224746002101 catalytic tetrad [active] 1224746002102 PAS fold; Region: PAS_4; pfam08448 1224746002103 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1224746002104 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 1224746002105 putative active site [active] 1224746002106 PAS fold; Region: PAS_3; pfam08447 1224746002107 heme pocket [chemical binding]; other site 1224746002108 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1224746002109 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1224746002110 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 1224746002111 PAS domain; Region: PAS_9; pfam13426 1224746002112 putative active site [active] 1224746002113 heme pocket [chemical binding]; other site 1224746002114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1224746002115 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 1224746002116 dimer interface [polypeptide binding]; other site 1224746002117 phosphorylation site [posttranslational modification] 1224746002118 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 1224746002119 ATP binding site [chemical binding]; other site 1224746002120 Mg2+ binding site [ion binding]; other site 1224746002121 G-X-G motif; other site 1224746002122 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1224746002123 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 1224746002124 active site 1224746002125 phosphorylation site [posttranslational modification] 1224746002126 intermolecular recognition site; other site 1224746002127 dimerization interface [polypeptide binding]; other site 1224746002128 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1224746002129 classical (c) SDRs; Region: SDR_c; cd05233 1224746002130 NAD(P) binding site [chemical binding]; other site 1224746002131 active site 1224746002132 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1224746002133 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 1224746002134 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1224746002135 active site 1224746002136 catalytic site [active] 1224746002137 glycogen synthase; Provisional; Region: glgA; PRK00654 1224746002138 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1224746002139 ADP-binding pocket [chemical binding]; other site 1224746002140 homodimer interface [polypeptide binding]; other site 1224746002141 glycogen branching enzyme; Provisional; Region: PRK05402 1224746002142 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1224746002143 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1224746002144 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1224746002145 active site 1224746002146 catalytic site [active] 1224746002147 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1224746002148 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1224746002149 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1224746002150 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1224746002151 catalytic site [active] 1224746002152 active site 1224746002153 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1224746002154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1224746002155 Putative glucoamylase; Region: Glycoamylase; pfam10091 1224746002156 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1224746002157 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1224746002158 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1224746002159 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1224746002160 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1224746002161 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746002162 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1224746002163 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 1224746002164 catalytic loop [active] 1224746002165 iron binding site [ion binding]; other site 1224746002166 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1224746002167 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1224746002168 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746002169 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 1224746002170 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 1224746002171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746002172 DNA-binding site [nucleotide binding]; DNA binding site 1224746002173 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 1224746002174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002175 homodimer interface [polypeptide binding]; other site 1224746002176 catalytic residue [active] 1224746002177 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1224746002178 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1224746002179 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746002180 Walker A/P-loop; other site 1224746002181 ATP binding site [chemical binding]; other site 1224746002182 Q-loop/lid; other site 1224746002183 ABC transporter signature motif; other site 1224746002184 Walker B; other site 1224746002185 D-loop; other site 1224746002186 H-loop/switch region; other site 1224746002187 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1224746002188 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1224746002189 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746002190 Walker A/P-loop; other site 1224746002191 ATP binding site [chemical binding]; other site 1224746002192 Q-loop/lid; other site 1224746002193 ABC transporter signature motif; other site 1224746002194 Walker B; other site 1224746002195 D-loop; other site 1224746002196 H-loop/switch region; other site 1224746002197 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1224746002198 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1224746002199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746002200 dimer interface [polypeptide binding]; other site 1224746002201 conserved gate region; other site 1224746002202 putative PBP binding loops; other site 1224746002203 ABC-ATPase subunit interface; other site 1224746002204 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1224746002205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746002206 dimer interface [polypeptide binding]; other site 1224746002207 conserved gate region; other site 1224746002208 ABC-ATPase subunit interface; other site 1224746002209 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1224746002210 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 1224746002211 dimer interface [polypeptide binding]; other site 1224746002212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002213 catalytic residue [active] 1224746002214 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1224746002215 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1224746002216 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1224746002217 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 1224746002218 metal-binding site [ion binding] 1224746002219 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1224746002220 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1224746002221 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1224746002222 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1224746002223 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1224746002224 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1224746002225 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 1224746002226 N-terminal plug; other site 1224746002227 ligand-binding site [chemical binding]; other site 1224746002228 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 1224746002229 metal-binding site [ion binding] 1224746002230 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1224746002231 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1224746002232 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1224746002233 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1224746002234 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1224746002235 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1224746002236 putative homodimer interface [polypeptide binding]; other site 1224746002237 putative homotetramer interface [polypeptide binding]; other site 1224746002238 putative allosteric switch controlling residues; other site 1224746002239 putative metal binding site [ion binding]; other site 1224746002240 putative homodimer-homodimer interface [polypeptide binding]; other site 1224746002241 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1224746002242 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1224746002243 ferrous iron transporter FeoB; Region: feoB; TIGR00437 1224746002244 G1 box; other site 1224746002245 GTP/Mg2+ binding site [chemical binding]; other site 1224746002246 Switch I region; other site 1224746002247 G2 box; other site 1224746002248 G3 box; other site 1224746002249 Switch II region; other site 1224746002250 G4 box; other site 1224746002251 G5 box; other site 1224746002252 Nucleoside recognition; Region: Gate; pfam07670 1224746002253 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1224746002254 Nucleoside recognition; Region: Gate; pfam07670 1224746002255 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746002256 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 1224746002257 N-terminal plug; other site 1224746002258 ligand-binding site [chemical binding]; other site 1224746002259 benzoate transport; Region: 2A0115; TIGR00895 1224746002260 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746002261 putative substrate translocation pore; other site 1224746002262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746002263 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1224746002264 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1224746002265 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1224746002266 active site 1224746002267 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746002268 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746002269 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746002270 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746002271 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746002272 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1224746002273 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1224746002274 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1224746002275 Glutamate binding site [chemical binding]; other site 1224746002276 NAD binding site [chemical binding]; other site 1224746002277 catalytic residues [active] 1224746002278 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1224746002279 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746002280 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 1224746002281 putative DNA binding site [nucleotide binding]; other site 1224746002282 putative Zn2+ binding site [ion binding]; other site 1224746002283 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746002284 Sulfatase; Region: Sulfatase; cl17466 1224746002285 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1224746002286 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1224746002287 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1224746002288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746002289 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1224746002290 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1224746002291 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1224746002292 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1224746002293 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746002294 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1224746002295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746002296 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1224746002297 AAA domain; Region: AAA_11; pfam13086 1224746002298 Part of AAA domain; Region: AAA_19; pfam13245 1224746002299 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1224746002300 AAA domain; Region: AAA_12; pfam13087 1224746002301 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1224746002302 putative active site [active] 1224746002303 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 1224746002304 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 1224746002305 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1224746002306 gamma subunit interface [polypeptide binding]; other site 1224746002307 epsilon subunit interface [polypeptide binding]; other site 1224746002308 LBP interface [polypeptide binding]; other site 1224746002309 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1224746002310 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1224746002311 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 1224746002312 alpha subunit interaction interface [polypeptide binding]; other site 1224746002313 Walker A motif; other site 1224746002314 ATP binding site [chemical binding]; other site 1224746002315 Walker B motif; other site 1224746002316 inhibitor binding site; inhibition site 1224746002317 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1224746002318 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1224746002319 core domain interface [polypeptide binding]; other site 1224746002320 delta subunit interface [polypeptide binding]; other site 1224746002321 epsilon subunit interface [polypeptide binding]; other site 1224746002322 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1224746002323 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1224746002324 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 1224746002325 beta subunit interaction interface [polypeptide binding]; other site 1224746002326 Walker A motif; other site 1224746002327 ATP binding site [chemical binding]; other site 1224746002328 Walker B motif; other site 1224746002329 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1224746002330 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1224746002331 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1224746002332 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1224746002333 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1224746002334 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1224746002335 putative homodimer interface [polypeptide binding]; other site 1224746002336 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1224746002337 heterodimer interface [polypeptide binding]; other site 1224746002338 homodimer interface [polypeptide binding]; other site 1224746002339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1224746002340 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1224746002341 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1224746002342 mce related protein; Region: MCE; pfam02470 1224746002343 mce related protein; Region: MCE; pfam02470 1224746002344 mce related protein; Region: MCE; pfam02470 1224746002345 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1224746002346 Paraquat-inducible protein A; Region: PqiA; pfam04403 1224746002347 Paraquat-inducible protein A; Region: PqiA; pfam04403 1224746002348 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1224746002349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746002350 catalytic residue [active] 1224746002351 allantoate amidohydrolase; Reviewed; Region: PRK09290 1224746002352 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1224746002353 active site 1224746002354 metal binding site [ion binding]; metal-binding site 1224746002355 dimer interface [polypeptide binding]; other site 1224746002356 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746002357 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746002358 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 1224746002359 dimerization interface [polypeptide binding]; other site 1224746002360 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1224746002361 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1224746002362 amidase; Provisional; Region: PRK09201 1224746002363 Amidase; Region: Amidase; cl11426 1224746002364 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 1224746002365 SnoaL-like domain; Region: SnoaL_3; pfam13474 1224746002366 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1224746002367 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1224746002368 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1224746002369 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1224746002370 nucleotide binding site [chemical binding]; other site 1224746002371 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 1224746002372 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 1224746002373 dimer interface [polypeptide binding]; other site 1224746002374 active site 1224746002375 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 1224746002376 L-fucose transporter; Provisional; Region: PRK10133; cl17665 1224746002377 glucose/galactose transporter; Region: gluP; TIGR01272 1224746002378 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1224746002379 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 1224746002380 active site 1224746002381 dimer interface [polypeptide binding]; other site 1224746002382 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746002383 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 1224746002384 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1224746002385 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 1224746002386 active site 1224746002387 trimer interface [polypeptide binding]; other site 1224746002388 allosteric site; other site 1224746002389 active site lid [active] 1224746002390 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1224746002391 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1224746002392 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1224746002393 Ca binding site [ion binding]; other site 1224746002394 active site 1224746002395 catalytic site [active] 1224746002396 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 1224746002397 dimer interface [polypeptide binding]; other site 1224746002398 active site 1224746002399 histidinol-phosphatase; Region: hisB_Nterm; TIGR01261 1224746002400 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 1224746002401 active site 1224746002402 motif I; other site 1224746002403 motif II; other site 1224746002404 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1224746002405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746002406 NAD(P) binding site [chemical binding]; other site 1224746002407 active site 1224746002408 Entericidin EcnA/B family; Region: Entericidin; cl02322 1224746002409 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746002410 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1224746002411 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1224746002412 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1224746002413 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1224746002414 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1224746002415 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1224746002416 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1224746002417 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1224746002418 peptide chain release factor 2; Provisional; Region: PRK07342 1224746002419 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1224746002420 RF-1 domain; Region: RF-1; pfam00472 1224746002421 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1224746002422 Transglycosylase; Region: Transgly; pfam00912 1224746002423 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1224746002424 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1224746002425 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 1224746002426 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746002427 active site 1224746002428 catalytic tetrad [active] 1224746002429 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1224746002430 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1224746002431 ribonuclease PH; Reviewed; Region: rph; PRK00173 1224746002432 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1224746002433 oligomer interface [polypeptide binding]; other site 1224746002434 RNA binding site [nucleotide binding]; other site 1224746002435 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 1224746002436 active site 1224746002437 dimerization interface [polypeptide binding]; other site 1224746002438 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1224746002439 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 1224746002440 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 1224746002441 active site 1224746002442 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1224746002443 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1224746002444 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1224746002445 Walker A/P-loop; other site 1224746002446 ATP binding site [chemical binding]; other site 1224746002447 Q-loop/lid; other site 1224746002448 ABC transporter signature motif; other site 1224746002449 Walker B; other site 1224746002450 D-loop; other site 1224746002451 H-loop/switch region; other site 1224746002452 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1224746002453 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1224746002454 minor groove reading motif; other site 1224746002455 helix-hairpin-helix signature motif; other site 1224746002456 substrate binding pocket [chemical binding]; other site 1224746002457 active site 1224746002458 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1224746002459 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1224746002460 Competence protein; Region: Competence; pfam03772 1224746002461 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1224746002462 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1224746002463 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1224746002464 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1224746002465 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1224746002466 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746002467 active site 1224746002468 HIGH motif; other site 1224746002469 nucleotide binding site [chemical binding]; other site 1224746002470 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1224746002471 active site 1224746002472 KMSKS motif; other site 1224746002473 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1224746002474 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1224746002475 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1224746002476 dihydroorotase; Validated; Region: pyrC; PRK09357 1224746002477 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 1224746002478 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1224746002479 active site 1224746002480 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1224746002481 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1224746002482 DNA protecting protein DprA; Region: dprA; TIGR00732 1224746002483 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1224746002484 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 1224746002485 active site 1224746002486 interdomain interaction site; other site 1224746002487 putative metal-binding site [ion binding]; other site 1224746002488 nucleotide binding site [chemical binding]; other site 1224746002489 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 1224746002490 domain I; other site 1224746002491 DNA binding groove [nucleotide binding] 1224746002492 phosphate binding site [ion binding]; other site 1224746002493 domain II; other site 1224746002494 domain III; other site 1224746002495 nucleotide binding site [chemical binding]; other site 1224746002496 catalytic site [active] 1224746002497 domain IV; other site 1224746002498 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1224746002499 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1224746002500 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1224746002501 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1224746002502 protein binding site [polypeptide binding]; other site 1224746002503 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1224746002504 Catalytic dyad [active] 1224746002505 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 1224746002506 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1224746002507 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1224746002508 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1224746002509 ligand binding site [chemical binding]; other site 1224746002510 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1224746002511 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 1224746002512 Mg2+ binding site [ion binding]; other site 1224746002513 G-X-G motif; other site 1224746002514 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 1224746002515 anchoring element; other site 1224746002516 dimer interface [polypeptide binding]; other site 1224746002517 ATP binding site [chemical binding]; other site 1224746002518 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 1224746002519 active site 1224746002520 metal binding site [ion binding]; metal-binding site 1224746002521 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1224746002522 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1224746002523 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 1224746002524 classical (c) SDRs; Region: SDR_c; cd05233 1224746002525 NAD(P) binding site [chemical binding]; other site 1224746002526 active site 1224746002527 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1224746002528 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 1224746002529 TM-ABC transporter signature motif; other site 1224746002530 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1224746002531 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1224746002532 Walker A/P-loop; other site 1224746002533 ATP binding site [chemical binding]; other site 1224746002534 Q-loop/lid; other site 1224746002535 ABC transporter signature motif; other site 1224746002536 Walker B; other site 1224746002537 D-loop; other site 1224746002538 H-loop/switch region; other site 1224746002539 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1224746002540 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1224746002541 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1224746002542 putative ligand binding site [chemical binding]; other site 1224746002543 short chain dehydrogenase; Provisional; Region: PRK06841 1224746002544 classical (c) SDRs; Region: SDR_c; cd05233 1224746002545 NAD(P) binding site [chemical binding]; other site 1224746002546 active site 1224746002547 Helix-turn-helix domain; Region: HTH_18; pfam12833 1224746002548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746002549 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1224746002550 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1224746002551 D-lactate dehydrogenase; Provisional; Region: PRK11183 1224746002552 FAD binding domain; Region: FAD_binding_4; pfam01565 1224746002553 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1224746002554 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1224746002555 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1224746002556 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1224746002557 ATP binding site [chemical binding]; other site 1224746002558 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1224746002559 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1224746002560 lipoprotein signal peptidase; Provisional; Region: PRK14770 1224746002561 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1224746002562 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746002563 active site 1224746002564 HIGH motif; other site 1224746002565 nucleotide binding site [chemical binding]; other site 1224746002566 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1224746002567 active site 1224746002568 KMSKS motif; other site 1224746002569 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1224746002570 tRNA binding surface [nucleotide binding]; other site 1224746002571 anticodon binding site; other site 1224746002572 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1224746002573 TraB family; Region: TraB; pfam01963 1224746002574 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1224746002575 Sel1 repeat; Region: Sel1; cl02723 1224746002576 Sel1-like repeats; Region: SEL1; smart00671 1224746002577 Sel1-like repeats; Region: SEL1; smart00671 1224746002578 potential frameshift: common BLAST hit: gi|58039699|ref|YP_191663.1| TonB-dependent receptor protein 1224746002579 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1224746002580 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1224746002581 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1224746002582 active site 1224746002583 Riboflavin kinase; Region: Flavokinase; smart00904 1224746002584 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 1224746002585 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 1224746002586 active site 1224746002587 motif I; other site 1224746002588 motif II; other site 1224746002589 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1224746002590 Cupin domain; Region: Cupin_2; cl17218 1224746002591 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1224746002592 intersubunit interface [polypeptide binding]; other site 1224746002593 active site 1224746002594 Zn2+ binding site [ion binding]; other site 1224746002595 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1224746002596 CHAP domain; Region: CHAP; cl17642 1224746002597 RecX family; Region: RecX; cl00936 1224746002598 D-aminopeptidase; Reviewed; Region: PRK13128 1224746002599 Beta-lactamase; Region: Beta-lactamase; pfam00144 1224746002600 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 1224746002601 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 1224746002602 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1224746002603 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 1224746002604 inhibitor-cofactor binding pocket; inhibition site 1224746002605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002606 catalytic residue [active] 1224746002607 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1224746002608 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1224746002609 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1224746002610 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 1224746002611 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1224746002612 dimerization interface [polypeptide binding]; other site 1224746002613 domain crossover interface; other site 1224746002614 redox-dependent activation switch; other site 1224746002615 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1224746002616 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1224746002617 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1224746002618 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1224746002619 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746002620 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746002621 Cytochrome c; Region: Cytochrom_C; pfam00034 1224746002622 Baseplate J-like protein; Region: Baseplate_J; cl01294 1224746002623 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1224746002624 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1224746002625 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1224746002626 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1224746002627 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1224746002628 Phage terminase large subunit; Region: Terminase_3; cl12054 1224746002629 Terminase-like family; Region: Terminase_6; pfam03237 1224746002630 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1224746002631 replicative DNA helicase; Provisional; Region: PRK09165 1224746002632 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1224746002633 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 1224746002634 Walker A motif; other site 1224746002635 ATP binding site [chemical binding]; other site 1224746002636 Walker B motif; other site 1224746002637 DNA binding loops [nucleotide binding] 1224746002638 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1224746002639 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1224746002640 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1224746002641 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1224746002642 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1224746002643 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1224746002644 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 1224746002645 substrate binding site [chemical binding]; other site 1224746002646 active site 1224746002647 catalytic residues [active] 1224746002648 heterodimer interface [polypeptide binding]; other site 1224746002649 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1224746002650 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 1224746002651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002652 catalytic residue [active] 1224746002653 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1224746002654 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1224746002655 Cl binding site [ion binding]; other site 1224746002656 oligomer interface [polypeptide binding]; other site 1224746002657 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1224746002658 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1224746002659 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1224746002660 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1224746002661 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1224746002662 Rrf2 family protein; Region: rrf2_super; TIGR00738 1224746002663 Transcriptional regulator; Region: Rrf2; pfam02082 1224746002664 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1224746002665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1224746002666 active site 1224746002667 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1224746002668 dimer interface [polypeptide binding]; other site 1224746002669 substrate binding site [chemical binding]; other site 1224746002670 catalytic residues [active] 1224746002671 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746002672 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746002673 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1224746002674 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1224746002675 heme binding site [chemical binding]; other site 1224746002676 ferroxidase pore; other site 1224746002677 ferroxidase diiron center [ion binding]; other site 1224746002678 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1224746002679 AMP binding site [chemical binding]; other site 1224746002680 Integrase core domain; Region: rve; pfam00665 1224746002681 Integrase core domain; Region: rve_3; pfam13683 1224746002682 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1224746002683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746002684 NAD(P) binding site [chemical binding]; other site 1224746002685 active site 1224746002686 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1224746002687 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1224746002688 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 1224746002689 homotrimer interaction site [polypeptide binding]; other site 1224746002690 putative active site [active] 1224746002691 CHAP domain; Region: CHAP; cl17642 1224746002692 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1224746002693 Oligomerisation domain; Region: Oligomerisation; pfam02410 1224746002694 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1224746002695 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1224746002696 active site 1224746002697 (T/H)XGH motif; other site 1224746002698 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1224746002699 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1224746002700 putative catalytic cysteine [active] 1224746002701 GTP-binding protein YchF; Reviewed; Region: PRK09601 1224746002702 YchF GTPase; Region: YchF; cd01900 1224746002703 G1 box; other site 1224746002704 GTP/Mg2+ binding site [chemical binding]; other site 1224746002705 Switch I region; other site 1224746002706 G2 box; other site 1224746002707 Switch II region; other site 1224746002708 G3 box; other site 1224746002709 G4 box; other site 1224746002710 G5 box; other site 1224746002711 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 1224746002712 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1224746002713 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 1224746002714 CAAX protease self-immunity; Region: Abi; pfam02517 1224746002715 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 1224746002716 putative active site [active] 1224746002717 catalytic residue [active] 1224746002718 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1224746002719 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1224746002720 5S rRNA interface [nucleotide binding]; other site 1224746002721 CTC domain interface [polypeptide binding]; other site 1224746002722 L16 interface [polypeptide binding]; other site 1224746002723 benzoate transport; Region: 2A0115; TIGR00895 1224746002724 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746002725 putative substrate translocation pore; other site 1224746002726 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746002727 short chain dehydrogenase; Provisional; Region: PRK06701 1224746002728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746002729 NAD(P) binding site [chemical binding]; other site 1224746002730 active site 1224746002731 hydroperoxidase II; Provisional; Region: katE; PRK11249 1224746002732 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1224746002733 heme binding pocket [chemical binding]; other site 1224746002734 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1224746002735 domain interactions; other site 1224746002736 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1224746002737 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 1224746002738 active site 1224746002739 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1224746002740 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1224746002741 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1224746002742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746002743 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1224746002744 NAD(P) binding site [chemical binding]; other site 1224746002745 active site 1224746002746 Membrane fusogenic activity; Region: BMFP; pfam04380 1224746002747 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 1224746002748 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1224746002749 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1224746002750 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746002751 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1224746002752 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 1224746002753 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746002754 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1224746002755 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1224746002756 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1224746002757 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 1224746002758 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746002759 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1224746002760 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 1224746002761 active site 1224746002762 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1224746002763 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1224746002764 NAD(P) binding site [chemical binding]; other site 1224746002765 catalytic residues [active] 1224746002766 NAD synthetase; Reviewed; Region: nadE; PRK02628 1224746002767 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1224746002768 multimer interface [polypeptide binding]; other site 1224746002769 active site 1224746002770 catalytic triad [active] 1224746002771 protein interface 1 [polypeptide binding]; other site 1224746002772 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 1224746002773 homodimer interface [polypeptide binding]; other site 1224746002774 NAD binding pocket [chemical binding]; other site 1224746002775 ATP binding pocket [chemical binding]; other site 1224746002776 Mg binding site [ion binding]; other site 1224746002777 active-site loop [active] 1224746002778 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 1224746002779 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1224746002780 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 1224746002781 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1224746002782 active site 1224746002783 homotetramer interface [polypeptide binding]; other site 1224746002784 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1224746002785 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1224746002786 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 1224746002787 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 1224746002788 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1224746002789 mce related protein; Region: MCE; pfam02470 1224746002790 TSCPD domain; Region: TSCPD; cl14834 1224746002791 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1224746002792 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1224746002793 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1224746002794 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1224746002795 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1224746002796 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1224746002797 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1224746002798 Ligand binding site; other site 1224746002799 Putative Catalytic site; other site 1224746002800 DXD motif; other site 1224746002801 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1224746002802 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1224746002803 Hint domain; Region: Hint_2; pfam13403 1224746002804 YGGT family; Region: YGGT; pfam02325 1224746002805 protease TldD; Provisional; Region: tldD; PRK10735 1224746002806 hypothetical protein; Provisional; Region: PRK08912 1224746002807 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 1224746002808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002809 homodimer interface [polypeptide binding]; other site 1224746002810 catalytic residue [active] 1224746002811 glutamine synthetase; Provisional; Region: glnA; PRK09469 1224746002812 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1224746002813 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1224746002814 Predicted membrane protein [Function unknown]; Region: COG2860 1224746002815 UPF0126 domain; Region: UPF0126; pfam03458 1224746002816 UPF0126 domain; Region: UPF0126; pfam03458 1224746002817 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 1224746002818 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 1224746002819 metal-binding site [ion binding] 1224746002820 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1224746002821 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 1224746002822 putative deacylase active site [active] 1224746002823 glycine dehydrogenase; Provisional; Region: PRK05367 1224746002824 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 1224746002825 tetramer interface [polypeptide binding]; other site 1224746002826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002827 catalytic residue [active] 1224746002828 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 1224746002829 tetramer interface [polypeptide binding]; other site 1224746002830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746002831 catalytic residue [active] 1224746002832 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 1224746002833 lipoyl attachment site [posttranslational modification]; other site 1224746002834 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1224746002835 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1224746002836 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1224746002837 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1224746002838 MarR family; Region: MarR_2; pfam12802 1224746002839 spermidine synthase; Provisional; Region: PRK00811 1224746002840 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 1224746002841 S-adenosylmethionine binding site [chemical binding]; other site 1224746002842 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 1224746002843 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1224746002844 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1224746002845 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1224746002846 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1224746002847 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1224746002848 putative valine binding site [chemical binding]; other site 1224746002849 dimer interface [polypeptide binding]; other site 1224746002850 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1224746002851 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1224746002852 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1224746002853 PYR/PP interface [polypeptide binding]; other site 1224746002854 dimer interface [polypeptide binding]; other site 1224746002855 TPP binding site [chemical binding]; other site 1224746002856 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1224746002857 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 1224746002858 TPP-binding site [chemical binding]; other site 1224746002859 dimer interface [polypeptide binding]; other site 1224746002860 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1224746002861 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1224746002862 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1224746002863 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 1224746002864 motif II; other site 1224746002865 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1224746002866 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1224746002867 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1224746002868 minor groove reading motif; other site 1224746002869 helix-hairpin-helix signature motif; other site 1224746002870 substrate binding pocket [chemical binding]; other site 1224746002871 active site 1224746002872 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1224746002873 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 1224746002874 DNA binding and oxoG recognition site [nucleotide binding] 1224746002875 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1224746002876 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1224746002877 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1224746002878 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1224746002879 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1224746002880 tetramer interface [polypeptide binding]; other site 1224746002881 heme binding pocket [chemical binding]; other site 1224746002882 NADPH binding site [chemical binding]; other site 1224746002883 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1224746002884 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1224746002885 oligomer interface [polypeptide binding]; other site 1224746002886 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1224746002887 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1224746002888 homotetramer interface [polypeptide binding]; other site 1224746002889 ligand binding site [chemical binding]; other site 1224746002890 catalytic site [active] 1224746002891 NAD binding site [chemical binding]; other site 1224746002892 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1224746002893 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1224746002894 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1224746002895 catalytic core [active] 1224746002896 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746002897 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 1224746002898 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 1224746002899 E3 interaction surface; other site 1224746002900 lipoyl attachment site [posttranslational modification]; other site 1224746002901 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1224746002902 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1224746002903 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1224746002904 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1224746002905 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1224746002906 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1224746002907 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1224746002908 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 1224746002909 RNA binding site [nucleotide binding]; other site 1224746002910 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 1224746002911 multimer interface [polypeptide binding]; other site 1224746002912 Walker A motif; other site 1224746002913 ATP binding site [chemical binding]; other site 1224746002914 Walker B motif; other site 1224746002915 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1224746002916 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1224746002917 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 1224746002918 DNA binding site [nucleotide binding] 1224746002919 active site 1224746002920 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1224746002921 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 1224746002922 Trp docking motif [polypeptide binding]; other site 1224746002923 cytochrome domain interface [polypeptide binding]; other site 1224746002924 active site 1224746002925 Cytochrome c; Region: Cytochrom_C; pfam00034 1224746002926 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746002927 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746002928 Cytochrome c; Region: Cytochrom_C; pfam00034 1224746002929 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1224746002930 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1224746002931 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1224746002932 G1 box; other site 1224746002933 GTP/Mg2+ binding site [chemical binding]; other site 1224746002934 Switch I region; other site 1224746002935 G2 box; other site 1224746002936 Switch II region; other site 1224746002937 G3 box; other site 1224746002938 G4 box; other site 1224746002939 G5 box; other site 1224746002940 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1224746002941 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1224746002942 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1224746002943 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1224746002944 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1224746002945 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1224746002946 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1224746002947 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 1224746002948 P-loop; other site 1224746002949 Magnesium ion binding site [ion binding]; other site 1224746002950 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 1224746002951 Magnesium ion binding site [ion binding]; other site 1224746002952 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1224746002953 ParB-like nuclease domain; Region: ParB; smart00470 1224746002954 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1224746002955 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 1224746002956 catalytic residues [active] 1224746002957 catalytic nucleophile [active] 1224746002958 Presynaptic Site I dimer interface [polypeptide binding]; other site 1224746002959 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1224746002960 Synaptic Flat tetramer interface [polypeptide binding]; other site 1224746002961 Synaptic Site I dimer interface [polypeptide binding]; other site 1224746002962 DNA binding site [nucleotide binding] 1224746002963 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 1224746002964 DNA-binding interface [nucleotide binding]; DNA binding site 1224746002965 Domain of unknown function (DUF927); Region: DUF927; pfam06048 1224746002966 Toprim domain; Region: Toprim_3; pfam13362 1224746002967 Prophage antirepressor [Transcription]; Region: COG3617 1224746002968 BRO family, N-terminal domain; Region: Bro-N; smart01040 1224746002969 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1224746002970 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746002971 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 1224746002972 sequence-specific DNA binding site [nucleotide binding]; other site 1224746002973 salt bridge; other site 1224746002974 Virulence protein [General function prediction only]; Region: COG3943 1224746002975 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1224746002976 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 1224746002977 Restriction endonuclease; Region: Mrr_cat; pfam04471 1224746002978 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 1224746002979 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 1224746002980 active site 1224746002981 DNA binding site [nucleotide binding] 1224746002982 Int/Topo IB signature motif; other site 1224746002983 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 1224746002984 catalytic core [active] 1224746002985 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1224746002986 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1224746002987 NAD binding site [chemical binding]; other site 1224746002988 substrate binding site [chemical binding]; other site 1224746002989 homodimer interface [polypeptide binding]; other site 1224746002990 active site 1224746002991 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1224746002992 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1224746002993 substrate binding site; other site 1224746002994 tetramer interface; other site 1224746002995 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1224746002996 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1224746002997 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1224746002998 NADP binding site [chemical binding]; other site 1224746002999 active site 1224746003000 putative substrate binding site [chemical binding]; other site 1224746003001 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1224746003002 Probable Catalytic site; other site 1224746003003 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1224746003004 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1224746003005 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003006 putative substrate translocation pore; other site 1224746003007 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003008 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1224746003009 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 1224746003010 ABC-ATPase subunit interface; other site 1224746003011 dimer interface [polypeptide binding]; other site 1224746003012 putative PBP binding regions; other site 1224746003013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746003014 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 1224746003015 Walker A/P-loop; other site 1224746003016 ATP binding site [chemical binding]; other site 1224746003017 Q-loop/lid; other site 1224746003018 ABC transporter signature motif; other site 1224746003019 Walker B; other site 1224746003020 D-loop; other site 1224746003021 H-loop/switch region; other site 1224746003022 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1224746003023 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 1224746003024 intersubunit interface [polypeptide binding]; other site 1224746003025 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 1224746003026 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746003027 catalytic residue [active] 1224746003028 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 1224746003029 putative deacylase active site [active] 1224746003030 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1224746003031 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1224746003032 active site 1224746003033 metal binding site [ion binding]; metal-binding site 1224746003034 Secretin and TonB N terminus short domain; Region: STN; smart00965 1224746003035 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1224746003036 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746003037 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 1224746003038 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1224746003039 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1224746003040 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 1224746003041 DNA binding residues [nucleotide binding] 1224746003042 Maf-like protein; Region: Maf; pfam02545 1224746003043 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 1224746003044 active site 1224746003045 dimer interface [polypeptide binding]; other site 1224746003046 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1224746003047 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 1224746003048 substrate binding site [chemical binding]; other site 1224746003049 active site 1224746003050 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1224746003051 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 1224746003052 motif II; other site 1224746003053 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1224746003054 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 1224746003055 active site 1224746003056 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1224746003057 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1224746003058 NAD binding site [chemical binding]; other site 1224746003059 homodimer interface [polypeptide binding]; other site 1224746003060 active site 1224746003061 substrate binding site [chemical binding]; other site 1224746003062 short chain dehydrogenase; Provisional; Region: PRK05854 1224746003063 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1224746003064 putative NAD(P) binding site [chemical binding]; other site 1224746003065 active site 1224746003066 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1224746003067 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1224746003068 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1224746003069 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746003070 Integrase core domain; Region: rve; pfam00665 1224746003071 Integrase core domain; Region: rve_3; cl15866 1224746003072 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746003073 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 1224746003074 ATP binding site [chemical binding]; other site 1224746003075 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746003076 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746003077 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746003078 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 1224746003079 N-terminal plug; other site 1224746003080 ligand-binding site [chemical binding]; other site 1224746003081 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1224746003082 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 1224746003083 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1224746003084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746003085 dimer interface [polypeptide binding]; other site 1224746003086 conserved gate region; other site 1224746003087 putative PBP binding loops; other site 1224746003088 ABC-ATPase subunit interface; other site 1224746003089 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1224746003090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746003091 dimer interface [polypeptide binding]; other site 1224746003092 conserved gate region; other site 1224746003093 putative PBP binding loops; other site 1224746003094 ABC-ATPase subunit interface; other site 1224746003095 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 1224746003096 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1224746003097 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 1224746003098 active site 1224746003099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746003100 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1224746003101 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1224746003102 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1224746003103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746003104 DNA-binding site [nucleotide binding]; DNA binding site 1224746003105 FCD domain; Region: FCD; pfam07729 1224746003106 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1224746003107 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 1224746003108 active site residue [active] 1224746003109 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 1224746003110 active site residue [active] 1224746003111 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 1224746003112 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 1224746003113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746003114 homodimer interface [polypeptide binding]; other site 1224746003115 catalytic residue [active] 1224746003116 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1224746003117 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746003118 Q-loop/lid; other site 1224746003119 ABC transporter signature motif; other site 1224746003120 Walker B; other site 1224746003121 D-loop; other site 1224746003122 H-loop/switch region; other site 1224746003123 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1224746003124 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1224746003125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746003126 Walker A/P-loop; other site 1224746003127 ATP binding site [chemical binding]; other site 1224746003128 Q-loop/lid; other site 1224746003129 ABC transporter signature motif; other site 1224746003130 Walker B; other site 1224746003131 D-loop; other site 1224746003132 H-loop/switch region; other site 1224746003133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1224746003134 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746003135 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746003136 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 1224746003137 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746003138 active site 1224746003139 catalytic tetrad [active] 1224746003140 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1224746003141 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1224746003142 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1224746003143 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1224746003144 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1224746003145 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 1224746003146 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1224746003147 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1224746003148 heat shock protein 90; Provisional; Region: PRK05218 1224746003149 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 1224746003150 ATP binding site [chemical binding]; other site 1224746003151 Mg2+ binding site [ion binding]; other site 1224746003152 G-X-G motif; other site 1224746003153 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1224746003154 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 1224746003155 putative ribose interaction site [chemical binding]; other site 1224746003156 putative ADP binding site [chemical binding]; other site 1224746003157 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1224746003158 active site 1224746003159 nucleotide binding site [chemical binding]; other site 1224746003160 HIGH motif; other site 1224746003161 KMSKS motif; other site 1224746003162 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746003163 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746003164 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1224746003165 sugar binding site [chemical binding]; other site 1224746003166 Domain of unknown function (DUF892); Region: DUF892; cl17410 1224746003167 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746003168 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 1224746003169 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1224746003170 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1224746003171 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1224746003172 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1224746003173 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1224746003174 active site 1224746003175 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1224746003176 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1224746003177 MgtC family; Region: MgtC; pfam02308 1224746003178 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1224746003179 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 1224746003180 RNA binding site [nucleotide binding]; other site 1224746003181 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 1224746003182 putative active site [active] 1224746003183 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 1224746003184 rRNA binding site [nucleotide binding]; other site 1224746003185 predicted 30S ribosome binding site; other site 1224746003186 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1224746003187 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 1224746003188 NAD binding site [chemical binding]; other site 1224746003189 dimerization interface [polypeptide binding]; other site 1224746003190 product binding site; other site 1224746003191 substrate binding site [chemical binding]; other site 1224746003192 zinc binding site [ion binding]; other site 1224746003193 catalytic residues [active] 1224746003194 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1224746003195 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1224746003196 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746003197 DNA-binding site [nucleotide binding]; DNA binding site 1224746003198 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1224746003199 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 1224746003200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746003201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746003202 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 1224746003203 putative effector binding pocket; other site 1224746003204 putative dimerization interface [polypeptide binding]; other site 1224746003205 short chain dehydrogenase; Provisional; Region: PRK12744 1224746003206 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1224746003207 NADP binding site [chemical binding]; other site 1224746003208 homodimer interface [polypeptide binding]; other site 1224746003209 active site 1224746003210 substrate binding site [chemical binding]; other site 1224746003211 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746003212 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 1224746003213 N-terminal plug; other site 1224746003214 ligand-binding site [chemical binding]; other site 1224746003215 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 1224746003216 Guanylate kinase; Region: Guanylate_kin; pfam00625 1224746003217 catalytic site [active] 1224746003218 G-X2-G-X-G-K; other site 1224746003219 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1224746003220 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1224746003221 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1224746003222 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1224746003223 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1224746003224 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 1224746003225 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1224746003226 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 1224746003227 FeS/SAM binding site; other site 1224746003228 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1224746003229 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746003230 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746003231 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746003232 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746003233 active site 1224746003234 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 1224746003235 homopentamer interface [polypeptide binding]; other site 1224746003236 active site 1224746003237 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1224746003238 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1224746003239 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 1224746003240 dimerization interface [polypeptide binding]; other site 1224746003241 active site 1224746003242 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1224746003243 Lumazine binding domain; Region: Lum_binding; pfam00677 1224746003244 Lumazine binding domain; Region: Lum_binding; pfam00677 1224746003245 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 1224746003246 catalytic motif [active] 1224746003247 Zn binding site [ion binding]; other site 1224746003248 RibD C-terminal domain; Region: RibD_C; cl17279 1224746003249 Entericidin EcnA/B family; Region: Entericidin; cl02322 1224746003250 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1224746003251 DNA photolyase; Region: DNA_photolyase; pfam00875 1224746003252 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 1224746003253 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1224746003254 ligand binding site [chemical binding]; other site 1224746003255 flexible hinge region; other site 1224746003256 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 1224746003257 putative switch regulator; other site 1224746003258 non-specific DNA interactions [nucleotide binding]; other site 1224746003259 DNA binding site [nucleotide binding] 1224746003260 sequence specific DNA binding site [nucleotide binding]; other site 1224746003261 putative cAMP binding site [chemical binding]; other site 1224746003262 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1224746003263 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746003264 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1224746003265 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746003266 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1224746003267 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746003268 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1224746003269 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1224746003270 PAS domain; Region: PAS_9; pfam13426 1224746003271 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746003272 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746003273 metal binding site [ion binding]; metal-binding site 1224746003274 active site 1224746003275 I-site; other site 1224746003276 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 1224746003277 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1224746003278 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1224746003279 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1224746003280 Zn binding site [ion binding]; other site 1224746003281 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 1224746003282 protein binding site [polypeptide binding]; other site 1224746003283 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 1224746003284 catalytic core [active] 1224746003285 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1224746003286 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1224746003287 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746003288 active site 1224746003289 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1224746003290 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1224746003291 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1224746003292 endonuclease III; Region: ENDO3c; smart00478 1224746003293 minor groove reading motif; other site 1224746003294 helix-hairpin-helix signature motif; other site 1224746003295 substrate binding pocket [chemical binding]; other site 1224746003296 active site 1224746003297 acyl-CoA esterase; Provisional; Region: PRK10673 1224746003298 PGAP1-like protein; Region: PGAP1; pfam07819 1224746003299 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 1224746003300 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1224746003301 Cl- selectivity filter; other site 1224746003302 Cl- binding residues [ion binding]; other site 1224746003303 pore gating glutamate residue; other site 1224746003304 dimer interface [polypeptide binding]; other site 1224746003305 FOG: CBS domain [General function prediction only]; Region: COG0517 1224746003306 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1224746003307 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_1; cd02199 1224746003308 homotrimer interaction site [polypeptide binding]; other site 1224746003309 putative active site [active] 1224746003310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1224746003311 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1224746003312 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 1224746003313 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1224746003314 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1224746003315 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1224746003316 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1224746003317 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1224746003318 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 1224746003319 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1224746003320 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1224746003321 short chain dehydrogenase; Provisional; Region: PRK07024 1224746003322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746003323 NAD(P) binding site [chemical binding]; other site 1224746003324 active site 1224746003325 Secretory lipase; Region: LIP; pfam03583 1224746003326 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 1224746003327 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 1224746003328 active site 1224746003329 tetramer interface [polypeptide binding]; other site 1224746003330 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1224746003331 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 1224746003332 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 1224746003333 Cupin domain; Region: Cupin_2; cl17218 1224746003334 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 1224746003335 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746003336 active site 1224746003337 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1224746003338 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1224746003339 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1224746003340 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1224746003341 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746003342 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1224746003343 Hint domain; Region: Hint_2; pfam13403 1224746003344 DNA repair protein RadA; Provisional; Region: PRK11823 1224746003345 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 1224746003346 Walker A motif/ATP binding site; other site 1224746003347 ATP binding site [chemical binding]; other site 1224746003348 Walker B motif; other site 1224746003349 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1224746003350 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1224746003351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746003352 Walker A/P-loop; other site 1224746003353 ATP binding site [chemical binding]; other site 1224746003354 Q-loop/lid; other site 1224746003355 ABC transporter signature motif; other site 1224746003356 Walker B; other site 1224746003357 D-loop; other site 1224746003358 H-loop/switch region; other site 1224746003359 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1224746003360 Permease; Region: Permease; pfam02405 1224746003361 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1224746003362 phage shock protein B; Region: phageshock_pspB; TIGR02976 1224746003363 phage shock protein A; Region: phageshock_pspA; TIGR02977 1224746003364 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1224746003365 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 1224746003366 Walker A motif; other site 1224746003367 ATP binding site [chemical binding]; other site 1224746003368 Walker B motif; other site 1224746003369 arginine finger; other site 1224746003370 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1224746003371 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1224746003372 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 1224746003373 Active Sites [active] 1224746003374 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1224746003375 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 1224746003376 Active Sites [active] 1224746003377 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1224746003378 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1224746003379 G1 box; other site 1224746003380 GTP/Mg2+ binding site [chemical binding]; other site 1224746003381 G2 box; other site 1224746003382 Switch I region; other site 1224746003383 G3 box; other site 1224746003384 Switch II region; other site 1224746003385 G4 box; other site 1224746003386 G5 box; other site 1224746003387 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 1224746003388 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 1224746003389 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 1224746003390 ligand-binding site [chemical binding]; other site 1224746003391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746003392 active site 1224746003393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746003394 NAD(P) binding site [chemical binding]; other site 1224746003395 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1224746003396 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1224746003397 DNA binding residues [nucleotide binding] 1224746003398 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1224746003399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003400 putative substrate translocation pore; other site 1224746003401 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1224746003402 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1224746003403 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1224746003404 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1224746003405 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1224746003406 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1224746003407 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1224746003408 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 1224746003409 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 1224746003410 PBP superfamily domain; Region: PBP_like_2; cl17296 1224746003411 potential frameshift: common BLAST hit: gi|58039383|ref|YP_191347.1| efflux protein 1224746003412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003413 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1224746003414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1224746003415 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1224746003416 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1224746003417 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1224746003418 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1224746003419 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746003420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746003421 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746003422 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1224746003423 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1224746003424 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746003425 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746003426 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1224746003427 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1224746003428 NAD(P) binding site [chemical binding]; other site 1224746003429 active site 1224746003430 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1224746003431 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1224746003432 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1224746003433 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 1224746003434 DsbD alpha interface [polypeptide binding]; other site 1224746003435 catalytic residues [active] 1224746003436 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1224746003437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746003438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746003439 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 1224746003440 dimerization interface [polypeptide binding]; other site 1224746003441 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1224746003442 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746003443 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1224746003444 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1224746003445 active site 1224746003446 catalytic site [active] 1224746003447 tetramer interface [polypeptide binding]; other site 1224746003448 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 1224746003449 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 1224746003450 active site 1224746003451 homotetramer interface [polypeptide binding]; other site 1224746003452 xanthine permease; Region: pbuX; TIGR03173 1224746003453 guanine deaminase; Provisional; Region: PRK09228 1224746003454 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 1224746003455 active site 1224746003456 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1224746003457 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 1224746003458 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1224746003459 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1224746003460 active site residue [active] 1224746003461 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1224746003462 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1224746003463 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1224746003464 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1224746003465 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1224746003466 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 1224746003467 dimer interface [polypeptide binding]; other site 1224746003468 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1224746003469 ssDNA binding site [nucleotide binding]; other site 1224746003470 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1224746003471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1224746003472 Coenzyme A binding pocket [chemical binding]; other site 1224746003473 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 1224746003474 salt bridge; other site 1224746003475 non-specific DNA binding site [nucleotide binding]; other site 1224746003476 sequence-specific DNA binding site [nucleotide binding]; other site 1224746003477 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 1224746003478 S-adenosylmethionine binding site [chemical binding]; other site 1224746003479 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1224746003480 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 1224746003481 CAP-like domain; other site 1224746003482 active site 1224746003483 primary dimer interface [polypeptide binding]; other site 1224746003484 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1224746003485 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1224746003486 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1224746003487 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1224746003488 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1224746003489 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1224746003490 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1224746003491 active site 1224746003492 (T/H)XGH motif; other site 1224746003493 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1224746003494 active site 1224746003495 AAA domain; Region: AAA_30; pfam13604 1224746003496 Family description; Region: UvrD_C_2; pfam13538 1224746003497 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1224746003498 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 1224746003499 TPP-binding site [chemical binding]; other site 1224746003500 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1224746003501 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1224746003502 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1224746003503 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1224746003504 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1224746003505 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1224746003506 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 1224746003507 putative active site [active] 1224746003508 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1224746003509 Protein required for attachment to host cells; Region: Host_attach; cl02398 1224746003510 ferrochelatase; Reviewed; Region: hemH; PRK00035 1224746003511 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 1224746003512 C-terminal domain interface [polypeptide binding]; other site 1224746003513 active site 1224746003514 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 1224746003515 active site 1224746003516 N-terminal domain interface [polypeptide binding]; other site 1224746003517 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1224746003518 active site 1224746003519 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 1224746003520 active site 1224746003521 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1224746003522 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 1224746003523 Catalytic site [active] 1224746003524 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1224746003525 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1224746003526 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1224746003527 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1224746003528 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1224746003529 Ligand binding site [chemical binding]; other site 1224746003530 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1224746003531 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1224746003532 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1224746003533 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1224746003534 Putative methyltransferase; Region: Methyltransf_4; cl17290 1224746003535 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1224746003536 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1224746003537 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1224746003538 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1224746003539 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1224746003540 classical (c) SDRs; Region: SDR_c; cd05233 1224746003541 NAD(P) binding site [chemical binding]; other site 1224746003542 active site 1224746003543 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1224746003544 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1224746003545 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1224746003546 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746003547 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746003548 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1224746003549 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1224746003550 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1224746003551 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 1224746003552 heme-binding site [chemical binding]; other site 1224746003553 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 1224746003554 FAD binding pocket [chemical binding]; other site 1224746003555 FAD binding motif [chemical binding]; other site 1224746003556 phosphate binding motif [ion binding]; other site 1224746003557 beta-alpha-beta structure motif; other site 1224746003558 NAD binding pocket [chemical binding]; other site 1224746003559 Heme binding pocket [chemical binding]; other site 1224746003560 Transcriptional regulator; Region: Rrf2; cl17282 1224746003561 Rrf2 family protein; Region: rrf2_super; TIGR00738 1224746003562 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1224746003563 catalytic residue [active] 1224746003564 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 1224746003565 catalytic core [active] 1224746003566 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1224746003567 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 1224746003568 phosphate binding site [ion binding]; other site 1224746003569 chaperone protein DnaJ; Provisional; Region: PRK10767 1224746003570 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 1224746003571 HSP70 interaction site [polypeptide binding]; other site 1224746003572 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1224746003573 substrate binding site [polypeptide binding]; other site 1224746003574 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1224746003575 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1224746003576 dimer interface [polypeptide binding]; other site 1224746003577 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1224746003578 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1224746003579 nucleotide binding site [chemical binding]; other site 1224746003580 NEF interaction site [polypeptide binding]; other site 1224746003581 SBD interface [polypeptide binding]; other site 1224746003582 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1224746003583 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1224746003584 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1224746003585 Trp docking motif [polypeptide binding]; other site 1224746003586 putative active site [active] 1224746003587 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746003588 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 1224746003589 putative ADP-binding pocket [chemical binding]; other site 1224746003590 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1224746003591 EamA-like transporter family; Region: EamA; pfam00892 1224746003592 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1224746003593 trimer interface [polypeptide binding]; other site 1224746003594 active site 1224746003595 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1224746003596 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 1224746003597 hinge; other site 1224746003598 active site 1224746003599 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 1224746003600 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746003601 active site 1224746003602 catalytic tetrad [active] 1224746003603 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1224746003604 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1224746003605 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1224746003606 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1224746003607 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1224746003608 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1224746003609 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1224746003610 putative N-terminal domain interface [polypeptide binding]; other site 1224746003611 putative dimer interface [polypeptide binding]; other site 1224746003612 putative substrate binding pocket (H-site) [chemical binding]; other site 1224746003613 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1224746003614 GAF domain; Region: GAF_2; pfam13185 1224746003615 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1224746003616 major facilitator superfamily transporter; Provisional; Region: PRK05122 1224746003617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003618 putative substrate translocation pore; other site 1224746003619 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 1224746003620 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1224746003621 active site 1224746003622 DNA polymerase IV; Validated; Region: PRK02406 1224746003623 DNA binding site [nucleotide binding] 1224746003624 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 1224746003625 dimer interface [polypeptide binding]; other site 1224746003626 ADP-ribose binding site [chemical binding]; other site 1224746003627 active site 1224746003628 nudix motif; other site 1224746003629 metal binding site [ion binding]; metal-binding site 1224746003630 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1224746003631 Predicted transcriptional regulators [Transcription]; Region: COG1695 1224746003632 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1224746003633 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1224746003634 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1224746003635 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1224746003636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003637 putative substrate translocation pore; other site 1224746003638 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 1224746003639 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746003640 active site 1224746003641 phosphorylation site [posttranslational modification] 1224746003642 intermolecular recognition site; other site 1224746003643 dimerization interface [polypeptide binding]; other site 1224746003644 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746003645 active site 1224746003646 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1224746003647 dimer interface [polypeptide binding]; other site 1224746003648 FMN binding site [chemical binding]; other site 1224746003649 NADPH bind site [chemical binding]; other site 1224746003650 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1224746003651 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 1224746003652 putative Mg++ binding site [ion binding]; other site 1224746003653 nucleotide binding region [chemical binding]; other site 1224746003654 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1224746003655 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1224746003656 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1224746003657 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1224746003658 active site 1224746003659 Predicted membrane protein [Function unknown]; Region: COG2259 1224746003660 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1224746003661 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 1224746003662 protein binding site [polypeptide binding]; other site 1224746003663 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746003664 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 1224746003665 active site 1224746003666 phosphorylation site [posttranslational modification] 1224746003667 intermolecular recognition site; other site 1224746003668 dimerization interface [polypeptide binding]; other site 1224746003669 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 1224746003670 DNA binding site [nucleotide binding] 1224746003671 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1224746003672 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 1224746003673 dimerization interface [polypeptide binding]; other site 1224746003674 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 1224746003675 dimer interface [polypeptide binding]; other site 1224746003676 phosphorylation site [posttranslational modification] 1224746003677 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 1224746003678 ATP binding site [chemical binding]; other site 1224746003679 Mg2+ binding site [ion binding]; other site 1224746003680 G-X-G motif; other site 1224746003681 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1224746003682 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1224746003683 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1224746003684 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1224746003685 Proline dehydrogenase; Region: Pro_dh; cl03282 1224746003686 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1224746003687 NAD(P) binding site [chemical binding]; other site 1224746003688 catalytic residues [active] 1224746003689 TPR repeat; Region: TPR_11; pfam13414 1224746003690 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 1224746003691 binding surface 1224746003692 TPR motif; other site 1224746003693 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1224746003694 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1224746003695 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1224746003696 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1224746003697 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1224746003698 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 1224746003699 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1224746003700 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 1224746003701 active site 1224746003702 dimer interface [polypeptide binding]; other site 1224746003703 motif 1; other site 1224746003704 motif 2; other site 1224746003705 motif 3; other site 1224746003706 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 1224746003707 anticodon binding site; other site 1224746003708 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746003709 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1224746003710 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 1224746003711 putative active site [active] 1224746003712 heat shock protein GrpE; Provisional; Region: PRK14141 1224746003713 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1224746003714 dimer interface [polypeptide binding]; other site 1224746003715 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1224746003716 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746003717 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 1224746003718 active site 1224746003719 phosphorylation site [posttranslational modification] 1224746003720 intermolecular recognition site; other site 1224746003721 dimerization interface [polypeptide binding]; other site 1224746003722 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 1224746003723 DNA binding site [nucleotide binding] 1224746003724 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1224746003725 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1224746003726 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 1224746003727 dimer interface [polypeptide binding]; other site 1224746003728 phosphorylation site [posttranslational modification] 1224746003729 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 1224746003730 ATP binding site [chemical binding]; other site 1224746003731 Mg2+ binding site [ion binding]; other site 1224746003732 G-X-G motif; other site 1224746003733 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1224746003734 Hpr binding site; other site 1224746003735 active site 1224746003736 homohexamer subunit interaction site [polypeptide binding]; other site 1224746003737 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1224746003738 shikimate kinase; Provisional; Region: PRK13947 1224746003739 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 1224746003740 active pocket/dimerization site; other site 1224746003741 active site 1224746003742 phosphorylation site [posttranslational modification] 1224746003743 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 1224746003744 dimerization domain swap beta strand [polypeptide binding]; other site 1224746003745 regulatory protein interface [polypeptide binding]; other site 1224746003746 active site 1224746003747 regulatory phosphorylation site [posttranslational modification]; other site 1224746003748 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1224746003749 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1224746003750 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1224746003751 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1224746003752 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1224746003753 metal binding site 2 [ion binding]; metal-binding site 1224746003754 putative DNA binding helix; other site 1224746003755 metal binding site 1 [ion binding]; metal-binding site 1224746003756 dimer interface [polypeptide binding]; other site 1224746003757 structural Zn2+ binding site [ion binding]; other site 1224746003758 L-asparaginase II; Region: Asparaginase_II; pfam06089 1224746003759 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1224746003760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003761 putative substrate translocation pore; other site 1224746003762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003763 Predicted membrane protein [Function unknown]; Region: COG3671 1224746003764 Predicted membrane protein [Function unknown]; Region: COG3671 1224746003765 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1224746003766 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1224746003767 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1224746003768 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1224746003769 active site 1224746003770 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1224746003771 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1224746003772 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1224746003773 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1224746003774 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1224746003775 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 1224746003776 S-adenosylmethionine binding site [chemical binding]; other site 1224746003777 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1224746003778 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 1224746003779 RNA binding surface [nucleotide binding]; other site 1224746003780 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1224746003781 active site 1224746003782 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1224746003783 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1224746003784 catalytic triad [active] 1224746003785 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 1224746003786 nucleoside/Zn binding site; other site 1224746003787 dimer interface [polypeptide binding]; other site 1224746003788 catalytic motif [active] 1224746003789 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1224746003790 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1224746003791 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 1224746003792 protein binding site [polypeptide binding]; other site 1224746003793 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 1224746003794 protein binding site [polypeptide binding]; other site 1224746003795 phosphoglucomutase; Validated; Region: PRK07564 1224746003796 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 1224746003797 active site 1224746003798 substrate binding site [chemical binding]; other site 1224746003799 metal binding site [ion binding]; metal-binding site 1224746003800 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1224746003801 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1224746003802 HflX GTPase family; Region: HflX; cd01878 1224746003803 G1 box; other site 1224746003804 GTP/Mg2+ binding site [chemical binding]; other site 1224746003805 Switch I region; other site 1224746003806 G2 box; other site 1224746003807 G3 box; other site 1224746003808 Switch II region; other site 1224746003809 G4 box; other site 1224746003810 G5 box; other site 1224746003811 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 1224746003812 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1224746003813 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 1224746003814 tetramer interface [polypeptide binding]; other site 1224746003815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746003816 catalytic residue [active] 1224746003817 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1224746003818 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1224746003819 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1224746003820 homodimer interface [polypeptide binding]; other site 1224746003821 NADP binding site [chemical binding]; other site 1224746003822 substrate binding site [chemical binding]; other site 1224746003823 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; cl00246 1224746003824 FAD binding site [chemical binding]; other site 1224746003825 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1224746003826 Zn binding site [ion binding]; other site 1224746003827 Flagellar protein FlaF; Region: FlaF; pfam07309 1224746003828 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1224746003829 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1224746003830 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1224746003831 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 1224746003832 FeS/SAM binding site; other site 1224746003833 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1224746003834 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1224746003835 Fe-S cluster binding site [ion binding]; other site 1224746003836 active site 1224746003837 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1224746003838 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746003839 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746003840 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1224746003841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746003842 putative substrate translocation pore; other site 1224746003843 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746003844 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746003845 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1224746003846 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746003847 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1224746003848 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 1224746003849 active site 1224746003850 intersubunit interface [polypeptide binding]; other site 1224746003851 zinc binding site [ion binding]; other site 1224746003852 Na+ binding site [ion binding]; other site 1224746003853 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746003854 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 1224746003855 active site 1224746003856 phosphorylation site [posttranslational modification] 1224746003857 intermolecular recognition site; other site 1224746003858 dimerization interface [polypeptide binding]; other site 1224746003859 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 1224746003860 DNA binding site [nucleotide binding] 1224746003861 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 1224746003862 dimerization interface [polypeptide binding]; other site 1224746003863 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 1224746003864 ATP binding site [chemical binding]; other site 1224746003865 Mg2+ binding site [ion binding]; other site 1224746003866 G-X-G motif; other site 1224746003867 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1224746003868 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1224746003869 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1224746003870 putative FMN binding site [chemical binding]; other site 1224746003871 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1224746003872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1224746003873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1224746003874 Coenzyme A binding pocket [chemical binding]; other site 1224746003875 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 1224746003876 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1224746003877 metal binding site 2 [ion binding]; metal-binding site 1224746003878 putative DNA binding helix; other site 1224746003879 metal binding site 1 [ion binding]; metal-binding site 1224746003880 dimer interface [polypeptide binding]; other site 1224746003881 structural Zn2+ binding site [ion binding]; other site 1224746003882 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1224746003883 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1224746003884 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1224746003885 putative active site [active] 1224746003886 catalytic triad [active] 1224746003887 putative dimer interface [polypeptide binding]; other site 1224746003888 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746003889 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 1224746003890 non-specific DNA binding site [nucleotide binding]; other site 1224746003891 salt bridge; other site 1224746003892 sequence-specific DNA binding site [nucleotide binding]; other site 1224746003893 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1224746003894 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 1224746003895 heme-binding site [chemical binding]; other site 1224746003896 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1224746003897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1224746003898 dimer interface [polypeptide binding]; other site 1224746003899 putative CheW interface [polypeptide binding]; other site 1224746003900 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1224746003901 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1224746003902 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1224746003903 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 1224746003904 potential frameshift: common BLAST hit: gi|58039227|ref|YP_191191.1| oxidoreductase 1224746003905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746003906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1224746003907 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746003908 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746003909 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 1224746003910 dimer interface [polypeptide binding]; other site 1224746003911 substrate binding site [chemical binding]; other site 1224746003912 metal binding sites [ion binding]; metal-binding site 1224746003913 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1224746003914 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746003915 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1224746003916 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746003917 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746003918 ABC transporter; Region: ABC_tran_2; pfam12848 1224746003919 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746003920 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1224746003921 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1224746003922 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1224746003923 VacJ like lipoprotein; Region: VacJ; cl01073 1224746003924 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1224746003925 active site 1224746003926 catalytic residues [active] 1224746003927 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746003928 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 1224746003929 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 1224746003930 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1224746003931 serine O-acetyltransferase; Region: cysE; TIGR01172 1224746003932 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 1224746003933 trimer interface [polypeptide binding]; other site 1224746003934 active site 1224746003935 substrate binding site [chemical binding]; other site 1224746003936 CoA binding site [chemical binding]; other site 1224746003937 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1224746003938 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1224746003939 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746003940 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 1224746003941 N-terminal plug; other site 1224746003942 ligand-binding site [chemical binding]; other site 1224746003943 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1224746003944 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 1224746003945 N-terminal plug; other site 1224746003946 ligand-binding site [chemical binding]; other site 1224746003947 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1224746003948 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1224746003949 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1224746003950 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1224746003951 classical (c) SDRs; Region: SDR_c; cd05233 1224746003952 NAD(P) binding site [chemical binding]; other site 1224746003953 active site 1224746003954 Pathogenicity locus; Region: Cdd1; pfam11731 1224746003955 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1224746003956 catalytic motif [active] 1224746003957 Catalytic residue [active] 1224746003958 Aspartyl protease; Region: Asp_protease_2; pfam13650 1224746003959 inhibitor binding site; inhibition site 1224746003960 catalytic motif [active] 1224746003961 Catalytic residue [active] 1224746003962 Active site flap [active] 1224746003963 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1224746003964 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 1224746003965 active site 1224746003966 DNA binding site [nucleotide binding] 1224746003967 Int/Topo IB signature motif; other site 1224746003968 primosome assembly protein PriA; Validated; Region: PRK05580 1224746003969 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 1224746003970 ATP binding site [chemical binding]; other site 1224746003971 putative Mg++ binding site [ion binding]; other site 1224746003972 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1224746003973 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 1224746003974 N-terminal plug; other site 1224746003975 ligand-binding site [chemical binding]; other site 1224746003976 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 1224746003977 TPR motif; other site 1224746003978 binding surface 1224746003979 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1224746003980 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1224746003981 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746003982 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1224746003983 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746003984 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746003985 Secretory lipase; Region: LIP; pfam03583 1224746003986 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1224746003987 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1224746003988 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1224746003989 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1224746003990 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1224746003991 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746003992 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 1224746003993 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1224746003994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746003995 NAD(P) binding site [chemical binding]; other site 1224746003996 active site 1224746003997 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746003998 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746003999 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1224746004000 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1224746004001 Ligand binding site; other site 1224746004002 DXD motif; other site 1224746004003 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1224746004004 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1224746004005 AAA domain; Region: AAA_26; pfam13500 1224746004006 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1224746004007 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1224746004008 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 1224746004009 S-adenosylmethionine binding site [chemical binding]; other site 1224746004010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1224746004011 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1224746004012 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 1224746004013 substrate-cofactor binding pocket; other site 1224746004014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746004015 catalytic residue [active] 1224746004016 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 1224746004017 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1224746004018 inhibitor-cofactor binding pocket; inhibition site 1224746004019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746004020 catalytic residue [active] 1224746004021 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1224746004022 hypothetical protein; Validated; Region: PRK00029 1224746004023 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 1224746004024 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1224746004025 putative active site [active] 1224746004026 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1224746004027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746004028 Walker A/P-loop; other site 1224746004029 ATP binding site [chemical binding]; other site 1224746004030 Q-loop/lid; other site 1224746004031 ABC transporter signature motif; other site 1224746004032 Walker B; other site 1224746004033 D-loop; other site 1224746004034 H-loop/switch region; other site 1224746004035 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1224746004036 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746004037 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746004038 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1224746004039 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1224746004040 Sel1-like repeats; Region: SEL1; smart00671 1224746004041 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1224746004042 Sel1-like repeats; Region: SEL1; smart00671 1224746004043 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1224746004044 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1224746004045 Probable Catalytic site; other site 1224746004046 metal-binding site 1224746004047 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746004048 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 1224746004049 Clostridial hydrophobic W; Region: ChW; cl02763 1224746004050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746004051 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 1224746004052 putative ADP-binding pocket [chemical binding]; other site 1224746004053 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1224746004054 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1224746004055 dimerization interface [polypeptide binding]; other site 1224746004056 DPS ferroxidase diiron center [ion binding]; other site 1224746004057 ion pore; other site 1224746004058 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 1224746004059 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1224746004060 active site 1224746004061 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1224746004062 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1224746004063 Probable Catalytic site; other site 1224746004064 metal-binding site 1224746004065 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1224746004066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746004067 dimer interface [polypeptide binding]; other site 1224746004068 conserved gate region; other site 1224746004069 putative PBP binding loops; other site 1224746004070 ABC-ATPase subunit interface; other site 1224746004071 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1224746004072 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746004073 dimer interface [polypeptide binding]; other site 1224746004074 conserved gate region; other site 1224746004075 putative PBP binding loops; other site 1224746004076 ABC-ATPase subunit interface; other site 1224746004077 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1224746004078 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1224746004079 Walker A/P-loop; other site 1224746004080 ATP binding site [chemical binding]; other site 1224746004081 Q-loop/lid; other site 1224746004082 ABC transporter signature motif; other site 1224746004083 Walker B; other site 1224746004084 D-loop; other site 1224746004085 H-loop/switch region; other site 1224746004086 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1224746004087 PhoU domain; Region: PhoU; pfam01895 1224746004088 PhoU domain; Region: PhoU; pfam01895 1224746004089 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1224746004090 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 1224746004091 active site 1224746004092 phosphorylation site [posttranslational modification] 1224746004093 intermolecular recognition site; other site 1224746004094 dimerization interface [polypeptide binding]; other site 1224746004095 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 1224746004096 DNA binding site [nucleotide binding] 1224746004097 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1224746004098 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 1224746004099 dimer interface [polypeptide binding]; other site 1224746004100 phosphorylation site [posttranslational modification] 1224746004101 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 1224746004102 ATP binding site [chemical binding]; other site 1224746004103 Mg2+ binding site [ion binding]; other site 1224746004104 G-X-G motif; other site 1224746004105 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1224746004106 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746004107 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 1224746004108 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746004109 catalytic residue [active] 1224746004110 Sporulation related domain; Region: SPOR; pfam05036 1224746004111 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1224746004112 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 1224746004113 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1224746004114 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1224746004115 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746004116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746004117 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1224746004118 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1224746004119 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746004120 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746004121 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1224746004122 Protein export membrane protein; Region: SecD_SecF; cl14618 1224746004123 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746004124 aspartate aminotransferase; Provisional; Region: PRK05764 1224746004125 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 1224746004126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746004127 homodimer interface [polypeptide binding]; other site 1224746004128 catalytic residue [active] 1224746004129 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1224746004130 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1224746004131 active site 1224746004132 ATP binding site [chemical binding]; other site 1224746004133 substrate binding site [chemical binding]; other site 1224746004134 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746004135 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 1224746004136 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1224746004137 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1224746004138 H+ Antiporter protein; Region: 2A0121; TIGR00900 1224746004139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746004140 putative substrate translocation pore; other site 1224746004141 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 1224746004142 putative active site [active] 1224746004143 dimerization interface [polypeptide binding]; other site 1224746004144 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1224746004145 putative active cleft [active] 1224746004146 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1224746004147 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 1224746004148 substrate binding site [chemical binding]; other site 1224746004149 hexamer interface [polypeptide binding]; other site 1224746004150 metal binding site [ion binding]; metal-binding site 1224746004151 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 1224746004152 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746004153 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1224746004154 putative ADP-binding pocket [chemical binding]; other site 1224746004155 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1224746004156 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1224746004157 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 1224746004158 active site 1224746004159 phosphorylation site [posttranslational modification] 1224746004160 intermolecular recognition site; other site 1224746004161 dimerization interface [polypeptide binding]; other site 1224746004162 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 1224746004163 DNA binding residues [nucleotide binding] 1224746004164 dimerization interface [polypeptide binding]; other site 1224746004165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1224746004166 Histidine kinase; Region: HisKA_3; pfam07730 1224746004167 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 1224746004168 ATP binding site [chemical binding]; other site 1224746004169 Mg2+ binding site [ion binding]; other site 1224746004170 G-X-G motif; other site 1224746004171 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1224746004172 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1224746004173 active site 1224746004174 HIGH motif; other site 1224746004175 dimer interface [polypeptide binding]; other site 1224746004176 KMSKS motif; other site 1224746004177 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 1224746004178 RNA binding surface [nucleotide binding]; other site 1224746004179 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1224746004180 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 1224746004181 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 1224746004182 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746004183 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1224746004184 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1224746004185 Trp docking motif [polypeptide binding]; other site 1224746004186 putative active site [active] 1224746004187 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1224746004188 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746004189 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1224746004190 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1224746004191 Walker A/P-loop; other site 1224746004192 ATP binding site [chemical binding]; other site 1224746004193 Q-loop/lid; other site 1224746004194 ABC transporter signature motif; other site 1224746004195 Walker B; other site 1224746004196 D-loop; other site 1224746004197 H-loop/switch region; other site 1224746004198 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1224746004199 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1224746004200 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1224746004201 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1224746004202 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746004203 catalytic residue [active] 1224746004204 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1224746004205 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1224746004206 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746004207 catalytic residue [active] 1224746004208 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1224746004209 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 1224746004210 catalytic loop [active] 1224746004211 iron binding site [ion binding]; other site 1224746004212 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1224746004213 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 1224746004214 Ligand Binding Site [chemical binding]; other site 1224746004215 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1224746004216 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1224746004217 putative C-terminal domain interface [polypeptide binding]; other site 1224746004218 putative GSH binding site (G-site) [chemical binding]; other site 1224746004219 putative dimer interface [polypeptide binding]; other site 1224746004220 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1224746004221 putative N-terminal domain interface [polypeptide binding]; other site 1224746004222 putative dimer interface [polypeptide binding]; other site 1224746004223 putative substrate binding pocket (H-site) [chemical binding]; other site 1224746004224 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1224746004225 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 1224746004226 active site 1224746004227 DNA binding site [nucleotide binding] 1224746004228 Int/Topo IB signature motif; other site 1224746004229 catalytic residues [active] 1224746004230 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1224746004231 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1224746004232 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1224746004233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746004234 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 1224746004235 dimerization interface [polypeptide binding]; other site 1224746004236 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1224746004237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746004238 NAD(P) binding site [chemical binding]; other site 1224746004239 active site 1224746004240 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1224746004241 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 1224746004242 active site 1224746004243 peroxiredoxin; Region: AhpC; TIGR03137 1224746004244 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 1224746004245 dimer interface [polypeptide binding]; other site 1224746004246 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1224746004247 catalytic triad [active] 1224746004248 peroxidatic and resolving cysteines [active] 1224746004249 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1224746004250 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 1224746004251 catalytic residue [active] 1224746004252 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 1224746004253 catalytic residues [active] 1224746004254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746004255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746004256 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1224746004257 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1224746004258 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1224746004259 DNA binding residues [nucleotide binding] 1224746004260 dimerization interface [polypeptide binding]; other site 1224746004261 Hint domain; Region: Hint_2; pfam13403 1224746004262 aconitate hydratase; Validated; Region: PRK09277 1224746004263 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1224746004264 substrate binding site [chemical binding]; other site 1224746004265 ligand binding site [chemical binding]; other site 1224746004266 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 1224746004267 substrate binding site [chemical binding]; other site 1224746004268 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1224746004269 tartrate dehydrogenase; Region: TTC; TIGR02089 1224746004270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746004271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746004272 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 1224746004273 putative dimerization interface [polypeptide binding]; other site 1224746004274 putative substrate binding pocket [chemical binding]; other site 1224746004275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1224746004276 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 1224746004277 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1224746004278 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1224746004279 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1224746004280 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1224746004281 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1224746004282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1224746004283 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1224746004284 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 1224746004285 E-class dimer interface [polypeptide binding]; other site 1224746004286 P-class dimer interface [polypeptide binding]; other site 1224746004287 active site 1224746004288 Cu2+ binding site [ion binding]; other site 1224746004289 Zn2+ binding site [ion binding]; other site 1224746004290 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1224746004291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746004292 putative substrate translocation pore; other site 1224746004293 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746004294 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 1224746004295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746004296 metabolite-proton symporter; Region: 2A0106; TIGR00883 1224746004297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746004298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746004299 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 1224746004300 putative effector binding pocket; other site 1224746004301 putative dimerization interface [polypeptide binding]; other site 1224746004302 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1224746004303 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1224746004304 Secretory lipase; Region: LIP; pfam03583 1224746004305 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1224746004306 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1224746004307 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 1224746004308 putative active site [active] 1224746004309 catalytic site [active] 1224746004310 putative metal binding site [ion binding]; other site 1224746004311 oligomer interface [polypeptide binding]; other site 1224746004312 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 1224746004313 ArsC family; Region: ArsC; pfam03960 1224746004314 putative catalytic residues [active] 1224746004315 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1224746004316 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1224746004317 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1224746004318 Trp docking motif [polypeptide binding]; other site 1224746004319 putative active site [active] 1224746004320 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1224746004321 ornithine cyclodeaminase; Validated; Region: PRK07340 1224746004322 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1224746004323 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1224746004324 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1224746004325 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746004326 catalytic residue [active] 1224746004327 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746004328 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 1224746004329 putative DNA binding site [nucleotide binding]; other site 1224746004330 putative Zn2+ binding site [ion binding]; other site 1224746004331 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746004332 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1224746004333 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 1224746004334 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 1224746004335 active site 1224746004336 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746004337 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1224746004338 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1224746004339 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1224746004340 Phosphoglycerate kinase; Region: PGK; pfam00162 1224746004341 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 1224746004342 substrate binding site [chemical binding]; other site 1224746004343 hinge regions; other site 1224746004344 ADP binding site [chemical binding]; other site 1224746004345 catalytic site [active] 1224746004346 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 1224746004347 non-specific DNA binding site [nucleotide binding]; other site 1224746004348 salt bridge; other site 1224746004349 sequence-specific DNA binding site [nucleotide binding]; other site 1224746004350 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1224746004351 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1224746004352 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1224746004353 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 1224746004354 DNA binding residues [nucleotide binding] 1224746004355 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1224746004356 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 1224746004357 RNA binding surface [nucleotide binding]; other site 1224746004358 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1224746004359 active site 1224746004360 TspO/MBR family; Region: TspO_MBR; pfam03073 1224746004361 Helix-turn-helix domain; Region: HTH_20; pfam12840 1224746004362 dimerization interface [polypeptide binding]; other site 1224746004363 putative DNA binding site [nucleotide binding]; other site 1224746004364 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1224746004365 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 1224746004366 FMN binding site [chemical binding]; other site 1224746004367 active site 1224746004368 substrate binding site [chemical binding]; other site 1224746004369 catalytic residue [active] 1224746004370 Hint domain; Region: Hint_2; pfam13403 1224746004371 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1224746004372 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1224746004373 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1224746004374 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1224746004375 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1224746004376 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1224746004377 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 1224746004378 DNA binding site [nucleotide binding] 1224746004379 active site 1224746004380 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1224746004381 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 1224746004382 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746004383 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1224746004384 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1224746004385 homodimer interface [polypeptide binding]; other site 1224746004386 active site 1224746004387 FMN binding site [chemical binding]; other site 1224746004388 substrate binding site [chemical binding]; other site 1224746004389 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 1224746004390 allantoate amidohydrolase; Reviewed; Region: PRK09290 1224746004391 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1224746004392 active site 1224746004393 metal binding site [ion binding]; metal-binding site 1224746004394 dimer interface [polypeptide binding]; other site 1224746004395 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1224746004396 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1224746004397 Na binding site [ion binding]; other site 1224746004398 putative substrate binding site [chemical binding]; other site 1224746004399 phenylhydantoinase; Validated; Region: PRK08323 1224746004400 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1224746004401 tetramer interface [polypeptide binding]; other site 1224746004402 active site 1224746004403 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1224746004404 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 1224746004405 inhibitor-cofactor binding pocket; inhibition site 1224746004406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746004407 catalytic residue [active] 1224746004408 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 1224746004409 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746004410 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746004411 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 1224746004412 N-terminal plug; other site 1224746004413 ligand-binding site [chemical binding]; other site 1224746004414 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1224746004415 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 1224746004416 membrane-bound complex binding site; other site 1224746004417 hinge residues; other site 1224746004418 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 1224746004419 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1224746004420 active site 1224746004421 non-prolyl cis peptide bond; other site 1224746004422 Fic family protein [Function unknown]; Region: COG3177 1224746004423 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1224746004424 Fic/DOC family; Region: Fic; pfam02661 1224746004425 HicB family; Region: HicB; pfam05534 1224746004426 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1224746004427 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1224746004428 Aspartyl protease; Region: Asp_protease_2; pfam13650 1224746004429 inhibitor binding site; inhibition site 1224746004430 catalytic motif [active] 1224746004431 Catalytic residue [active] 1224746004432 Active site flap [active] 1224746004433 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1224746004434 catalytic motif [active] 1224746004435 Catalytic residue [active] 1224746004436 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 1224746004437 protein binding site [polypeptide binding]; other site 1224746004438 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1224746004439 putative active site [active] 1224746004440 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1224746004441 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1224746004442 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1224746004443 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 1224746004444 active site 1224746004445 Int/Topo IB signature motif; other site 1224746004446 DNA binding site [nucleotide binding] 1224746004447 Predicted helicase [General function prediction only]; Region: COG4889 1224746004448 Predicted helicase [General function prediction only]; Region: COG4889 1224746004449 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1224746004450 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 1224746004451 ATP binding site [chemical binding]; other site 1224746004452 putative Mg++ binding site [ion binding]; other site 1224746004453 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1224746004454 nucleotide binding region [chemical binding]; other site 1224746004455 ATP-binding site [chemical binding]; other site 1224746004456 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1224746004457 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 1224746004458 catalytic residues [active] 1224746004459 catalytic nucleophile [active] 1224746004460 Presynaptic Site I dimer interface [polypeptide binding]; other site 1224746004461 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1224746004462 Synaptic Flat tetramer interface [polypeptide binding]; other site 1224746004463 Synaptic Site I dimer interface [polypeptide binding]; other site 1224746004464 DNA binding site [nucleotide binding] 1224746004465 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 1224746004466 DNA-binding interface [nucleotide binding]; DNA binding site 1224746004467 potential frameshift: common BLAST hit: gi|262194226|ref|YP_003265435.1| ribonuclease H 1224746004468 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1224746004469 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 1224746004470 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1224746004471 catalytic residues [active] 1224746004472 catalytic nucleophile [active] 1224746004473 Presynaptic Site I dimer interface [polypeptide binding]; other site 1224746004474 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1224746004475 Synaptic Flat tetramer interface [polypeptide binding]; other site 1224746004476 Synaptic Site I dimer interface [polypeptide binding]; other site 1224746004477 DNA binding site [nucleotide binding] 1224746004478 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 1224746004479 DNA-binding interface [nucleotide binding]; DNA binding site 1224746004480 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1224746004481 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1224746004482 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 1224746004483 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 1224746004484 active site 1224746004485 Int/Topo IB signature motif; other site 1224746004486 DNA binding site [nucleotide binding] 1224746004487 Protein of unknown function DUF45; Region: DUF45; pfam01863 1224746004488 hypothetical protein; Provisional; Region: PRK05170 1224746004489 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1224746004490 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1224746004491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746004492 Walker A/P-loop; other site 1224746004493 ATP binding site [chemical binding]; other site 1224746004494 Q-loop/lid; other site 1224746004495 ABC transporter signature motif; other site 1224746004496 Walker B; other site 1224746004497 D-loop; other site 1224746004498 H-loop/switch region; other site 1224746004499 TOBE domain; Region: TOBE_2; pfam08402 1224746004500 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1224746004501 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1224746004502 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1224746004503 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746004504 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746004505 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746004506 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1224746004507 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1224746004508 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 1224746004509 HSP70 interaction site [polypeptide binding]; other site 1224746004510 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1224746004511 substrate binding site [polypeptide binding]; other site 1224746004512 dimer interface [polypeptide binding]; other site 1224746004513 POT family; Region: PTR2; cl17359 1224746004514 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 1224746004515 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746004516 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746004517 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 1224746004518 N-terminal plug; other site 1224746004519 ligand-binding site [chemical binding]; other site 1224746004520 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746004521 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746004522 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746004523 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 1224746004524 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 1224746004525 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1224746004526 catalytic triad [active] 1224746004527 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746004528 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 1224746004529 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746004530 catalytic residue [active] 1224746004531 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1224746004532 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1224746004533 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1224746004534 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1224746004535 Walker A/P-loop; other site 1224746004536 ATP binding site [chemical binding]; other site 1224746004537 Q-loop/lid; other site 1224746004538 ABC transporter signature motif; other site 1224746004539 Walker B; other site 1224746004540 D-loop; other site 1224746004541 H-loop/switch region; other site 1224746004542 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1224746004543 dimer interface [polypeptide binding]; other site 1224746004544 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746004545 metal binding site [ion binding]; metal-binding site 1224746004546 Stringent starvation protein B; Region: SspB; pfam04386 1224746004547 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1224746004548 Domain of unknown function DUF59; Region: DUF59; cl00941 1224746004549 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 1224746004550 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1224746004551 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 1224746004552 protein binding site [polypeptide binding]; other site 1224746004553 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 1224746004554 protein binding site [polypeptide binding]; other site 1224746004555 Predicted membrane protein [Function unknown]; Region: COG1289 1224746004556 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746004557 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1224746004558 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1224746004559 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1224746004560 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1224746004561 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1224746004562 putative metal binding site [ion binding]; other site 1224746004563 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 1224746004564 HSP70 interaction site [polypeptide binding]; other site 1224746004565 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1224746004566 epoxyqueuosine reductase; Region: TIGR00276 1224746004567 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1224746004568 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1224746004569 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1224746004570 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 1224746004571 active site 1224746004572 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1224746004573 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 1224746004574 MgtC family; Region: MgtC; pfam02308 1224746004575 Purine nucleoside permease (NUP); Region: NUP; cl17832 1224746004576 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1224746004577 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1224746004578 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1224746004579 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1224746004580 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 1224746004581 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1224746004582 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1224746004583 Trp docking motif [polypeptide binding]; other site 1224746004584 putative active site [active] 1224746004585 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1224746004586 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1224746004587 putative NAD(P) binding site [chemical binding]; other site 1224746004588 putative active site [active] 1224746004589 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1224746004590 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1224746004591 homodimer interface [polypeptide binding]; other site 1224746004592 metal binding site [ion binding]; metal-binding site 1224746004593 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1224746004594 homodimer interface [polypeptide binding]; other site 1224746004595 active site 1224746004596 putative chemical substrate binding site [chemical binding]; other site 1224746004597 metal binding site [ion binding]; metal-binding site 1224746004598 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1224746004599 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1224746004600 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 1224746004601 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746004602 catalytic residue [active] 1224746004603 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 1224746004604 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 1224746004605 dimer interface [polypeptide binding]; other site 1224746004606 motif 1; other site 1224746004607 active site 1224746004608 motif 2; other site 1224746004609 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1224746004610 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 1224746004611 GDP-binding site [chemical binding]; other site 1224746004612 ACT binding site; other site 1224746004613 IMP binding site; other site 1224746004614 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1224746004615 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1224746004616 active site 1224746004617 ATP binding site [chemical binding]; other site 1224746004618 substrate binding site [chemical binding]; other site 1224746004619 activation loop (A-loop); other site 1224746004620 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1224746004621 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1224746004622 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 1224746004623 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1224746004624 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1224746004625 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 1224746004626 FeS/SAM binding site; other site 1224746004627 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1224746004628 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1224746004629 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1224746004630 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 1224746004631 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1224746004632 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 1224746004633 ATP binding site [chemical binding]; other site 1224746004634 Mg++ binding site [ion binding]; other site 1224746004635 motif III; other site 1224746004636 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 1224746004637 nucleotide binding region [chemical binding]; other site 1224746004638 ATP-binding site [chemical binding]; other site 1224746004639 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1224746004640 RNA binding site [nucleotide binding]; other site 1224746004641 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1224746004642 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1224746004643 malonic semialdehyde reductase; Provisional; Region: PRK10538 1224746004644 putative NAD(P) binding site [chemical binding]; other site 1224746004645 homotetramer interface [polypeptide binding]; other site 1224746004646 homodimer interface [polypeptide binding]; other site 1224746004647 active site 1224746004648 hypothetical protein; Validated; Region: PRK00228 1224746004649 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1224746004650 glutaredoxin 2; Provisional; Region: PRK10387 1224746004651 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 1224746004652 N-terminal domain interface [polypeptide binding]; other site 1224746004653 hypothetical protein; Provisional; Region: PRK09133 1224746004654 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1224746004655 putative metal binding site [ion binding]; other site 1224746004656 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1224746004657 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746004658 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 1224746004659 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746004660 active site 1224746004661 catalytic tetrad [active] 1224746004662 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1224746004663 Clp amino terminal domain; Region: Clp_N; pfam02861 1224746004664 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 1224746004665 Walker A motif; other site 1224746004666 ATP binding site [chemical binding]; other site 1224746004667 Walker B motif; other site 1224746004668 arginine finger; other site 1224746004669 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 1224746004670 Walker A motif; other site 1224746004671 ATP binding site [chemical binding]; other site 1224746004672 Walker B motif; other site 1224746004673 arginine finger; other site 1224746004674 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1224746004675 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1224746004676 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1224746004677 catalytic residues [active] 1224746004678 catalytic nucleophile [active] 1224746004679 Recombinase; Region: Recombinase; pfam07508 1224746004680 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1224746004681 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1224746004682 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1224746004683 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1224746004684 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 1224746004685 ATP binding site [chemical binding]; other site 1224746004686 putative Mg++ binding site [ion binding]; other site 1224746004687 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 1224746004688 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1224746004689 AAA domain; Region: AAA_13; pfam13166 1224746004690 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1224746004691 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1224746004692 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1224746004693 Conjugal transfer protein TraD; Region: TraD; pfam06412 1224746004694 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 1224746004695 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 1224746004696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746004697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746004698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746004699 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 1224746004700 dimerization interface [polypeptide binding]; other site 1224746004701 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746004702 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1224746004703 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746004704 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1224746004705 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1224746004706 DNA methylase; Region: N6_N4_Mtase; cl17433 1224746004707 Protein of unknown function (DUF736); Region: DUF736; cl02303 1224746004708 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 1224746004709 Helix-turn-helix domain; Region: HTH_17; pfam12728 1224746004710 Replication initiator protein A; Region: RPA; pfam10134 1224746004711 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1224746004712 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1224746004713 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1224746004714 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1224746004715 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746004716 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 1224746004717 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746004718 catalytic residue [active] 1224746004719 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1224746004720 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1224746004721 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1224746004722 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1224746004723 putative catalytic site [active] 1224746004724 putative metal binding site [ion binding]; other site 1224746004725 putative phosphate binding site [ion binding]; other site 1224746004726 potential frameshift: common BLAST hit: gi|222102158|ref|YP_002546748.1| HAD-superfamily hydrolase, subfamily IIB 1224746004727 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 1224746004728 active site 1224746004729 motif I; other site 1224746004730 motif II; other site 1224746004731 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1224746004732 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746004733 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746004734 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746004735 CrcB-like protein; Region: CRCB; cl09114 1224746004736 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1224746004737 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1224746004738 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746004739 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 1224746004740 non-specific DNA binding site [nucleotide binding]; other site 1224746004741 salt bridge; other site 1224746004742 sequence-specific DNA binding site [nucleotide binding]; other site 1224746004743 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746004744 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 1224746004745 non-specific DNA binding site [nucleotide binding]; other site 1224746004746 salt bridge; other site 1224746004747 sequence-specific DNA binding site [nucleotide binding]; other site 1224746004748 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 1224746004749 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1224746004750 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 1224746004751 Walker A motif; other site 1224746004752 ATP binding site [chemical binding]; other site 1224746004753 Walker B motif; other site 1224746004754 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1224746004755 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1224746004756 ATP binding site [chemical binding]; other site 1224746004757 Walker A motif; other site 1224746004758 hexamer interface [polypeptide binding]; other site 1224746004759 Walker B motif; other site 1224746004760 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1224746004761 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1224746004762 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1224746004763 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1224746004764 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 1224746004765 Walker A motif; other site 1224746004766 ATP binding site [chemical binding]; other site 1224746004767 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1224746004768 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1224746004769 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1224746004770 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1224746004771 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1224746004772 VirB7 interaction site; other site 1224746004773 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1224746004774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746004775 Q-loop/lid; other site 1224746004776 ABC transporter signature motif; other site 1224746004777 Walker B; other site 1224746004778 D-loop; other site 1224746004779 H-loop/switch region; other site 1224746004780 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1224746004781 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1224746004782 putative Cl- selectivity filter; other site 1224746004783 putative pore gating glutamate residue; other site 1224746004784 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 1224746004785 catalytic core [active] 1224746004786 Uncharacterized ArCR, COG1888; Region: DUF211; cl00820 1224746004787 CrcB-like protein; Region: CRCB; cl09114 1224746004788 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 1224746004789 Ligand Binding Site [chemical binding]; other site 1224746004790 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 1224746004791 catalytic core [active] 1224746004792 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1224746004793 enolase; Provisional; Region: eno; PRK00077 1224746004794 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 1224746004795 dimer interface [polypeptide binding]; other site 1224746004796 metal binding site [ion binding]; metal-binding site 1224746004797 substrate binding pocket [chemical binding]; other site 1224746004798 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1224746004799 Dynamin family; Region: Dynamin_N; pfam00350 1224746004800 G1 box; other site 1224746004801 GTP/Mg2+ binding site [chemical binding]; other site 1224746004802 G2 box; other site 1224746004803 Switch I region; other site 1224746004804 G3 box; other site 1224746004805 Switch II region; other site 1224746004806 G4 box; other site 1224746004807 G5 box; other site 1224746004808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746004809 Walker A/P-loop; other site 1224746004810 ATP binding site [chemical binding]; other site 1224746004811 Q-loop/lid; other site 1224746004812 ABC transporter signature motif; other site 1224746004813 Walker B; other site 1224746004814 D-loop; other site 1224746004815 H-loop/switch region; other site 1224746004816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746004817 Walker A/P-loop; other site 1224746004818 ATP binding site [chemical binding]; other site 1224746004819 Q-loop/lid; other site 1224746004820 ABC transporter signature motif; other site 1224746004821 Walker B; other site 1224746004822 D-loop; other site 1224746004823 H-loop/switch region; other site 1224746004824 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 1224746004825 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1224746004826 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1224746004827 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1224746004828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1224746004829 Integrase core domain; Region: rve_3; pfam13683 1224746004830 Integrase core domain; Region: rve; pfam00665 1224746004831 HTH-like domain; Region: HTH_21; pfam13276 1224746004832 Transposase; Region: HTH_Tnp_1; pfam01527 1224746004833 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1224746004834 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 1224746004835 DNA binding residues [nucleotide binding] 1224746004836 Heavy-metal resistance; Region: Metal_resist; pfam13801 1224746004837 dimer interface [polypeptide binding]; other site 1224746004838 CopC domain; Region: CopC; pfam04234 1224746004839 Copper resistance protein D; Region: CopD; cl00563 1224746004840 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1224746004841 Predicted membrane protein [Function unknown]; Region: COG3503 1224746004842 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746004843 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 1224746004844 N-terminal plug; other site 1224746004845 ligand-binding site [chemical binding]; other site 1224746004846 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1224746004847 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1224746004848 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1224746004849 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746004850 dimer interface [polypeptide binding]; other site 1224746004851 conserved gate region; other site 1224746004852 ABC-ATPase subunit interface; other site 1224746004853 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1224746004854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746004855 dimer interface [polypeptide binding]; other site 1224746004856 conserved gate region; other site 1224746004857 putative PBP binding loops; other site 1224746004858 ABC-ATPase subunit interface; other site 1224746004859 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1224746004860 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746004861 Walker A/P-loop; other site 1224746004862 ATP binding site [chemical binding]; other site 1224746004863 Q-loop/lid; other site 1224746004864 ABC transporter signature motif; other site 1224746004865 Walker B; other site 1224746004866 D-loop; other site 1224746004867 H-loop/switch region; other site 1224746004868 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746004869 Walker A/P-loop; other site 1224746004870 ATP binding site [chemical binding]; other site 1224746004871 Q-loop/lid; other site 1224746004872 ABC transporter signature motif; other site 1224746004873 Walker B; other site 1224746004874 D-loop; other site 1224746004875 H-loop/switch region; other site 1224746004876 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1224746004877 succinic semialdehyde dehydrogenase; Region: PLN02278 1224746004878 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1224746004879 tetramerization interface [polypeptide binding]; other site 1224746004880 NAD(P) binding site [chemical binding]; other site 1224746004881 catalytic residues [active] 1224746004882 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746004883 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 1224746004884 putative DNA binding site [nucleotide binding]; other site 1224746004885 putative Zn2+ binding site [ion binding]; other site 1224746004886 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746004887 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1224746004888 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1224746004889 Coenzyme A binding pocket [chemical binding]; other site 1224746004890 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1224746004891 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1224746004892 putative ligand binding site [chemical binding]; other site 1224746004893 NAD binding site [chemical binding]; other site 1224746004894 dimerization interface [polypeptide binding]; other site 1224746004895 catalytic site [active] 1224746004896 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 1224746004897 putative homodimer interface [polypeptide binding]; other site 1224746004898 putative homotetramer interface [polypeptide binding]; other site 1224746004899 putative metal binding site [ion binding]; other site 1224746004900 putative homodimer-homodimer interface [polypeptide binding]; other site 1224746004901 putative allosteric switch controlling residues; other site 1224746004902 Outer membrane efflux protein; Region: OEP; pfam02321 1224746004903 Outer membrane efflux protein; Region: OEP; pfam02321 1224746004904 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746004905 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746004906 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746004907 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1224746004908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746004909 putative substrate translocation pore; other site 1224746004910 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746004911 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746004912 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1224746004913 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1224746004914 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1224746004915 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1224746004916 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1224746004917 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1224746004918 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1224746004919 hypothetical protein; Provisional; Region: PRK05965 1224746004920 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 1224746004921 inhibitor-cofactor binding pocket; inhibition site 1224746004922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746004923 catalytic residue [active] 1224746004924 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1224746004925 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1224746004926 NAD(P) binding site [chemical binding]; other site 1224746004927 catalytic residues [active] 1224746004928 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1224746004929 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1224746004930 metal binding site [ion binding]; metal-binding site 1224746004931 putative dimer interface [polypeptide binding]; other site 1224746004932 potential frameshift: common BLAST hit: gi|326403370|ref|YP_004283451.1| tartrate dehydrogenase/tartrate decarboxylase/D-malate 1224746004933 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1224746004934 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1224746004935 Major royal jelly protein; Region: MRJP; pfam03022 1224746004936 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1224746004937 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1224746004938 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 1224746004939 putative deacylase active site [active] 1224746004940 Purine nucleoside permease (NUP); Region: NUP; cl17832 1224746004941 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746004942 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1224746004943 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 1224746004944 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1224746004945 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1224746004946 putative Cl- selectivity filter; other site 1224746004947 putative pore gating glutamate residue; other site 1224746004948 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1224746004949 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1224746004950 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1224746004951 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 1224746004952 N-terminal plug; other site 1224746004953 ligand-binding site [chemical binding]; other site 1224746004954 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1224746004955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746004956 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 1224746004957 putative dimerization interface [polypeptide binding]; other site 1224746004958 putative substrate binding pocket [chemical binding]; other site 1224746004959 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 1224746004960 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 1224746004961 dimer interface [polypeptide binding]; other site 1224746004962 PYR/PP interface [polypeptide binding]; other site 1224746004963 TPP binding site [chemical binding]; other site 1224746004964 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1224746004965 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 1224746004966 TPP-binding site [chemical binding]; other site 1224746004967 dimer interface [polypeptide binding]; other site 1224746004968 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746004969 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746004970 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1224746004971 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 1224746004972 Active site cavity [active] 1224746004973 catalytic acid [active] 1224746004974 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 1224746004975 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1224746004976 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1224746004977 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1224746004978 hydrogenase 4 subunit D; Validated; Region: PRK06525 1224746004979 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1224746004980 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1224746004981 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1224746004982 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1224746004983 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1224746004984 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 1224746004985 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1224746004986 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1224746004987 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 1224746004988 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 1224746004989 catalytic loop [active] 1224746004990 iron binding site [ion binding]; other site 1224746004991 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1224746004992 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 1224746004993 [4Fe-4S] binding site [ion binding]; other site 1224746004994 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1224746004995 molybdopterin cofactor binding site; other site 1224746004996 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1224746004997 SLBB domain; Region: SLBB; pfam10531 1224746004998 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1224746004999 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1224746005000 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 1224746005001 putative dimer interface [polypeptide binding]; other site 1224746005002 [2Fe-2S] cluster binding site [ion binding]; other site 1224746005003 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1224746005004 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1224746005005 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1224746005006 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1224746005007 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1224746005008 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 1224746005009 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1224746005010 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746005011 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 1224746005012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746005013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746005014 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 1224746005015 substrate binding pocket [chemical binding]; other site 1224746005016 dimerization interface [polypeptide binding]; other site 1224746005017 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 1224746005018 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 1224746005019 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 1224746005020 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1224746005021 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 1224746005022 N-terminal plug; other site 1224746005023 ligand-binding site [chemical binding]; other site 1224746005024 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 1224746005025 nucleotide binding site/active site [active] 1224746005026 HIT family signature motif; other site 1224746005027 catalytic residue [active] 1224746005028 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1224746005029 metal binding site [ion binding]; metal-binding site 1224746005030 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1224746005031 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1224746005032 substrate binding site [chemical binding]; other site 1224746005033 glutamase interaction surface [polypeptide binding]; other site 1224746005034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1224746005035 Coenzyme A binding pocket [chemical binding]; other site 1224746005036 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 1224746005037 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1224746005038 catalytic residues [active] 1224746005039 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1224746005040 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1224746005041 putative active site [active] 1224746005042 oxyanion strand; other site 1224746005043 catalytic triad [active] 1224746005044 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1224746005045 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1224746005046 putative active site pocket [active] 1224746005047 4-fold oligomerization interface [polypeptide binding]; other site 1224746005048 metal binding residues [ion binding]; metal-binding site 1224746005049 3-fold/trimer interface [polypeptide binding]; other site 1224746005050 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 1224746005051 putative FMN binding site [chemical binding]; other site 1224746005052 hypothetical protein; Provisional; Region: PRK09126 1224746005053 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1224746005054 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1224746005055 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1224746005056 putative NAD(P) binding site [chemical binding]; other site 1224746005057 dimer interface [polypeptide binding]; other site 1224746005058 active site 1224746005059 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746005060 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1224746005061 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1224746005062 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1224746005063 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1224746005064 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 1224746005065 quinone interaction residues [chemical binding]; other site 1224746005066 active site 1224746005067 catalytic residues [active] 1224746005068 FMN binding site [chemical binding]; other site 1224746005069 substrate binding site [chemical binding]; other site 1224746005070 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1224746005071 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 1224746005072 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746005073 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746005074 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1224746005075 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 1224746005076 FMN binding site [chemical binding]; other site 1224746005077 active site 1224746005078 catalytic residues [active] 1224746005079 substrate binding site [chemical binding]; other site 1224746005080 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 1224746005081 Walker B motif; other site 1224746005082 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1224746005083 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1224746005084 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 1224746005085 dimerization interface [polypeptide binding]; other site 1224746005086 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 1224746005087 dimer interface [polypeptide binding]; other site 1224746005088 phosphorylation site [posttranslational modification] 1224746005089 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 1224746005090 ATP binding site [chemical binding]; other site 1224746005091 Mg2+ binding site [ion binding]; other site 1224746005092 G-X-G motif; other site 1224746005093 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1224746005094 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 1224746005095 active site 1224746005096 phosphorylation site [posttranslational modification] 1224746005097 intermolecular recognition site; other site 1224746005098 dimerization interface [polypeptide binding]; other site 1224746005099 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 1224746005100 Walker A motif; other site 1224746005101 ATP binding site [chemical binding]; other site 1224746005102 Walker B motif; other site 1224746005103 arginine finger; other site 1224746005104 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1224746005105 bacterial Hfq-like; Region: Hfq; cd01716 1224746005106 hexamer interface [polypeptide binding]; other site 1224746005107 Sm1 motif; other site 1224746005108 RNA binding site [nucleotide binding]; other site 1224746005109 Sm2 motif; other site 1224746005110 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1224746005111 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1224746005112 HflX GTPase family; Region: HflX; cd01878 1224746005113 G1 box; other site 1224746005114 GTP/Mg2+ binding site [chemical binding]; other site 1224746005115 Switch I region; other site 1224746005116 G2 box; other site 1224746005117 G3 box; other site 1224746005118 Switch II region; other site 1224746005119 G4 box; other site 1224746005120 G5 box; other site 1224746005121 OpgC protein; Region: OpgC_C; pfam10129 1224746005122 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1224746005123 Cupin domain; Region: Cupin_2; cl17218 1224746005124 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 1224746005125 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1224746005126 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1224746005127 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1224746005128 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1224746005129 short chain dehydrogenase; Provisional; Region: PRK06701 1224746005130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746005131 NAD(P) binding site [chemical binding]; other site 1224746005132 active site 1224746005133 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1224746005134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746005135 NAD(P) binding site [chemical binding]; other site 1224746005136 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 1224746005137 23S rRNA interface [nucleotide binding]; other site 1224746005138 L3 interface [polypeptide binding]; other site 1224746005139 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1224746005140 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1224746005141 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 1224746005142 homodimer interface [polypeptide binding]; other site 1224746005143 substrate-cofactor binding pocket; other site 1224746005144 catalytic residue [active] 1224746005145 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1224746005146 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1224746005147 Substrate binding site; other site 1224746005148 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1224746005149 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1224746005150 Ligand binding site; other site 1224746005151 metal-binding site 1224746005152 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1224746005153 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1224746005154 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1224746005155 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1224746005156 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 1224746005157 dimer interface [polypeptide binding]; other site 1224746005158 putative functional site; other site 1224746005159 putative MPT binding site; other site 1224746005160 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 1224746005161 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 1224746005162 FeS/SAM binding site; other site 1224746005163 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1224746005164 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 1224746005165 trimer interface [polypeptide binding]; other site 1224746005166 dimer interface [polypeptide binding]; other site 1224746005167 putative active site [active] 1224746005168 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1224746005169 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1224746005170 GTP binding site; other site 1224746005171 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1224746005172 MoaE interaction surface [polypeptide binding]; other site 1224746005173 MoeB interaction surface [polypeptide binding]; other site 1224746005174 thiocarboxylated glycine; other site 1224746005175 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 1224746005176 MoaE homodimer interface [polypeptide binding]; other site 1224746005177 MoaD interaction [polypeptide binding]; other site 1224746005178 active site residues [active] 1224746005179 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1224746005180 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1224746005181 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1224746005182 dimer interface [polypeptide binding]; other site 1224746005183 active site 1224746005184 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1224746005185 catalytic residues [active] 1224746005186 substrate binding site [chemical binding]; other site 1224746005187 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1224746005188 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1224746005189 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1224746005190 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1224746005191 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1224746005192 trimer interface [polypeptide binding]; other site 1224746005193 active site 1224746005194 dimer interface [polypeptide binding]; other site 1224746005195 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1224746005196 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1224746005197 carboxyltransferase (CT) interaction site; other site 1224746005198 biotinylation site [posttranslational modification]; other site 1224746005199 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1224746005200 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1224746005201 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1224746005202 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1224746005203 NIPSNAP; Region: NIPSNAP; pfam07978 1224746005204 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1224746005205 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 1224746005206 putative active site [active] 1224746005207 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1224746005208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746005209 Walker A/P-loop; other site 1224746005210 ATP binding site [chemical binding]; other site 1224746005211 Q-loop/lid; other site 1224746005212 ABC transporter signature motif; other site 1224746005213 Walker B; other site 1224746005214 D-loop; other site 1224746005215 H-loop/switch region; other site 1224746005216 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1224746005217 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746005218 Hint domain; Region: Hint_2; pfam13403 1224746005219 YfdX protein; Region: YfdX; pfam10938 1224746005220 phosphogluconate dehydratase; Validated; Region: PRK09054 1224746005221 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1224746005222 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1224746005223 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1224746005224 active site 1224746005225 intersubunit interface [polypeptide binding]; other site 1224746005226 catalytic residue [active] 1224746005227 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 1224746005228 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1224746005229 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 1224746005230 purine monophosphate binding site [chemical binding]; other site 1224746005231 dimer interface [polypeptide binding]; other site 1224746005232 putative catalytic residues [active] 1224746005233 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1224746005234 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1224746005235 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1224746005236 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1224746005237 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1224746005238 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1224746005239 FliG C-terminal domain; Region: FliG_C; pfam01706 1224746005240 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1224746005241 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1224746005242 FHIPEP family; Region: FHIPEP; pfam00771 1224746005243 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 1224746005244 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 1224746005245 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1224746005246 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 1224746005247 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 1224746005248 nitrilase; Region: PLN02798 1224746005249 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1224746005250 putative active site [active] 1224746005251 catalytic triad [active] 1224746005252 dimer interface [polypeptide binding]; other site 1224746005253 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1224746005254 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1224746005255 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1224746005256 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1224746005257 putative ligand binding site [chemical binding]; other site 1224746005258 NAD binding site [chemical binding]; other site 1224746005259 catalytic site [active] 1224746005260 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1224746005261 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1224746005262 active site 1224746005263 Membrane transport protein; Region: Mem_trans; cl09117 1224746005264 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1224746005265 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1224746005266 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1224746005267 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1224746005268 HIGH motif; other site 1224746005269 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1224746005270 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746005271 active site 1224746005272 KMSKS motif; other site 1224746005273 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1224746005274 tRNA binding surface [nucleotide binding]; other site 1224746005275 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1224746005276 Lipopolysaccharide-assembly; Region: LptE; cl01125 1224746005277 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1224746005278 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1224746005279 oxidoreductase; Provisional; Region: PRK07985 1224746005280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746005281 NAD(P) binding site [chemical binding]; other site 1224746005282 active site 1224746005283 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1224746005284 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 1224746005285 N-terminal plug; other site 1224746005286 ligand-binding site [chemical binding]; other site 1224746005287 Major royal jelly protein; Region: MRJP; pfam03022 1224746005288 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1224746005289 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1224746005290 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1224746005291 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 1224746005292 Switch I; other site 1224746005293 Switch II; other site 1224746005294 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1224746005295 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1224746005296 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1224746005297 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 1224746005298 C-terminal domain interface [polypeptide binding]; other site 1224746005299 GSH binding site (G-site) [chemical binding]; other site 1224746005300 dimer interface [polypeptide binding]; other site 1224746005301 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1224746005302 N-terminal domain interface [polypeptide binding]; other site 1224746005303 dimer interface [polypeptide binding]; other site 1224746005304 substrate binding pocket (H-site) [chemical binding]; other site 1224746005305 Predicted flavoproteins [General function prediction only]; Region: COG2081 1224746005306 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1224746005307 RmuC family; Region: RmuC; pfam02646 1224746005308 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746005309 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 1224746005310 active site 1224746005311 phosphorylation site [posttranslational modification] 1224746005312 intermolecular recognition site; other site 1224746005313 dimerization interface [polypeptide binding]; other site 1224746005314 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 1224746005315 DNA binding site [nucleotide binding] 1224746005316 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1224746005317 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 1224746005318 dimerization interface [polypeptide binding]; other site 1224746005319 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 1224746005320 ATP binding site [chemical binding]; other site 1224746005321 Mg2+ binding site [ion binding]; other site 1224746005322 G-X-G motif; other site 1224746005323 potential frameshift: common BLAST hit: gi|58038868|ref|YP_190832.1| transport transmembrane protein 1224746005324 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1224746005325 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1224746005326 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746005327 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746005328 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746005329 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746005330 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1224746005331 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1224746005332 23S rRNA interface [nucleotide binding]; other site 1224746005333 L7/L12 interface [polypeptide binding]; other site 1224746005334 putative thiostrepton binding site; other site 1224746005335 L25 interface [polypeptide binding]; other site 1224746005336 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 1224746005337 mRNA/rRNA interface [nucleotide binding]; other site 1224746005338 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 1224746005339 23S rRNA interface [nucleotide binding]; other site 1224746005340 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1224746005341 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1224746005342 L11 interface [polypeptide binding]; other site 1224746005343 putative EF-Tu interaction site [polypeptide binding]; other site 1224746005344 putative EF-G interaction site [polypeptide binding]; other site 1224746005345 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1224746005346 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 1224746005347 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1224746005348 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1224746005349 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 1224746005350 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1224746005351 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 1224746005352 RPB1 interaction site [polypeptide binding]; other site 1224746005353 RPB11 interaction site [polypeptide binding]; other site 1224746005354 RPB10 interaction site [polypeptide binding]; other site 1224746005355 RPB3 interaction site [polypeptide binding]; other site 1224746005356 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1224746005357 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1224746005358 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1224746005359 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1224746005360 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1224746005361 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1224746005362 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1224746005363 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1224746005364 DNA binding site [nucleotide binding] 1224746005365 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1224746005366 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1224746005367 streptomycin interaction site [chemical binding]; other site 1224746005368 23S rRNA interaction site [nucleotide binding]; other site 1224746005369 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1224746005370 16S rRNA interaction site [nucleotide binding]; other site 1224746005371 30S ribosomal protein S7; Validated; Region: PRK05302 1224746005372 elongation factor Tu; Reviewed; Region: PRK00049 1224746005373 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1224746005374 G1 box; other site 1224746005375 GEF interaction site [polypeptide binding]; other site 1224746005376 GTP/Mg2+ binding site [chemical binding]; other site 1224746005377 Switch I region; other site 1224746005378 G2 box; other site 1224746005379 G3 box; other site 1224746005380 Switch II region; other site 1224746005381 G4 box; other site 1224746005382 G5 box; other site 1224746005383 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 1224746005384 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 1224746005385 Antibiotic Binding Site [chemical binding]; other site 1224746005386 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1224746005387 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1224746005388 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1224746005389 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1224746005390 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1224746005391 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1224746005392 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1224746005393 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1224746005394 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1224746005395 putative translocon binding site; other site 1224746005396 protein-rRNA interface [nucleotide binding]; other site 1224746005397 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1224746005398 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 1224746005399 G-X-X-G motif; other site 1224746005400 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1224746005401 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 1224746005402 23S rRNA interface [nucleotide binding]; other site 1224746005403 5S rRNA interface [nucleotide binding]; other site 1224746005404 putative antibiotic binding site [chemical binding]; other site 1224746005405 L25 interface [polypeptide binding]; other site 1224746005406 L27 interface [polypeptide binding]; other site 1224746005407 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 1224746005408 23S rRNA interface [nucleotide binding]; other site 1224746005409 putative translocon interaction site; other site 1224746005410 signal recognition particle (SRP54) interaction site; other site 1224746005411 L23 interface [polypeptide binding]; other site 1224746005412 trigger factor interaction site; other site 1224746005413 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1224746005414 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1224746005415 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1224746005416 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1224746005417 RNA binding site [nucleotide binding]; other site 1224746005418 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1224746005419 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1224746005420 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1224746005421 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1224746005422 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1224746005423 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1224746005424 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1224746005425 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1224746005426 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 1224746005427 5S rRNA interface [nucleotide binding]; other site 1224746005428 23S rRNA interface [nucleotide binding]; other site 1224746005429 L5 interface [polypeptide binding]; other site 1224746005430 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1224746005431 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1224746005432 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1224746005433 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 1224746005434 23S rRNA binding site [nucleotide binding]; other site 1224746005435 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1224746005436 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1224746005437 SecY translocase; Region: SecY; pfam00344 1224746005438 adenylate kinase; Reviewed; Region: adk; PRK00279 1224746005439 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 1224746005440 AMP-binding site [chemical binding]; other site 1224746005441 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1224746005442 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1224746005443 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1224746005444 30S ribosomal protein S11; Validated; Region: PRK05309 1224746005445 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1224746005446 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1224746005447 alphaNTD - beta interaction site [polypeptide binding]; other site 1224746005448 alphaNTD homodimer interface [polypeptide binding]; other site 1224746005449 alphaNTD - beta' interaction site [polypeptide binding]; other site 1224746005450 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1224746005451 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1224746005452 polyol permease family; Region: 2A0118; TIGR00897 1224746005453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746005454 putative substrate translocation pore; other site 1224746005455 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746005456 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1224746005457 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1224746005458 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746005459 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746005460 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746005461 CsbD-like; Region: CsbD; pfam05532 1224746005462 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 1224746005463 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1224746005464 RNA/DNA hybrid binding site [nucleotide binding]; other site 1224746005465 active site 1224746005466 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1224746005467 DNA methylase; Region: N6_N4_Mtase; pfam01555 1224746005468 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 1224746005469 S-adenosylmethionine binding site [chemical binding]; other site 1224746005470 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746005471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746005472 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746005473 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1224746005474 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1224746005475 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1224746005476 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1224746005477 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1224746005478 Protein of unknown function DUF58; Region: DUF58; pfam01882 1224746005479 MoxR-like ATPases [General function prediction only]; Region: COG0714 1224746005480 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 1224746005481 Walker A motif; other site 1224746005482 ATP binding site [chemical binding]; other site 1224746005483 Walker B motif; other site 1224746005484 arginine finger; other site 1224746005485 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1224746005486 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1224746005487 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1224746005488 active site 1224746005489 NTP binding site [chemical binding]; other site 1224746005490 metal binding triad [ion binding]; metal-binding site 1224746005491 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1224746005492 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1224746005493 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1224746005494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746005495 Walker A/P-loop; other site 1224746005496 ATP binding site [chemical binding]; other site 1224746005497 Q-loop/lid; other site 1224746005498 ABC transporter signature motif; other site 1224746005499 Walker B; other site 1224746005500 D-loop; other site 1224746005501 H-loop/switch region; other site 1224746005502 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 1224746005503 putative active site [active] 1224746005504 Ap4A binding site [chemical binding]; other site 1224746005505 nudix motif; other site 1224746005506 putative metal binding site [ion binding]; other site 1224746005507 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1224746005508 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1224746005509 C-terminal peptidase (prc); Region: prc; TIGR00225 1224746005510 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1224746005511 protein binding site [polypeptide binding]; other site 1224746005512 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1224746005513 Catalytic dyad [active] 1224746005514 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1224746005515 Peptidase family M23; Region: Peptidase_M23; pfam01551 1224746005516 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1224746005517 phosphoglyceromutase; Provisional; Region: PRK05434 1224746005518 CsbD-like; Region: CsbD; pfam05532 1224746005519 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1224746005520 SelR domain; Region: SelR; pfam01641 1224746005521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746005522 active site 1224746005523 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1224746005524 threonine dehydratase; Provisional; Region: PRK07334 1224746005525 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 1224746005526 tetramer interface [polypeptide binding]; other site 1224746005527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746005528 catalytic residue [active] 1224746005529 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1224746005530 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1224746005531 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1224746005532 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1224746005533 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 1224746005534 non-specific DNA binding site [nucleotide binding]; other site 1224746005535 salt bridge; other site 1224746005536 sequence-specific DNA binding site [nucleotide binding]; other site 1224746005537 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1224746005538 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1224746005539 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1224746005540 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1224746005541 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1224746005542 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1224746005543 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 1224746005544 IMP binding site; other site 1224746005545 dimer interface [polypeptide binding]; other site 1224746005546 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1224746005547 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1224746005548 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1224746005549 catalytic site [active] 1224746005550 subunit interface [polypeptide binding]; other site 1224746005551 Yqey-like protein; Region: YqeY; pfam09424 1224746005552 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1224746005553 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1224746005554 dimer interface [polypeptide binding]; other site 1224746005555 putative CheW interface [polypeptide binding]; other site 1224746005556 Cation efflux family; Region: Cation_efflux; pfam01545 1224746005557 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1224746005558 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1224746005559 putative NAD(P) binding site [chemical binding]; other site 1224746005560 putative substrate binding site [chemical binding]; other site 1224746005561 catalytic Zn binding site [ion binding]; other site 1224746005562 structural Zn binding site [ion binding]; other site 1224746005563 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1224746005564 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1224746005565 NAD binding site [chemical binding]; other site 1224746005566 substrate binding site [chemical binding]; other site 1224746005567 catalytic Zn binding site [ion binding]; other site 1224746005568 tetramer interface [polypeptide binding]; other site 1224746005569 structural Zn binding site [ion binding]; other site 1224746005570 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1224746005571 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1224746005572 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1224746005573 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1224746005574 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1224746005575 ligand binding site [chemical binding]; other site 1224746005576 homodimer interface [polypeptide binding]; other site 1224746005577 NAD(P) binding site [chemical binding]; other site 1224746005578 trimer interface B [polypeptide binding]; other site 1224746005579 trimer interface A [polypeptide binding]; other site 1224746005580 DNA primase, catalytic core; Region: dnaG; TIGR01391 1224746005581 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1224746005582 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1224746005583 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 1224746005584 active site 1224746005585 metal binding site [ion binding]; metal-binding site 1224746005586 interdomain interaction site; other site 1224746005587 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1224746005588 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1224746005589 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1224746005590 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1224746005591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1224746005592 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1224746005593 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 1224746005594 DNA binding residues [nucleotide binding] 1224746005595 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1224746005596 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1224746005597 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1224746005598 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1224746005599 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1224746005600 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1224746005601 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 1224746005602 S-adenosylmethionine binding site [chemical binding]; other site 1224746005603 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1224746005604 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1224746005605 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 1224746005606 S-adenosylmethionine binding site [chemical binding]; other site 1224746005607 SurA N-terminal domain; Region: SurA_N; pfam09312 1224746005608 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1224746005609 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1224746005610 OstA-like protein; Region: OstA; cl00844 1224746005611 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1224746005612 Predicted permeases [General function prediction only]; Region: COG0795 1224746005613 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1224746005614 Predicted permeases [General function prediction only]; Region: COG0795 1224746005615 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1224746005616 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1224746005617 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1224746005618 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 1224746005619 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1224746005620 active site 1224746005621 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1224746005622 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 1224746005623 interface (dimer of trimers) [polypeptide binding]; other site 1224746005624 Substrate-binding/catalytic site; other site 1224746005625 Zn-binding sites [ion binding]; other site 1224746005626 DNA polymerase III subunit chi; Validated; Region: PRK05728 1224746005627 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 1224746005628 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746005629 active site 1224746005630 catalytic tetrad [active] 1224746005631 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1224746005632 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 1224746005633 fructokinase; Reviewed; Region: PRK09557 1224746005634 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1224746005635 nucleotide binding site [chemical binding]; other site 1224746005636 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1224746005637 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1224746005638 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 1224746005639 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1224746005640 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 1224746005641 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1224746005642 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1224746005643 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1224746005644 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1224746005645 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1224746005646 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1224746005647 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1224746005648 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1224746005649 putative acyl-acceptor binding pocket; other site 1224746005650 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 1224746005651 putative active site [active] 1224746005652 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1224746005653 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1224746005654 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1224746005655 Walker A/P-loop; other site 1224746005656 ATP binding site [chemical binding]; other site 1224746005657 Q-loop/lid; other site 1224746005658 ABC transporter signature motif; other site 1224746005659 Walker B; other site 1224746005660 D-loop; other site 1224746005661 H-loop/switch region; other site 1224746005662 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1224746005663 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 1224746005664 active site 1224746005665 phosphorylation site [posttranslational modification] 1224746005666 intermolecular recognition site; other site 1224746005667 dimerization interface [polypeptide binding]; other site 1224746005668 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 1224746005669 dimer interface [polypeptide binding]; other site 1224746005670 phosphorylation site [posttranslational modification] 1224746005671 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 1224746005672 ATP binding site [chemical binding]; other site 1224746005673 Mg2+ binding site [ion binding]; other site 1224746005674 G-X-G motif; other site 1224746005675 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1224746005676 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 1224746005677 active site 1224746005678 phosphorylation site [posttranslational modification] 1224746005679 intermolecular recognition site; other site 1224746005680 dimerization interface [polypeptide binding]; other site 1224746005681 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 1224746005682 dimer interface [polypeptide binding]; other site 1224746005683 phosphorylation site [posttranslational modification] 1224746005684 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 1224746005685 ATP binding site [chemical binding]; other site 1224746005686 Mg2+ binding site [ion binding]; other site 1224746005687 G-X-G motif; other site 1224746005688 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1224746005689 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 1224746005690 active site 1224746005691 phosphorylation site [posttranslational modification] 1224746005692 intermolecular recognition site; other site 1224746005693 dimerization interface [polypeptide binding]; other site 1224746005694 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 1224746005695 active site 1224746005696 HslU subunit interaction site [polypeptide binding]; other site 1224746005697 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1224746005698 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 1224746005699 Walker A motif; other site 1224746005700 ATP binding site [chemical binding]; other site 1224746005701 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1224746005702 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1224746005703 Fe-S metabolism associated domain; Region: SufE; cl00951 1224746005704 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1224746005705 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1224746005706 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1224746005707 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1224746005708 Trp docking motif [polypeptide binding]; other site 1224746005709 putative active site [active] 1224746005710 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1224746005711 23S rRNA binding site [nucleotide binding]; other site 1224746005712 L21 binding site [polypeptide binding]; other site 1224746005713 L13 binding site [polypeptide binding]; other site 1224746005714 potential frameshift: common BLAST hit: gi|58038737|ref|YP_190701.1| phenylalanyl-tRNA synthetase subunit alpha 1224746005715 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1224746005716 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1224746005717 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 1224746005718 dimer interface [polypeptide binding]; other site 1224746005719 motif 1; other site 1224746005720 active site 1224746005721 motif 2; other site 1224746005722 motif 3; other site 1224746005723 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1224746005724 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 1224746005725 putative tRNA-binding site [nucleotide binding]; other site 1224746005726 B3/4 domain; Region: B3_4; pfam03483 1224746005727 tRNA synthetase B5 domain; Region: B5; smart00874 1224746005728 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 1224746005729 dimer interface [polypeptide binding]; other site 1224746005730 motif 1; other site 1224746005731 motif 3; other site 1224746005732 motif 2; other site 1224746005733 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1224746005734 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1224746005735 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1224746005736 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1224746005737 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1224746005738 active site 1224746005739 HIGH motif; other site 1224746005740 dimer interface [polypeptide binding]; other site 1224746005741 KMSKS motif; other site 1224746005742 thymidine kinase; Provisional; Region: PRK04296 1224746005743 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1224746005744 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1224746005745 argininosuccinate synthase; Provisional; Region: PRK13820 1224746005746 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1224746005747 ANP binding site [chemical binding]; other site 1224746005748 Substrate Binding Site II [chemical binding]; other site 1224746005749 Substrate Binding Site I [chemical binding]; other site 1224746005750 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1224746005751 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 1224746005752 FeS/SAM binding site; other site 1224746005753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1224746005754 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1224746005755 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1224746005756 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 1224746005757 RNA binding surface [nucleotide binding]; other site 1224746005758 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1224746005759 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1224746005760 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 1224746005761 TPP-binding site; other site 1224746005762 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 1224746005763 PYR/PP interface [polypeptide binding]; other site 1224746005764 dimer interface [polypeptide binding]; other site 1224746005765 TPP binding site [chemical binding]; other site 1224746005766 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1224746005767 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1224746005768 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1224746005769 substrate binding pocket [chemical binding]; other site 1224746005770 chain length determination region; other site 1224746005771 substrate-Mg2+ binding site; other site 1224746005772 catalytic residues [active] 1224746005773 aspartate-rich region 1; other site 1224746005774 active site lid residues [active] 1224746005775 aspartate-rich region 2; other site 1224746005776 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1224746005777 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1224746005778 CPxP motif; other site 1224746005779 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1224746005780 AsmA family; Region: AsmA; pfam05170 1224746005781 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1224746005782 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 1224746005783 heme binding pocket [chemical binding]; other site 1224746005784 heme ligand [chemical binding]; other site 1224746005785 active site 1224746005786 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746005787 GTP-binding protein LepA; Provisional; Region: PRK05433 1224746005788 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1224746005789 G1 box; other site 1224746005790 putative GEF interaction site [polypeptide binding]; other site 1224746005791 GTP/Mg2+ binding site [chemical binding]; other site 1224746005792 Switch I region; other site 1224746005793 G2 box; other site 1224746005794 G3 box; other site 1224746005795 Switch II region; other site 1224746005796 G4 box; other site 1224746005797 G5 box; other site 1224746005798 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 1224746005799 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 1224746005800 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1224746005801 hypothetical protein; Validated; Region: PRK09039 1224746005802 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1224746005803 ligand binding site [chemical binding]; other site 1224746005804 Intra-flagellar transport protein 57; Region: IFT57; pfam10498 1224746005805 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1224746005806 ligand binding site [chemical binding]; other site 1224746005807 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1224746005808 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 1224746005809 active site 1224746005810 dimerization interface [polypeptide binding]; other site 1224746005811 elongation factor P; Validated; Region: PRK00529 1224746005812 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1224746005813 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 1224746005814 RNA binding site [nucleotide binding]; other site 1224746005815 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 1224746005816 RNA binding site [nucleotide binding]; other site 1224746005817 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1224746005818 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1224746005819 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 1224746005820 FeS/SAM binding site; other site 1224746005821 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1224746005822 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 1224746005823 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1224746005824 motif 1; other site 1224746005825 dimer interface [polypeptide binding]; other site 1224746005826 active site 1224746005827 motif 2; other site 1224746005828 motif 3; other site 1224746005829 Fasciclin domain; Region: Fasciclin; cl02663 1224746005830 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 1224746005831 thiamine phosphate binding site [chemical binding]; other site 1224746005832 active site 1224746005833 pyrophosphate binding site [ion binding]; other site 1224746005834 Cell division protein ZapA; Region: ZapA; pfam05164 1224746005835 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1224746005836 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1224746005837 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1224746005838 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1224746005839 putative active site [active] 1224746005840 metal binding site [ion binding]; metal-binding site 1224746005841 homodimer binding site [polypeptide binding]; other site 1224746005842 DDE superfamily endonuclease; Region: DDE_5; cl17874 1224746005843 DDE superfamily endonuclease; Region: DDE_5; pfam13546 1224746005844 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1224746005845 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1224746005846 Helix-turn-helix domain; Region: HTH_18; pfam12833 1224746005847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746005848 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 1224746005849 S-adenosylmethionine binding site [chemical binding]; other site 1224746005850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1224746005851 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746005852 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1224746005853 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 1224746005854 salt bridge; other site 1224746005855 non-specific DNA binding site [nucleotide binding]; other site 1224746005856 sequence-specific DNA binding site [nucleotide binding]; other site 1224746005857 Integrase core domain; Region: rve; pfam00665 1224746005858 Integrase core domain; Region: rve_3; cl15866 1224746005859 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746005860 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 1224746005861 N-terminal plug; other site 1224746005862 ligand-binding site [chemical binding]; other site 1224746005863 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746005864 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 1224746005865 putative ligand binding site [chemical binding]; other site 1224746005866 putative catalytic site [active] 1224746005867 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746005868 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 1224746005869 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1224746005870 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 1224746005871 active site 1224746005872 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1224746005873 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1224746005874 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1224746005875 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 1224746005876 S-adenosylmethionine binding site [chemical binding]; other site 1224746005877 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 1224746005878 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1224746005879 ATP binding site [chemical binding]; other site 1224746005880 Mg++ binding site [ion binding]; other site 1224746005881 motif III; other site 1224746005882 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 1224746005883 nucleotide binding region [chemical binding]; other site 1224746005884 ATP-binding site [chemical binding]; other site 1224746005885 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1224746005886 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 1224746005887 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1224746005888 active site 1224746005889 Int/Topo IB signature motif; other site 1224746005890 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1224746005891 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 1224746005892 sequence-specific DNA binding site [nucleotide binding]; other site 1224746005893 salt bridge; other site 1224746005894 Predicted transcriptional regulator [Transcription]; Region: COG2932 1224746005895 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 1224746005896 Catalytic site [active] 1224746005897 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1224746005898 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 1224746005899 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 1224746005900 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 1224746005901 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1224746005902 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1224746005903 putative active site [active] 1224746005904 catalytic triad [active] 1224746005905 putative dimer interface [polypeptide binding]; other site 1224746005906 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1224746005907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746005908 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1224746005909 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 1224746005910 salt bridge; other site 1224746005911 non-specific DNA binding site [nucleotide binding]; other site 1224746005912 sequence-specific DNA binding site [nucleotide binding]; other site 1224746005913 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1224746005914 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1224746005915 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1224746005916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746005917 LysR family transcriptional regulator; Provisional; Region: PRK14997 1224746005918 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 1224746005919 putative effector binding pocket; other site 1224746005920 dimerization interface [polypeptide binding]; other site 1224746005921 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746005922 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1224746005923 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746005924 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746005925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746005926 putative substrate translocation pore; other site 1224746005927 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746005928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746005929 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746005930 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746005931 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746005932 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746005933 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746005934 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746005935 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746005936 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746005937 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746005938 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1224746005939 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1224746005940 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1224746005941 heme binding site [chemical binding]; other site 1224746005942 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1224746005943 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1224746005944 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1224746005945 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1224746005946 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1224746005947 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746005948 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1224746005949 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1224746005950 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1224746005951 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746005952 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746005953 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746005954 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746005955 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1224746005956 Hint domain; Region: Hint_2; pfam13403 1224746005957 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746005958 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746005959 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1224746005960 Peptidase family M23; Region: Peptidase_M23; pfam01551 1224746005961 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1224746005962 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 1224746005963 salt bridge; other site 1224746005964 non-specific DNA binding site [nucleotide binding]; other site 1224746005965 sequence-specific DNA binding site [nucleotide binding]; other site 1224746005966 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1224746005967 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 1224746005968 dimerization interface [polypeptide binding]; other site 1224746005969 putative DNA binding site [nucleotide binding]; other site 1224746005970 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746005971 putative Zn2+ binding site [ion binding]; other site 1224746005972 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1224746005973 ACT domain-containing protein [General function prediction only]; Region: COG4747 1224746005974 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1224746005975 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1224746005976 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 1224746005977 Chloramphenicol (Cm) binding site [chemical binding]; other site 1224746005978 catalytic residue [active] 1224746005979 ATP binding site [chemical binding]; other site 1224746005980 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1224746005981 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1224746005982 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1224746005983 Cupin; Region: Cupin_6; pfam12852 1224746005984 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1224746005985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746005986 enoyl_reductase_like; Region: enoyl_reductase_like; cd08249 1224746005987 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1224746005988 NAD(P) binding site [chemical binding]; other site 1224746005989 phytoene desaturase; Region: crtI_fam; TIGR02734 1224746005990 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1224746005991 phytoene desaturase; Region: crtI_fam; TIGR02734 1224746005992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1224746005993 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 1224746005994 active site 1224746005995 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1224746005996 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1224746005997 NAD(P) binding site [chemical binding]; other site 1224746005998 catalytic residues [active] 1224746005999 short chain dehydrogenase; Provisional; Region: PRK12939 1224746006000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746006001 NAD(P) binding site [chemical binding]; other site 1224746006002 active site 1224746006003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746006004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746006005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006006 HipA N-terminal domain; Region: Couple_hipA; cl11853 1224746006007 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1224746006008 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1224746006009 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1224746006010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1224746006011 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746006012 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1224746006013 dimer interface [polypeptide binding]; other site 1224746006014 signal recognition particle protein; Provisional; Region: PRK10867 1224746006015 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1224746006016 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 1224746006017 P loop; other site 1224746006018 GTP binding site [chemical binding]; other site 1224746006019 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1224746006020 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1224746006021 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1224746006022 RimM N-terminal domain; Region: RimM; pfam01782 1224746006023 PRC-barrel domain; Region: PRC; pfam05239 1224746006024 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1224746006025 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1224746006026 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1224746006027 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1224746006028 substrate binding site [chemical binding]; other site 1224746006029 ligand binding site [chemical binding]; other site 1224746006030 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1224746006031 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 1224746006032 substrate binding site [chemical binding]; other site 1224746006033 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1224746006034 tartrate dehydrogenase; Region: TTC; TIGR02089 1224746006035 aspartate aminotransferase; Provisional; Region: PRK05764 1224746006036 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 1224746006037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746006038 homodimer interface [polypeptide binding]; other site 1224746006039 catalytic residue [active] 1224746006040 aspartate aminotransferase; Provisional; Region: PRK05764 1224746006041 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 1224746006042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746006043 homodimer interface [polypeptide binding]; other site 1224746006044 catalytic residue [active] 1224746006045 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 1224746006046 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 1224746006047 active site 1224746006048 Zn binding site [ion binding]; other site 1224746006049 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 1224746006050 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1224746006051 catalytic residues [active] 1224746006052 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1224746006053 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1224746006054 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1224746006055 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1224746006056 Predicted membrane protein [Function unknown]; Region: COG1297 1224746006057 putative oligopeptide transporter, OPT family; Region: TIGR00733 1224746006058 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1224746006059 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1224746006060 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1224746006061 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1224746006062 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1224746006063 putative active site [active] 1224746006064 putative substrate binding site [chemical binding]; other site 1224746006065 ATP binding site [chemical binding]; other site 1224746006066 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1224746006067 RNA/DNA hybrid binding site [nucleotide binding]; other site 1224746006068 active site 1224746006069 enterobactin exporter EntS; Provisional; Region: PRK10489 1224746006070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746006071 putative substrate translocation pore; other site 1224746006072 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746006073 active site 1224746006074 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1224746006075 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 1224746006076 DAK2 domain; Region: Dak2; pfam02734 1224746006077 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 1224746006078 Isochorismatase family; Region: Isochorismatase; pfam00857 1224746006079 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 1224746006080 catalytic triad [active] 1224746006081 metal binding site [ion binding]; metal-binding site 1224746006082 conserved cis-peptide bond; other site 1224746006083 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1224746006084 Domain of unknown function DUF21; Region: DUF21; pfam01595 1224746006085 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 1224746006086 Transporter associated domain; Region: CorC_HlyC; smart01091 1224746006087 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1224746006088 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 1224746006089 nucleotide binding pocket [chemical binding]; other site 1224746006090 K-X-D-G motif; other site 1224746006091 catalytic site [active] 1224746006092 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1224746006093 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1224746006094 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 1224746006095 Dimer interface [polypeptide binding]; other site 1224746006096 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1224746006097 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1224746006098 Walker A/P-loop; other site 1224746006099 ATP binding site [chemical binding]; other site 1224746006100 Q-loop/lid; other site 1224746006101 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1224746006102 ABC transporter signature motif; other site 1224746006103 Walker B; other site 1224746006104 D-loop; other site 1224746006105 H-loop/switch region; other site 1224746006106 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1224746006107 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 1224746006108 binding surface 1224746006109 TPR motif; other site 1224746006110 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1224746006111 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1224746006112 cell division protein FtsZ; Validated; Region: PRK09330 1224746006113 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1224746006114 nucleotide binding site [chemical binding]; other site 1224746006115 SulA interaction site; other site 1224746006116 Cell division protein FtsA; Region: FtsA; smart00842 1224746006117 cell division protein FtsA; Region: ftsA; TIGR01174 1224746006118 Cell division protein FtsA; Region: FtsA; pfam14450 1224746006119 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1224746006120 Cell division protein FtsQ; Region: FtsQ; pfam03799 1224746006121 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1224746006122 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1224746006123 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1224746006124 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1224746006125 FAD binding domain; Region: FAD_binding_4; pfam01565 1224746006126 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1224746006127 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1224746006128 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1224746006129 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1224746006130 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1224746006131 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1224746006132 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 1224746006133 active site 1224746006134 homodimer interface [polypeptide binding]; other site 1224746006135 cell division protein FtsW; Region: ftsW; TIGR02614 1224746006136 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1224746006137 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1224746006138 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1224746006139 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1224746006140 Mg++ binding site [ion binding]; other site 1224746006141 putative catalytic motif [active] 1224746006142 putative substrate binding site [chemical binding]; other site 1224746006143 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1224746006144 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1224746006145 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1224746006146 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1224746006147 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1224746006148 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1224746006149 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1224746006150 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1224746006151 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1224746006152 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1224746006153 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1224746006154 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1224746006155 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 1224746006156 S-adenosylmethionine binding site [chemical binding]; other site 1224746006157 cell division protein MraZ; Reviewed; Region: PRK00326 1224746006158 MraZ protein; Region: MraZ; pfam02381 1224746006159 MraZ protein; Region: MraZ; pfam02381 1224746006160 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1224746006161 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746006162 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1224746006163 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1224746006164 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1224746006165 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 1224746006166 gamma-glutamyl kinase; Provisional; Region: PRK05429 1224746006167 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 1224746006168 nucleotide binding site [chemical binding]; other site 1224746006169 homotetrameric interface [polypeptide binding]; other site 1224746006170 putative phosphate binding site [ion binding]; other site 1224746006171 putative allosteric binding site; other site 1224746006172 PUA domain; Region: PUA; pfam01472 1224746006173 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1224746006174 GTP1/OBG; Region: GTP1_OBG; pfam01018 1224746006175 Obg GTPase; Region: Obg; cd01898 1224746006176 G1 box; other site 1224746006177 GTP/Mg2+ binding site [chemical binding]; other site 1224746006178 Switch I region; other site 1224746006179 G2 box; other site 1224746006180 G3 box; other site 1224746006181 Switch II region; other site 1224746006182 G4 box; other site 1224746006183 G5 box; other site 1224746006184 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1224746006185 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1224746006186 Major royal jelly protein; Region: MRJP; pfam03022 1224746006187 Cupin domain; Region: Cupin_2; cl17218 1224746006188 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1224746006189 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1224746006190 putative NAD(P) binding site [chemical binding]; other site 1224746006191 dimer interface [polypeptide binding]; other site 1224746006192 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746006193 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746006194 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746006195 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1224746006196 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 1224746006197 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1224746006198 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1224746006199 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 1224746006200 DNA binding residues [nucleotide binding] 1224746006201 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 1224746006202 ATP binding site [chemical binding]; other site 1224746006203 Mg2+ binding site [ion binding]; other site 1224746006204 G-X-G motif; other site 1224746006205 Z1 domain; Region: Z1; pfam10593 1224746006206 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 1224746006207 AIPR protein; Region: AIPR; pfam10592 1224746006208 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1224746006209 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1224746006210 cofactor binding site; other site 1224746006211 DNA binding site [nucleotide binding] 1224746006212 substrate interaction site [chemical binding]; other site 1224746006213 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1224746006214 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1224746006215 Predicted transcriptional regulator [Transcription]; Region: COG2932 1224746006216 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 1224746006217 sequence-specific DNA binding site [nucleotide binding]; other site 1224746006218 salt bridge; other site 1224746006219 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 1224746006220 Catalytic site [active] 1224746006221 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1224746006222 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 1224746006223 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1224746006224 active site 1224746006225 Int/Topo IB signature motif; other site 1224746006226 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1224746006227 DNA binding residues [nucleotide binding] 1224746006228 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1224746006229 dimer interface [polypeptide binding]; other site 1224746006230 putative metal binding site [ion binding]; other site 1224746006231 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1224746006232 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1224746006233 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746006234 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 1224746006235 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1224746006236 Fe-S cluster binding site [ion binding]; other site 1224746006237 active site 1224746006238 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 1224746006239 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1224746006240 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1224746006241 tandem repeat interface [polypeptide binding]; other site 1224746006242 oligomer interface [polypeptide binding]; other site 1224746006243 active site residues [active] 1224746006244 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 1224746006245 IHF dimer interface [polypeptide binding]; other site 1224746006246 IHF - DNA interface [nucleotide binding]; other site 1224746006247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746006248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746006249 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 1224746006250 putative effector binding pocket; other site 1224746006251 dimerization interface [polypeptide binding]; other site 1224746006252 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1224746006253 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746006254 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746006255 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1224746006256 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 1224746006257 putative DNA binding site [nucleotide binding]; other site 1224746006258 putative Zn2+ binding site [ion binding]; other site 1224746006259 AsnC family; Region: AsnC_trans_reg; pfam01037 1224746006260 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1224746006261 Ligand binding site; other site 1224746006262 Putative Catalytic site; other site 1224746006263 DXD motif; other site 1224746006264 GtrA-like protein; Region: GtrA; pfam04138 1224746006265 Predicted membrane protein [Function unknown]; Region: COG2246 1224746006266 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1224746006267 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1224746006268 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1224746006269 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1224746006270 ligand binding site [chemical binding]; other site 1224746006271 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1224746006272 flagellar motor protein MotA; Validated; Region: PRK09110 1224746006273 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1224746006274 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746006275 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1224746006276 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 1224746006277 active site 1224746006278 catalytic residues [active] 1224746006279 metal binding site [ion binding]; metal-binding site 1224746006280 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1224746006281 MarR family; Region: MarR_2; pfam12802 1224746006282 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746006283 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 1224746006284 active site 1224746006285 phosphorylation site [posttranslational modification] 1224746006286 intermolecular recognition site; other site 1224746006287 dimerization interface [polypeptide binding]; other site 1224746006288 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 1224746006289 DNA binding site [nucleotide binding] 1224746006290 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1224746006291 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 1224746006292 dimer interface [polypeptide binding]; other site 1224746006293 phosphorylation site [posttranslational modification] 1224746006294 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 1224746006295 ATP binding site [chemical binding]; other site 1224746006296 Mg2+ binding site [ion binding]; other site 1224746006297 G-X-G motif; other site 1224746006298 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1224746006299 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1224746006300 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1224746006301 putative phosphate acyltransferase; Provisional; Region: PRK05331 1224746006302 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1224746006303 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 1224746006304 dimer interface [polypeptide binding]; other site 1224746006305 active site 1224746006306 CoA binding pocket [chemical binding]; other site 1224746006307 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 1224746006308 IHF - DNA interface [nucleotide binding]; other site 1224746006309 IHF dimer interface [polypeptide binding]; other site 1224746006310 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1224746006311 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1224746006312 DNA binding residues [nucleotide binding] 1224746006313 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1224746006314 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1224746006315 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1224746006316 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1224746006317 nudix motif; other site 1224746006318 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1224746006319 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1224746006320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006321 Walker A/P-loop; other site 1224746006322 ATP binding site [chemical binding]; other site 1224746006323 Q-loop/lid; other site 1224746006324 ABC transporter signature motif; other site 1224746006325 Walker B; other site 1224746006326 D-loop; other site 1224746006327 H-loop/switch region; other site 1224746006328 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1224746006329 elongation factor G; Reviewed; Region: PRK12739 1224746006330 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1224746006331 G1 box; other site 1224746006332 putative GEF interaction site [polypeptide binding]; other site 1224746006333 GTP/Mg2+ binding site [chemical binding]; other site 1224746006334 Switch I region; other site 1224746006335 G2 box; other site 1224746006336 G3 box; other site 1224746006337 Switch II region; other site 1224746006338 G4 box; other site 1224746006339 G5 box; other site 1224746006340 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 1224746006341 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 1224746006342 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 1224746006343 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 1224746006344 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1224746006345 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1224746006346 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1224746006347 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1224746006348 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1224746006349 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 1224746006350 Transcriptional regulator; Region: Rrf2; pfam02082 1224746006351 Transcriptional regulator; Region: Rrf2; cl17282 1224746006352 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1224746006353 putative ABC transporter; Region: ycf24; CHL00085 1224746006354 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1224746006355 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1224746006356 Walker A/P-loop; other site 1224746006357 ATP binding site [chemical binding]; other site 1224746006358 Q-loop/lid; other site 1224746006359 ABC transporter signature motif; other site 1224746006360 Walker B; other site 1224746006361 D-loop; other site 1224746006362 H-loop/switch region; other site 1224746006363 FeS assembly protein SufD; Region: sufD; TIGR01981 1224746006364 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1224746006365 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1224746006366 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 1224746006367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746006368 catalytic residue [active] 1224746006369 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1224746006370 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1224746006371 TRAM domain; Region: TRAM; cl01282 1224746006372 helicase 45; Provisional; Region: PTZ00424 1224746006373 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 1224746006374 ATP binding site [chemical binding]; other site 1224746006375 Mg++ binding site [ion binding]; other site 1224746006376 motif III; other site 1224746006377 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 1224746006378 nucleotide binding region [chemical binding]; other site 1224746006379 ATP-binding site [chemical binding]; other site 1224746006380 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1224746006381 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 1224746006382 putative substrate binding site [chemical binding]; other site 1224746006383 putative ATP binding site [chemical binding]; other site 1224746006384 trigger factor; Provisional; Region: tig; PRK01490 1224746006385 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1224746006386 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1224746006387 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1224746006388 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1224746006389 oligomer interface [polypeptide binding]; other site 1224746006390 active site residues [active] 1224746006391 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1224746006392 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1224746006393 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 1224746006394 Walker A motif; other site 1224746006395 ATP binding site [chemical binding]; other site 1224746006396 Walker B motif; other site 1224746006397 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1224746006398 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1224746006399 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1224746006400 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 1224746006401 Walker A motif; other site 1224746006402 ATP binding site [chemical binding]; other site 1224746006403 Walker B motif; other site 1224746006404 arginine finger; other site 1224746006405 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1224746006406 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 1224746006407 IHF dimer interface [polypeptide binding]; other site 1224746006408 IHF - DNA interface [nucleotide binding]; other site 1224746006409 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1224746006410 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1224746006411 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1224746006412 pantothenate kinase; Reviewed; Region: PRK13318 1224746006413 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1224746006414 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1224746006415 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1224746006416 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1224746006417 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 1224746006418 dimer interface [polypeptide binding]; other site 1224746006419 motif 1; other site 1224746006420 active site 1224746006421 motif 2; other site 1224746006422 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 1224746006423 active site 1224746006424 motif 3; other site 1224746006425 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 1224746006426 anticodon binding site; other site 1224746006427 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1224746006428 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1224746006429 FtsX-like permease family; Region: FtsX; pfam02687 1224746006430 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1224746006431 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1224746006432 Walker A/P-loop; other site 1224746006433 ATP binding site [chemical binding]; other site 1224746006434 Q-loop/lid; other site 1224746006435 ABC transporter signature motif; other site 1224746006436 Walker B; other site 1224746006437 D-loop; other site 1224746006438 H-loop/switch region; other site 1224746006439 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1224746006440 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1224746006441 putative active site [active] 1224746006442 putative PHP Thumb interface [polypeptide binding]; other site 1224746006443 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1224746006444 generic binding surface II; other site 1224746006445 generic binding surface I; other site 1224746006446 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 1224746006447 rRNA interaction site [nucleotide binding]; other site 1224746006448 S8 interaction site; other site 1224746006449 putative laminin-1 binding site; other site 1224746006450 elongation factor Ts; Provisional; Region: tsf; PRK09377 1224746006451 Elongation factor TS; Region: EF_TS; pfam00889 1224746006452 Elongation factor TS; Region: EF_TS; pfam00889 1224746006453 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1224746006454 Recombination protein O N terminal; Region: RecO_N; pfam11967 1224746006455 Recombination protein O C terminal; Region: RecO_C; pfam02565 1224746006456 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1224746006457 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 1224746006458 CAP-like domain; other site 1224746006459 active site 1224746006460 primary dimer interface [polypeptide binding]; other site 1224746006461 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1224746006462 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1224746006463 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1224746006464 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1224746006465 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1224746006466 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1224746006467 putative active site [active] 1224746006468 catalytic site [active] 1224746006469 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1224746006470 putative active site [active] 1224746006471 catalytic site [active] 1224746006472 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1224746006473 putative catalytic site [active] 1224746006474 putative metal binding site [ion binding]; other site 1224746006475 putative phosphate binding site [ion binding]; other site 1224746006476 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1224746006477 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1224746006478 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1224746006479 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 1224746006480 active site residue [active] 1224746006481 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 1224746006482 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 1224746006483 active site residue [active] 1224746006484 cystathionine beta-lyase; Provisional; Region: PRK05967 1224746006485 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1224746006486 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746006487 catalytic residue [active] 1224746006488 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1224746006489 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1224746006490 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1224746006491 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1224746006492 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1224746006493 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1224746006494 ligand binding site [chemical binding]; other site 1224746006495 NAD binding site [chemical binding]; other site 1224746006496 tetramer interface [polypeptide binding]; other site 1224746006497 catalytic site [active] 1224746006498 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1224746006499 L-serine binding site [chemical binding]; other site 1224746006500 ACT domain interface; other site 1224746006501 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1224746006502 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1224746006503 active site 1224746006504 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1224746006505 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1224746006506 Ligand binding site; other site 1224746006507 oligomer interface; other site 1224746006508 prephenate dehydratase; Provisional; Region: PRK11899 1224746006509 Prephenate dehydratase; Region: PDT; pfam00800 1224746006510 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 1224746006511 putative L-Phe binding site [chemical binding]; other site 1224746006512 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1224746006513 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1224746006514 dimer interface [polypeptide binding]; other site 1224746006515 active site 1224746006516 catalytic residue [active] 1224746006517 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 1224746006518 SmpB-tmRNA interface; other site 1224746006519 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 1224746006520 DNA-binding site [nucleotide binding]; DNA binding site 1224746006521 RNA-binding motif; other site 1224746006522 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 1224746006523 DNA-binding site [nucleotide binding]; DNA binding site 1224746006524 RNA-binding motif; other site 1224746006525 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1224746006526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746006527 metal binding site [ion binding]; metal-binding site 1224746006528 active site 1224746006529 I-site; other site 1224746006530 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 1224746006531 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1224746006532 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1224746006533 generic binding surface II; other site 1224746006534 ssDNA binding site; other site 1224746006535 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 1224746006536 ATP binding site [chemical binding]; other site 1224746006537 putative Mg++ binding site [ion binding]; other site 1224746006538 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 1224746006539 nucleotide binding region [chemical binding]; other site 1224746006540 ATP-binding site [chemical binding]; other site 1224746006541 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1224746006542 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1224746006543 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 1224746006544 ATP binding site [chemical binding]; other site 1224746006545 putative Mg++ binding site [ion binding]; other site 1224746006546 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 1224746006547 nucleotide binding region [chemical binding]; other site 1224746006548 ATP-binding site [chemical binding]; other site 1224746006549 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1224746006550 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1224746006551 tyrosine decarboxylase; Region: PLN02880 1224746006552 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1224746006553 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1224746006554 catalytic residue [active] 1224746006555 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1224746006556 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 1224746006557 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1224746006558 metal ion-dependent adhesion site (MIDAS); other site 1224746006559 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1224746006560 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1224746006561 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 1224746006562 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 1224746006563 HSP70 interaction site [polypeptide binding]; other site 1224746006564 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1224746006565 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1224746006566 lipoate-protein ligase B; Provisional; Region: PRK14341 1224746006567 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1224746006568 active site 1224746006569 tetramer interface; other site 1224746006570 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1224746006571 active site 1224746006572 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1224746006573 substrate binding site [chemical binding]; other site 1224746006574 metal binding site [ion binding]; metal-binding site 1224746006575 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 1224746006576 comF family protein; Region: comF; TIGR00201 1224746006577 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746006578 active site 1224746006579 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 1224746006580 GSH binding site [chemical binding]; other site 1224746006581 catalytic residues [active] 1224746006582 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1224746006583 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1224746006584 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1224746006585 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 1224746006586 S-adenosylmethionine binding site [chemical binding]; other site 1224746006587 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1224746006588 aspartate kinase; Reviewed; Region: PRK06635 1224746006589 putative nucleotide binding site [chemical binding]; other site 1224746006590 putative catalytic residues [active] 1224746006591 putative Mg ion binding site [ion binding]; other site 1224746006592 putative aspartate binding site [chemical binding]; other site 1224746006593 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1224746006594 putative allosteric regulatory site; other site 1224746006595 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1224746006596 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1224746006597 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 1224746006598 FMN binding site [chemical binding]; other site 1224746006599 substrate binding site [chemical binding]; other site 1224746006600 putative catalytic residue [active] 1224746006601 Helix-turn-helix domain; Region: HTH_25; pfam13413 1224746006602 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1224746006603 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1224746006604 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1224746006605 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1224746006606 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1224746006607 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 1224746006608 dimer interface [polypeptide binding]; other site 1224746006609 motif 1; other site 1224746006610 active site 1224746006611 motif 2; other site 1224746006612 motif 3; other site 1224746006613 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 1224746006614 anticodon binding site; other site 1224746006615 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1224746006616 PCRF domain; Region: PCRF; pfam03462 1224746006617 RF-1 domain; Region: RF-1; pfam00472 1224746006618 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1224746006619 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 1224746006620 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1224746006621 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1224746006622 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1224746006623 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1224746006624 amino acid transporter; Region: 2A0306; TIGR00909 1224746006625 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1224746006626 mce related protein; Region: MCE; pfam02470 1224746006627 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1224746006628 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1224746006629 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 1224746006630 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746006631 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 1224746006632 Sporulation related domain; Region: SPOR; pfam05036 1224746006633 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1224746006634 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1224746006635 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1224746006636 thymidylate kinase; Validated; Region: tmk; PRK00698 1224746006637 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 1224746006638 TMP-binding site; other site 1224746006639 ATP-binding site [chemical binding]; other site 1224746006640 DNA polymerase III subunit delta'; Validated; Region: PRK07471 1224746006641 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 1224746006642 Walker A motif; other site 1224746006643 ATP binding site [chemical binding]; other site 1224746006644 Walker B motif; other site 1224746006645 arginine finger; other site 1224746006646 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1224746006647 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1224746006648 active site 1224746006649 HIGH motif; other site 1224746006650 KMSKS motif; other site 1224746006651 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1224746006652 tRNA binding surface [nucleotide binding]; other site 1224746006653 anticodon binding site; other site 1224746006654 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1224746006655 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1224746006656 active site 1224746006657 putative hydrolase; Provisional; Region: PRK02113 1224746006658 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1224746006659 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 1224746006660 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1224746006661 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746006662 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1224746006663 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1224746006664 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 1224746006665 ligand binding site [chemical binding]; other site 1224746006666 flexible hinge region; other site 1224746006667 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 1224746006668 thiamine phosphate binding site [chemical binding]; other site 1224746006669 active site 1224746006670 pyrophosphate binding site [ion binding]; other site 1224746006671 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 1224746006672 ThiS interaction site; other site 1224746006673 putative active site [active] 1224746006674 tetramer interface [polypeptide binding]; other site 1224746006675 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1224746006676 thiS-thiF/thiG interaction site; other site 1224746006677 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1224746006678 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1224746006679 FAD binding domain; Region: FAD_binding_4; pfam01565 1224746006680 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1224746006681 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1224746006682 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 1224746006683 glutaminase active site [active] 1224746006684 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 1224746006685 dimer interface [polypeptide binding]; other site 1224746006686 active site 1224746006687 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 1224746006688 dimer interface [polypeptide binding]; other site 1224746006689 active site 1224746006690 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1224746006691 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1224746006692 Substrate binding site; other site 1224746006693 Mg++ binding site; other site 1224746006694 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1224746006695 active site 1224746006696 substrate binding site [chemical binding]; other site 1224746006697 CoA binding site [chemical binding]; other site 1224746006698 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1224746006699 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1224746006700 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 1224746006701 ATP binding site [chemical binding]; other site 1224746006702 Mg2+ binding site [ion binding]; other site 1224746006703 G-X-G motif; other site 1224746006704 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 1224746006705 anchoring element; other site 1224746006706 dimer interface [polypeptide binding]; other site 1224746006707 ATP binding site [chemical binding]; other site 1224746006708 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 1224746006709 active site 1224746006710 putative metal-binding site [ion binding]; other site 1224746006711 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1224746006712 recombination protein F; Reviewed; Region: recF; PRK00064 1224746006713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006714 Walker A/P-loop; other site 1224746006715 ATP binding site [chemical binding]; other site 1224746006716 Q-loop/lid; other site 1224746006717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006718 ABC transporter signature motif; other site 1224746006719 Walker B; other site 1224746006720 D-loop; other site 1224746006721 H-loop/switch region; other site 1224746006722 DNA polymerase III subunit beta; Validated; Region: PRK05643 1224746006723 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 1224746006724 putative DNA binding surface [nucleotide binding]; other site 1224746006725 dimer interface [polypeptide binding]; other site 1224746006726 beta-clamp/clamp loader binding surface; other site 1224746006727 beta-clamp/translesion DNA polymerase binding surface; other site 1224746006728 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1224746006729 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1224746006730 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 1224746006731 Walker A motif; other site 1224746006732 ATP binding site [chemical binding]; other site 1224746006733 Walker B motif; other site 1224746006734 arginine finger; other site 1224746006735 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 1224746006736 DnaA box-binding interface [nucleotide binding]; other site 1224746006737 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1224746006738 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1224746006739 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 1224746006740 DNA binding site [nucleotide binding] 1224746006741 putative catalytic residues [active] 1224746006742 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1224746006743 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1224746006744 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1224746006745 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 1224746006746 S-adenosylmethionine binding site [chemical binding]; other site 1224746006747 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1224746006748 Flavoprotein; Region: Flavoprotein; pfam02441 1224746006749 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1224746006750 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1224746006751 trimer interface [polypeptide binding]; other site 1224746006752 active site 1224746006753 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1224746006754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1224746006755 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1224746006756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006757 Walker A/P-loop; other site 1224746006758 ATP binding site [chemical binding]; other site 1224746006759 Q-loop/lid; other site 1224746006760 ABC transporter signature motif; other site 1224746006761 Walker B; other site 1224746006762 D-loop; other site 1224746006763 H-loop/switch region; other site 1224746006764 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1224746006765 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1224746006766 Predicted acyl esterases [General function prediction only]; Region: COG2936 1224746006767 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746006768 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1224746006769 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1224746006770 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1224746006771 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1224746006772 active site 1224746006773 HIGH motif; other site 1224746006774 nucleotide binding site [chemical binding]; other site 1224746006775 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1224746006776 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1224746006777 active site 1224746006778 KMSKS motif; other site 1224746006779 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1224746006780 tRNA binding surface [nucleotide binding]; other site 1224746006781 anticodon binding site; other site 1224746006782 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1224746006783 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 1224746006784 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1224746006785 glucokinase, proteobacterial type; Region: glk; TIGR00749 1224746006786 Glucokinase; Region: Glucokinase; pfam02685 1224746006787 short chain dehydrogenase; Provisional; Region: PRK07024 1224746006788 classical (c) SDRs; Region: SDR_c; cd05233 1224746006789 NAD(P) binding site [chemical binding]; other site 1224746006790 active site 1224746006791 thiamine monophosphate kinase; Provisional; Region: PRK05731 1224746006792 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 1224746006793 ATP binding site [chemical binding]; other site 1224746006794 dimerization interface [polypeptide binding]; other site 1224746006795 transcription antitermination factor NusB; Region: nusB; TIGR01951 1224746006796 putative RNA binding site [nucleotide binding]; other site 1224746006797 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1224746006798 ATP cone domain; Region: ATP-cone; pfam03477 1224746006799 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1224746006800 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1224746006801 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 1224746006802 ATP binding site [chemical binding]; other site 1224746006803 putative Mg++ binding site [ion binding]; other site 1224746006804 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 1224746006805 nucleotide binding region [chemical binding]; other site 1224746006806 ATP-binding site [chemical binding]; other site 1224746006807 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1224746006808 HRDC domain; Region: HRDC; pfam00570 1224746006809 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1224746006810 ligand binding site [chemical binding]; other site 1224746006811 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1224746006812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006813 Walker A/P-loop; other site 1224746006814 ATP binding site [chemical binding]; other site 1224746006815 Q-loop/lid; other site 1224746006816 ABC transporter signature motif; other site 1224746006817 Walker B; other site 1224746006818 D-loop; other site 1224746006819 H-loop/switch region; other site 1224746006820 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1224746006821 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1224746006822 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1224746006823 Walker A/P-loop; other site 1224746006824 ATP binding site [chemical binding]; other site 1224746006825 Q-loop/lid; other site 1224746006826 ABC transporter signature motif; other site 1224746006827 Walker B; other site 1224746006828 D-loop; other site 1224746006829 H-loop/switch region; other site 1224746006830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1224746006831 Histidine kinase; Region: HisKA_2; pfam07568 1224746006832 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1224746006833 Mg2+ binding site [ion binding]; other site 1224746006834 G-X-G motif; other site 1224746006835 RNA polymerase sigma factor; Provisional; Region: PRK12547 1224746006836 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1224746006837 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 1224746006838 DNA binding residues [nucleotide binding] 1224746006839 RNA polymerase sigma factor; Provisional; Region: PRK12547 1224746006840 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1224746006841 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 1224746006842 DNA binding residues [nucleotide binding] 1224746006843 two-component response regulator; Provisional; Region: PRK09191 1224746006844 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 1224746006845 active site 1224746006846 phosphorylation site [posttranslational modification] 1224746006847 intermolecular recognition site; other site 1224746006848 dimerization interface [polypeptide binding]; other site 1224746006849 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746006850 ABC transporter ATPase component; Reviewed; Region: PRK11147 1224746006851 ABC transporter; Region: ABC_tran_2; pfam12848 1224746006852 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746006853 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1224746006854 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1224746006855 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1224746006856 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1224746006857 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1224746006858 Protein export membrane protein; Region: SecD_SecF; pfam02355 1224746006859 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1224746006860 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1224746006861 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1224746006862 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1224746006863 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 1224746006864 putative dimer interface [polypeptide binding]; other site 1224746006865 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 1224746006866 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1224746006867 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1224746006868 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1224746006869 NAD binding site [chemical binding]; other site 1224746006870 ATP-grasp domain; Region: ATP-grasp; pfam02222 1224746006871 DNA repair protein radc; Region: radc; TIGR00608 1224746006872 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1224746006873 MPN+ (JAMM) motif; other site 1224746006874 Zinc-binding site [ion binding]; other site 1224746006875 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1224746006876 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1224746006877 Part of AAA domain; Region: AAA_19; pfam13245 1224746006878 Family description; Region: UvrD_C_2; pfam13538 1224746006879 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1224746006880 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 1224746006881 S-adenosylmethionine binding site [chemical binding]; other site 1224746006882 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1224746006883 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1224746006884 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1224746006885 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1224746006886 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1224746006887 active site 1224746006888 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746006889 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1224746006890 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 1224746006891 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746006892 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 1224746006893 ATP binding site [chemical binding]; other site 1224746006894 G-X-G motif; other site 1224746006895 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1224746006896 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 1224746006897 active site 1224746006898 phosphorylation site [posttranslational modification] 1224746006899 intermolecular recognition site; other site 1224746006900 dimerization interface [polypeptide binding]; other site 1224746006901 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 1224746006902 Walker A motif; other site 1224746006903 ATP binding site [chemical binding]; other site 1224746006904 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1224746006905 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746006906 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746006907 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746006908 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1224746006909 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1224746006910 Walker A/P-loop; other site 1224746006911 ATP binding site [chemical binding]; other site 1224746006912 Q-loop/lid; other site 1224746006913 ABC transporter signature motif; other site 1224746006914 Walker B; other site 1224746006915 D-loop; other site 1224746006916 H-loop/switch region; other site 1224746006917 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1224746006918 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1224746006919 FtsX-like permease family; Region: FtsX; pfam02687 1224746006920 FtsX-like permease family; Region: FtsX; pfam02687 1224746006921 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1224746006922 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1224746006923 FtsX-like permease family; Region: FtsX; pfam02687 1224746006924 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1224746006925 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1224746006926 FtsX-like permease family; Region: FtsX; pfam02687 1224746006927 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1224746006928 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1224746006929 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1224746006930 FtsX-like permease family; Region: FtsX; pfam02687 1224746006931 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1224746006932 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1224746006933 putative active site [active] 1224746006934 putative PHP Thumb interface [polypeptide binding]; other site 1224746006935 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1224746006936 generic binding surface II; other site 1224746006937 generic binding surface I; other site 1224746006938 DNA Polymerase Y-family; Region: PolY_like; cd03468 1224746006939 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1224746006940 DNA binding site [nucleotide binding] 1224746006941 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1224746006942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1224746006943 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746006944 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1224746006945 YCII-related domain; Region: YCII; pfam03795 1224746006946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746006947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746006948 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 1224746006949 putative effector binding pocket; other site 1224746006950 dimerization interface [polypeptide binding]; other site 1224746006951 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1224746006952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746006953 NAD(P) binding site [chemical binding]; other site 1224746006954 active site 1224746006955 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1224746006956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746006957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746006958 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1224746006959 Transcriptional regulator; Region: Rrf2; pfam02082 1224746006960 Predicted transcriptional regulator [Transcription]; Region: COG1959 1224746006961 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 1224746006962 NmrA-like family; Region: NmrA; pfam05368 1224746006963 NAD(P) binding site [chemical binding]; other site 1224746006964 active site lysine 1224746006965 Integrase core domain; Region: rve; pfam00665 1224746006966 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1224746006967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746006968 NAD(P) binding site [chemical binding]; other site 1224746006969 active site 1224746006970 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1224746006971 Protein of unknown function DUF262; Region: DUF262; pfam03235 1224746006972 Protein of unknown function DUF262; Region: DUF262; pfam03235 1224746006973 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1224746006974 Protein of unknown function DUF262; Region: DUF262; pfam03235 1224746006975 AAA domain; Region: AAA_23; pfam13476 1224746006976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746006977 Walker A/P-loop; other site 1224746006978 ATP binding site [chemical binding]; other site 1224746006979 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 1224746006980 putative active site [active] 1224746006981 putative metal-binding site [ion binding]; other site 1224746006982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1224746006983 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1224746006984 Predicted transcriptional regulator [Transcription]; Region: COG2932 1224746006985 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 1224746006986 sequence-specific DNA binding site [nucleotide binding]; other site 1224746006987 salt bridge; other site 1224746006988 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 1224746006989 Catalytic site [active] 1224746006990 Hint domain; Region: Hint_2; pfam13403 1224746006991 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746006992 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; pfam13579 1224746006993 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1224746006994 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 1224746006995 active site 1224746006996 Int/Topo IB signature motif; other site 1224746006997 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1224746006998 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 1224746006999 catalytic residues [active] 1224746007000 catalytic nucleophile [active] 1224746007001 Presynaptic Site I dimer interface [polypeptide binding]; other site 1224746007002 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1224746007003 Synaptic Flat tetramer interface [polypeptide binding]; other site 1224746007004 Synaptic Site I dimer interface [polypeptide binding]; other site 1224746007005 DNA binding site [nucleotide binding] 1224746007006 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 1224746007007 DNA-binding interface [nucleotide binding]; DNA binding site 1224746007008 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 1224746007009 active site 1224746007010 DNA binding site [nucleotide binding] 1224746007011 Int/Topo IB signature motif; other site 1224746007012 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1224746007013 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1224746007014 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1224746007015 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1224746007016 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1224746007017 ATP binding site [chemical binding]; other site 1224746007018 putative Mg++ binding site [ion binding]; other site 1224746007019 Abortive infection C-terminus; Region: Abi_C; pfam14355 1224746007020 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1224746007021 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1224746007022 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1224746007023 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1224746007024 TrwC relaxase; Region: TrwC; pfam08751 1224746007025 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1224746007026 AAA domain; Region: AAA_30; pfam13604 1224746007027 Family description; Region: UvrD_C_2; pfam13538 1224746007028 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 1224746007029 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1224746007030 Walker A motif; other site 1224746007031 ATP binding site [chemical binding]; other site 1224746007032 Walker B motif; other site 1224746007033 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1224746007034 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 1224746007035 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1224746007036 active site 1224746007037 Int/Topo IB signature motif; other site 1224746007038 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1224746007039 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1224746007040 GatB domain; Region: GatB_Yqey; smart00845 1224746007041 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1224746007042 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1224746007043 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1224746007044 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1224746007045 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 1224746007046 DNA-binding site [nucleotide binding]; DNA binding site 1224746007047 RNA-binding motif; other site 1224746007048 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1224746007049 trimer interface [polypeptide binding]; other site 1224746007050 active site 1224746007051 substrate binding site [chemical binding]; other site 1224746007052 CoA binding site [chemical binding]; other site 1224746007053 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1224746007054 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1224746007055 N- and C-terminal domain interface [polypeptide binding]; other site 1224746007056 D-xylulose kinase; Region: XylB; TIGR01312 1224746007057 active site 1224746007058 MgATP binding site [chemical binding]; other site 1224746007059 catalytic site [active] 1224746007060 metal binding site [ion binding]; metal-binding site 1224746007061 xylulose binding site [chemical binding]; other site 1224746007062 homodimer interface [polypeptide binding]; other site 1224746007063 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1224746007064 benzoate transport; Region: 2A0115; TIGR00895 1224746007065 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746007066 putative substrate translocation pore; other site 1224746007067 MASE1; Region: MASE1; cl17823 1224746007068 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746007069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746007070 metal binding site [ion binding]; metal-binding site 1224746007071 active site 1224746007072 I-site; other site 1224746007073 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1224746007074 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1224746007075 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1224746007076 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1224746007077 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1224746007078 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1224746007079 helicase 45; Provisional; Region: PTZ00424 1224746007080 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 1224746007081 ATP binding site [chemical binding]; other site 1224746007082 Mg++ binding site [ion binding]; other site 1224746007083 motif III; other site 1224746007084 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 1224746007085 nucleotide binding region [chemical binding]; other site 1224746007086 ATP-binding site [chemical binding]; other site 1224746007087 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746007088 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 1224746007089 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746007090 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 1224746007091 acetylornithine deacetylase; Provisional; Region: PRK07522 1224746007092 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1224746007093 metal binding site [ion binding]; metal-binding site 1224746007094 putative dimer interface [polypeptide binding]; other site 1224746007095 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1224746007096 active site 1224746007097 Zn binding site [ion binding]; other site 1224746007098 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1224746007099 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 1224746007100 dimer interface [polypeptide binding]; other site 1224746007101 active site 1224746007102 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1224746007103 folate binding site [chemical binding]; other site 1224746007104 amino acid transporter; Region: 2A0306; TIGR00909 1224746007105 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1224746007106 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1224746007107 dimer interface [polypeptide binding]; other site 1224746007108 allosteric magnesium binding site [ion binding]; other site 1224746007109 active site 1224746007110 aspartate-rich active site metal binding site; other site 1224746007111 Schiff base residues; other site 1224746007112 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 1224746007113 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1224746007114 putative GSH binding site [chemical binding]; other site 1224746007115 catalytic residues [active] 1224746007116 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1224746007117 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1224746007118 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 1224746007119 dimerization interface [polypeptide binding]; other site 1224746007120 ATP binding site [chemical binding]; other site 1224746007121 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1224746007122 dimerization interface [polypeptide binding]; other site 1224746007123 ATP binding site [chemical binding]; other site 1224746007124 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1224746007125 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1224746007126 putative active site [active] 1224746007127 catalytic triad [active] 1224746007128 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1224746007129 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1224746007130 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1224746007131 ATP binding site [chemical binding]; other site 1224746007132 active site 1224746007133 substrate binding site [chemical binding]; other site 1224746007134 adenylosuccinate lyase; Provisional; Region: PRK07492 1224746007135 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1224746007136 tetramer interface [polypeptide binding]; other site 1224746007137 active site 1224746007138 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1224746007139 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1224746007140 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746007141 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 1224746007142 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746007143 catalytic residue [active] 1224746007144 Competence-damaged protein; Region: CinA; pfam02464 1224746007145 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1224746007146 putative coenzyme Q binding site [chemical binding]; other site 1224746007147 lipoyl synthase; Provisional; Region: PRK05481 1224746007148 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 1224746007149 FeS/SAM binding site; other site 1224746007150 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1224746007151 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746007152 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1224746007153 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 1224746007154 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1224746007155 E3 interaction surface; other site 1224746007156 lipoyl attachment site [posttranslational modification]; other site 1224746007157 e3 binding domain; Region: E3_binding; pfam02817 1224746007158 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1224746007159 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1224746007160 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 1224746007161 E3 interaction surface; other site 1224746007162 lipoyl attachment site [posttranslational modification]; other site 1224746007163 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 1224746007164 alpha subunit interface [polypeptide binding]; other site 1224746007165 TPP binding site [chemical binding]; other site 1224746007166 heterodimer interface [polypeptide binding]; other site 1224746007167 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1224746007168 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1224746007169 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 1224746007170 tetramer interface [polypeptide binding]; other site 1224746007171 TPP-binding site [chemical binding]; other site 1224746007172 heterodimer interface [polypeptide binding]; other site 1224746007173 phosphorylation loop region [posttranslational modification] 1224746007174 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 1224746007175 active site 1224746007176 ribulose/triose binding site [chemical binding]; other site 1224746007177 phosphate binding site [ion binding]; other site 1224746007178 substrate (anthranilate) binding pocket [chemical binding]; other site 1224746007179 product (indole) binding pocket [chemical binding]; other site 1224746007180 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1224746007181 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1224746007182 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1224746007183 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1224746007184 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1224746007185 glutamine binding [chemical binding]; other site 1224746007186 catalytic triad [active] 1224746007187 anthranilate synthase component I; Provisional; Region: PRK13573 1224746007188 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1224746007189 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1224746007190 SurA N-terminal domain; Region: SurA_N_3; cl07813 1224746007191 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1224746007192 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1224746007193 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 1224746007194 dimer interface [polypeptide binding]; other site 1224746007195 substrate binding site [chemical binding]; other site 1224746007196 catalytic triad [active] 1224746007197 CTP synthetase; Validated; Region: pyrG; PRK05380 1224746007198 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 1224746007199 Catalytic site [active] 1224746007200 active site 1224746007201 UTP binding site [chemical binding]; other site 1224746007202 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1224746007203 active site 1224746007204 putative oxyanion hole; other site 1224746007205 catalytic triad [active] 1224746007206 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1224746007207 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1224746007208 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1224746007209 enolase; Provisional; Region: eno; PRK00077 1224746007210 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 1224746007211 dimer interface [polypeptide binding]; other site 1224746007212 metal binding site [ion binding]; metal-binding site 1224746007213 substrate binding pocket [chemical binding]; other site 1224746007214 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1224746007215 LexA repressor; Validated; Region: PRK00215 1224746007216 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1224746007217 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 1224746007218 Catalytic site [active] 1224746007219 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1224746007220 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1224746007221 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1224746007222 GIY-YIG motif/motif A; other site 1224746007223 active site 1224746007224 catalytic site [active] 1224746007225 putative DNA binding site [nucleotide binding]; other site 1224746007226 metal binding site [ion binding]; metal-binding site 1224746007227 UvrB/uvrC motif; Region: UVR; pfam02151 1224746007228 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1224746007229 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 1224746007230 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1224746007231 active site 1224746007232 dimer interface [polypeptide binding]; other site 1224746007233 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 1224746007234 putative catalytic site [active] 1224746007235 putative phosphate binding site [ion binding]; other site 1224746007236 active site 1224746007237 metal binding site A [ion binding]; metal-binding site 1224746007238 DNA binding site [nucleotide binding] 1224746007239 putative AP binding site [nucleotide binding]; other site 1224746007240 putative metal binding site B [ion binding]; other site 1224746007241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1224746007242 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 1224746007243 active site 1224746007244 phosphorylation site [posttranslational modification] 1224746007245 intermolecular recognition site; other site 1224746007246 dimerization interface [polypeptide binding]; other site 1224746007247 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 1224746007248 DNA binding site [nucleotide binding] 1224746007249 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1224746007250 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1224746007251 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1224746007252 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1224746007253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1224746007254 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 1224746007255 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 1224746007256 S-adenosylmethionine binding site [chemical binding]; other site 1224746007257 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1224746007258 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 1224746007259 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 1224746007260 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 1224746007261 active site 1224746007262 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1224746007263 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1224746007264 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1224746007265 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 1224746007266 S-adenosylmethionine binding site [chemical binding]; other site 1224746007267 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1224746007268 Na binding site [ion binding]; other site 1224746007269 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 1224746007270 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1224746007271 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 1224746007272 Active site cavity [active] 1224746007273 catalytic acid [active] 1224746007274 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1224746007275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746007276 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1224746007277 active site lid residues [active] 1224746007278 substrate binding pocket [chemical binding]; other site 1224746007279 catalytic residues [active] 1224746007280 substrate-Mg2+ binding site; other site 1224746007281 aspartate-rich region 1; other site 1224746007282 aspartate-rich region 2; other site 1224746007283 Cupin domain; Region: Cupin_2; pfam07883 1224746007284 putative aminotransferase; Provisional; Region: PRK09105 1224746007285 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 1224746007286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746007287 homodimer interface [polypeptide binding]; other site 1224746007288 catalytic residue [active] 1224746007289 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1224746007290 active site lid residues [active] 1224746007291 substrate binding pocket [chemical binding]; other site 1224746007292 catalytic residues [active] 1224746007293 substrate-Mg2+ binding site; other site 1224746007294 aspartate-rich region 1; other site 1224746007295 aspartate-rich region 2; other site 1224746007296 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 1224746007297 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1224746007298 active site 1224746007299 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1224746007300 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1224746007301 putative NADP binding site [chemical binding]; other site 1224746007302 putative substrate binding site [chemical binding]; other site 1224746007303 active site 1224746007304 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1224746007305 prephenate dehydrogenase; Validated; Region: PRK08507 1224746007306 Prephenate dehydrogenase; Region: PDH; pfam02153 1224746007307 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 1224746007308 pyruvate kinase; Provisional; Region: PRK06247 1224746007309 active site 1224746007310 domain interfaces; other site 1224746007311 Bacterial SH3 domain; Region: SH3_4; pfam06347 1224746007312 Bacterial SH3 domain; Region: SH3_4; pfam06347 1224746007313 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1224746007314 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1224746007315 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 1224746007316 ATP binding site [chemical binding]; other site 1224746007317 substrate interface [chemical binding]; other site 1224746007318 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 1224746007319 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1224746007320 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 1224746007321 active site 1224746007322 hydrophilic channel; other site 1224746007323 dimerization interface [polypeptide binding]; other site 1224746007324 catalytic residues [active] 1224746007325 active site lid [active] 1224746007326 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1224746007327 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1224746007328 hypothetical protein; Validated; Region: PRK09104 1224746007329 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1224746007330 metal binding site [ion binding]; metal-binding site 1224746007331 putative dimer interface [polypeptide binding]; other site 1224746007332 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1224746007333 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 1224746007334 active site 1224746007335 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1224746007336 Preprotein translocase subunit SecB; Region: SecB; pfam02556 1224746007337 SecA binding site; other site 1224746007338 Preprotein binding site; other site 1224746007339 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 1224746007340 active site 1224746007341 dimer interface [polypeptide binding]; other site 1224746007342 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 1224746007343 active site 1224746007344 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 1224746007345 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746007346 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1224746007347 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746007348 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746007349 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746007350 HTH-like domain; Region: HTH_21; pfam13276 1224746007351 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 1224746007352 DNA-binding site [nucleotide binding]; DNA binding site 1224746007353 RNA-binding motif; other site 1224746007354 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1224746007355 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1224746007356 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1224746007357 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1224746007358 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1224746007359 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1224746007360 active site 1224746007361 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1224746007362 Beta-lactamase; Region: Beta-lactamase; pfam00144 1224746007363 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 1224746007364 dimerization interface [polypeptide binding]; other site 1224746007365 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1224746007366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1224746007367 dimer interface [polypeptide binding]; other site 1224746007368 putative CheW interface [polypeptide binding]; other site 1224746007369 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1224746007370 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746007371 DNA-binding site [nucleotide binding]; DNA binding site 1224746007372 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1224746007373 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 1224746007374 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746007375 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1224746007376 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1224746007377 active site 1224746007378 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1224746007379 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 1224746007380 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 1224746007381 active site 1224746007382 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1224746007383 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1224746007384 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1224746007385 metal binding site [ion binding]; metal-binding site 1224746007386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746007387 active site 1224746007388 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1224746007389 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1224746007390 active site 1224746007391 substrate binding site [chemical binding]; other site 1224746007392 Mg2+ binding site [ion binding]; other site 1224746007393 metabolite-proton symporter; Region: 2A0106; TIGR00883 1224746007394 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1224746007395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746007396 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1224746007397 classical (c) SDRs; Region: SDR_c; cd05233 1224746007398 NAD(P) binding site [chemical binding]; other site 1224746007399 active site 1224746007400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1224746007401 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1224746007402 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1224746007403 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1224746007404 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1224746007405 putative active site [active] 1224746007406 putative substrate binding site [chemical binding]; other site 1224746007407 putative cosubstrate binding site; other site 1224746007408 catalytic site [active] 1224746007409 exonuclease subunit SbcD; Provisional; Region: PRK10966 1224746007410 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1224746007411 active site 1224746007412 metal binding site [ion binding]; metal-binding site 1224746007413 DNA binding site [nucleotide binding] 1224746007414 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1224746007415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746007416 AAA domain; Region: AAA_23; pfam13476 1224746007417 Walker A/P-loop; other site 1224746007418 ATP binding site [chemical binding]; other site 1224746007419 Q-loop/lid; other site 1224746007420 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1224746007421 ABC transporter signature motif; other site 1224746007422 Walker B; other site 1224746007423 D-loop; other site 1224746007424 H-loop/switch region; other site 1224746007425 Predicted methyltransferase [General function prediction only]; Region: COG4798 1224746007426 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1224746007427 Predicted metalloprotease [General function prediction only]; Region: COG2321 1224746007428 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1224746007429 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1224746007430 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746007431 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1224746007432 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1224746007433 cytochrome b; Provisional; Region: CYTB; MTH00145 1224746007434 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1224746007435 Qi binding site; other site 1224746007436 intrachain domain interface; other site 1224746007437 interchain domain interface [polypeptide binding]; other site 1224746007438 heme bH binding site [chemical binding]; other site 1224746007439 heme bL binding site [chemical binding]; other site 1224746007440 Qo binding site; other site 1224746007441 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1224746007442 interchain domain interface [polypeptide binding]; other site 1224746007443 intrachain domain interface; other site 1224746007444 Qi binding site; other site 1224746007445 Qo binding site; other site 1224746007446 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1224746007447 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1224746007448 [2Fe-2S] cluster binding site [ion binding]; other site 1224746007449 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1224746007450 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1224746007451 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1224746007452 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1224746007453 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1224746007454 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1224746007455 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1224746007456 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1224746007457 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 1224746007458 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1224746007459 dimerization interface [polypeptide binding]; other site 1224746007460 active site 1224746007461 L-aspartate oxidase; Provisional; Region: PRK07512 1224746007462 L-aspartate oxidase; Provisional; Region: PRK06175 1224746007463 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1224746007464 quinolinate synthetase; Provisional; Region: PRK09375 1224746007465 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1224746007466 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1224746007467 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1224746007468 putative NAD(P) binding site [chemical binding]; other site 1224746007469 putative substrate binding site [chemical binding]; other site 1224746007470 catalytic Zn binding site [ion binding]; other site 1224746007471 structural Zn binding site [ion binding]; other site 1224746007472 dimer interface [polypeptide binding]; other site 1224746007473 amidohydrolase; Provisional; Region: PRK12393 1224746007474 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1224746007475 active site 1224746007476 putative substrate binding pocket [chemical binding]; other site 1224746007477 NMT1/THI5 like; Region: NMT1; pfam09084 1224746007478 oxidase reductase; Provisional; Region: PTZ00273 1224746007479 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1224746007480 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1224746007481 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746007482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1224746007483 putative substrate translocation pore; other site 1224746007484 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1224746007485 Secretory lipase; Region: LIP; pfam03583 1224746007486 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; cl00246 1224746007487 FAD binding site [chemical binding]; other site 1224746007488 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 1224746007489 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1224746007490 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1224746007491 homodimer interface [polypeptide binding]; other site 1224746007492 NADP binding site [chemical binding]; other site 1224746007493 substrate binding site [chemical binding]; other site 1224746007494 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1224746007495 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1224746007496 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1224746007497 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1224746007498 Bacterial transcriptional regulator; Region: IclR; pfam01614 1224746007499 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1224746007500 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1224746007501 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1224746007502 homodimer interface [polypeptide binding]; other site 1224746007503 NADP binding site [chemical binding]; other site 1224746007504 substrate binding site [chemical binding]; other site 1224746007505 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1224746007506 FAD binding domain; Region: FAD_binding_4; pfam01565 1224746007507 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1224746007508 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 1224746007509 NMT1/THI5 like; Region: NMT1; pfam09084 1224746007510 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1224746007511 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1224746007512 Walker A/P-loop; other site 1224746007513 ATP binding site [chemical binding]; other site 1224746007514 Q-loop/lid; other site 1224746007515 ABC transporter signature motif; other site 1224746007516 Walker B; other site 1224746007517 D-loop; other site 1224746007518 H-loop/switch region; other site 1224746007519 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1224746007520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007521 putative PBP binding loops; other site 1224746007522 dimer interface [polypeptide binding]; other site 1224746007523 ABC-ATPase subunit interface; other site 1224746007524 cytosine deaminase-like protein; Validated; Region: PRK07583 1224746007525 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 1224746007526 active site 1224746007527 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 1224746007528 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1224746007529 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1224746007530 Isochorismatase family; Region: Isochorismatase; pfam00857 1224746007531 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 1224746007532 catalytic triad [active] 1224746007533 conserved cis-peptide bond; other site 1224746007534 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746007535 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 1224746007536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746007537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746007538 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 1224746007539 dimerization interface [polypeptide binding]; other site 1224746007540 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1224746007541 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1224746007542 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 1224746007543 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 1224746007544 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746007545 active site 1224746007546 catalytic tetrad [active] 1224746007547 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1224746007548 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1224746007549 N- and C-terminal domain interface [polypeptide binding]; other site 1224746007550 active site 1224746007551 MgATP binding site [chemical binding]; other site 1224746007552 catalytic site [active] 1224746007553 metal binding site [ion binding]; metal-binding site 1224746007554 carbohydrate binding site [chemical binding]; other site 1224746007555 putative homodimer interface [polypeptide binding]; other site 1224746007556 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1224746007557 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1224746007558 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007559 dimer interface [polypeptide binding]; other site 1224746007560 conserved gate region; other site 1224746007561 putative PBP binding loops; other site 1224746007562 ABC-ATPase subunit interface; other site 1224746007563 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1224746007564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007565 dimer interface [polypeptide binding]; other site 1224746007566 conserved gate region; other site 1224746007567 putative PBP binding loops; other site 1224746007568 ABC-ATPase subunit interface; other site 1224746007569 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1224746007570 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1224746007571 Walker A/P-loop; other site 1224746007572 ATP binding site [chemical binding]; other site 1224746007573 Q-loop/lid; other site 1224746007574 ABC transporter signature motif; other site 1224746007575 Walker B; other site 1224746007576 D-loop; other site 1224746007577 H-loop/switch region; other site 1224746007578 TOBE domain; Region: TOBE_2; pfam08402 1224746007579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746007580 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1224746007581 NAD(P) binding site [chemical binding]; other site 1224746007582 active site 1224746007583 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1224746007584 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1224746007585 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1224746007586 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1224746007587 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746007588 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 1224746007589 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1224746007590 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1224746007591 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1224746007592 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1224746007593 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 1224746007594 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1224746007595 active site 1224746007596 Zn binding site [ion binding]; other site 1224746007597 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1224746007598 hypothetical protein; Provisional; Region: PRK09256 1224746007599 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1224746007600 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1224746007601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746007602 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1224746007603 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1224746007604 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1224746007605 ethanolamine permease; Region: 2A0305; TIGR00908 1224746007606 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1224746007607 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1224746007608 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1224746007609 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1224746007610 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1224746007611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746007612 putative substrate translocation pore; other site 1224746007613 PhoD-like phosphatase; Region: PhoD; pfam09423 1224746007614 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1224746007615 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1224746007616 PhoD-like phosphatase; Region: PhoD; pfam09423 1224746007617 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1224746007618 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 1224746007619 DNA binding residues [nucleotide binding] 1224746007620 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1224746007621 Secretin and TonB N terminus short domain; Region: STN; smart00965 1224746007622 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746007623 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 1224746007624 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746007625 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 1224746007626 N-terminal plug; other site 1224746007627 ligand-binding site [chemical binding]; other site 1224746007628 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 1224746007629 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1224746007630 active site 1224746007631 non-prolyl cis peptide bond; other site 1224746007632 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1224746007633 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_6; cd08494 1224746007634 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1224746007635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007636 dimer interface [polypeptide binding]; other site 1224746007637 conserved gate region; other site 1224746007638 putative PBP binding loops; other site 1224746007639 ABC-ATPase subunit interface; other site 1224746007640 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1224746007641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007642 dimer interface [polypeptide binding]; other site 1224746007643 conserved gate region; other site 1224746007644 putative PBP binding loops; other site 1224746007645 ABC-ATPase subunit interface; other site 1224746007646 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1224746007647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746007648 Walker A/P-loop; other site 1224746007649 ATP binding site [chemical binding]; other site 1224746007650 Q-loop/lid; other site 1224746007651 ABC transporter signature motif; other site 1224746007652 Walker B; other site 1224746007653 D-loop; other site 1224746007654 H-loop/switch region; other site 1224746007655 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1224746007656 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1224746007657 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746007658 Walker A/P-loop; other site 1224746007659 ATP binding site [chemical binding]; other site 1224746007660 Q-loop/lid; other site 1224746007661 ABC transporter signature motif; other site 1224746007662 Walker B; other site 1224746007663 D-loop; other site 1224746007664 H-loop/switch region; other site 1224746007665 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1224746007666 putative active site pocket [active] 1224746007667 cleavage site 1224746007668 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746007669 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1224746007670 Serine hydrolase; Region: Ser_hydrolase; cl17834 1224746007671 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1224746007672 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1224746007673 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1224746007674 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1224746007675 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1224746007676 GntP family permease; Region: GntP_permease; pfam02447 1224746007677 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 1224746007678 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1224746007679 NADP binding site [chemical binding]; other site 1224746007680 homodimer interface [polypeptide binding]; other site 1224746007681 active site 1224746007682 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1224746007683 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 1224746007684 ABC-ATPase subunit interface; other site 1224746007685 dimer interface [polypeptide binding]; other site 1224746007686 putative PBP binding regions; other site 1224746007687 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1224746007688 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1224746007689 putative ligand binding residues [chemical binding]; other site 1224746007690 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 1224746007691 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1224746007692 Walker A/P-loop; other site 1224746007693 ATP binding site [chemical binding]; other site 1224746007694 Q-loop/lid; other site 1224746007695 ABC transporter signature motif; other site 1224746007696 Walker B; other site 1224746007697 D-loop; other site 1224746007698 H-loop/switch region; other site 1224746007699 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746007700 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 1224746007701 N-terminal plug; other site 1224746007702 ligand-binding site [chemical binding]; other site 1224746007703 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1224746007704 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 1224746007705 N-terminal plug; other site 1224746007706 ligand-binding site [chemical binding]; other site 1224746007707 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1224746007708 putative active site; other site 1224746007709 putative metal binding residues [ion binding]; other site 1224746007710 putative triphosphate binding site [ion binding]; other site 1224746007711 signature motif; other site 1224746007712 CHAD domain; Region: CHAD; pfam05235 1224746007713 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 1224746007714 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1224746007715 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1224746007716 Putative glucoamylase; Region: Glycoamylase; pfam10091 1224746007717 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1224746007718 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1224746007719 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1224746007720 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1224746007721 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1224746007722 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 1224746007723 active site 1224746007724 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 1224746007725 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1224746007726 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1224746007727 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1224746007728 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1224746007729 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 1224746007730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746007731 homodimer interface [polypeptide binding]; other site 1224746007732 catalytic residue [active] 1224746007733 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1224746007734 cobyric acid synthase; Provisional; Region: PRK00784 1224746007735 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 1224746007736 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1224746007737 catalytic triad [active] 1224746007738 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1224746007739 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1224746007740 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1224746007741 homodimer interface [polypeptide binding]; other site 1224746007742 Walker A motif; other site 1224746007743 ATP binding site [chemical binding]; other site 1224746007744 hydroxycobalamin binding site [chemical binding]; other site 1224746007745 Walker B motif; other site 1224746007746 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1224746007747 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1224746007748 catalytic triad [active] 1224746007749 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1224746007750 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1224746007751 active site 1224746007752 SAM binding site [chemical binding]; other site 1224746007753 homodimer interface [polypeptide binding]; other site 1224746007754 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1224746007755 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1224746007756 active site 1224746007757 putative homodimer interface [polypeptide binding]; other site 1224746007758 SAM binding site [chemical binding]; other site 1224746007759 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1224746007760 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 1224746007761 S-adenosylmethionine binding site [chemical binding]; other site 1224746007762 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1224746007763 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1224746007764 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1224746007765 active site 1224746007766 SAM binding site [chemical binding]; other site 1224746007767 homodimer interface [polypeptide binding]; other site 1224746007768 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1224746007769 active site 1224746007770 SAM binding site [chemical binding]; other site 1224746007771 homodimer interface [polypeptide binding]; other site 1224746007772 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1224746007773 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1224746007774 precorrin-3B synthase; Region: CobG; TIGR02435 1224746007775 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1224746007776 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1224746007777 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 1224746007778 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1224746007779 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1224746007780 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1224746007781 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1224746007782 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1224746007783 dimer interface [polypeptide binding]; other site 1224746007784 [2Fe-2S] cluster binding site [ion binding]; other site 1224746007785 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 1224746007786 homotrimer interface [polypeptide binding]; other site 1224746007787 Walker A motif; other site 1224746007788 GTP binding site [chemical binding]; other site 1224746007789 Walker B motif; other site 1224746007790 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1224746007791 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1224746007792 putative dimer interface [polypeptide binding]; other site 1224746007793 active site pocket [active] 1224746007794 putative cataytic base [active] 1224746007795 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1224746007796 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 1224746007797 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 1224746007798 FMN binding site [chemical binding]; other site 1224746007799 dimer interface [polypeptide binding]; other site 1224746007800 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 1224746007801 catalytic core [active] 1224746007802 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1224746007803 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1224746007804 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1224746007805 PA/protease or protease-like domain interface [polypeptide binding]; other site 1224746007806 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1224746007807 metal binding site [ion binding]; metal-binding site 1224746007808 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1224746007809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746007810 NAD(P) binding site [chemical binding]; other site 1224746007811 active site 1224746007812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746007813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746007814 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 1224746007815 dimerization interface [polypeptide binding]; other site 1224746007816 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1224746007817 Sodium Bile acid symporter family; Region: SBF; pfam01758 1224746007818 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1224746007819 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1224746007820 Zn binding site [ion binding]; other site 1224746007821 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1224746007822 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1224746007823 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1224746007824 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1224746007825 TM-ABC transporter signature motif; other site 1224746007826 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1224746007827 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1224746007828 TM-ABC transporter signature motif; other site 1224746007829 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1224746007830 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1224746007831 Walker A/P-loop; other site 1224746007832 ATP binding site [chemical binding]; other site 1224746007833 Q-loop/lid; other site 1224746007834 ABC transporter signature motif; other site 1224746007835 Walker B; other site 1224746007836 D-loop; other site 1224746007837 H-loop/switch region; other site 1224746007838 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1224746007839 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1224746007840 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1224746007841 putative ligand binding site [chemical binding]; other site 1224746007842 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1224746007843 N-terminal domain interface [polypeptide binding]; other site 1224746007844 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 1224746007845 iron-sulfur cluster [ion binding]; other site 1224746007846 [2Fe-2S] cluster binding site [ion binding]; other site 1224746007847 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1224746007848 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1224746007849 hydrophobic ligand binding site; other site 1224746007850 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 1224746007851 guanine deaminase; Region: guan_deamin; TIGR02967 1224746007852 active site 1224746007853 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 1224746007854 nucleoside/Zn binding site; other site 1224746007855 dimer interface [polypeptide binding]; other site 1224746007856 catalytic motif [active] 1224746007857 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1224746007858 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1224746007859 active site 1224746007860 putative substrate binding pocket [chemical binding]; other site 1224746007861 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1224746007862 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1224746007863 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1224746007864 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1224746007865 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746007866 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 1224746007867 N-terminal plug; other site 1224746007868 ligand-binding site [chemical binding]; other site 1224746007869 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1224746007870 FAD dependent oxidoreductase; Region: DAO; pfam01266 1224746007871 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1224746007872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746007873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746007874 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746007875 putative membrane fusion protein; Region: TIGR02828 1224746007876 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1224746007877 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 1224746007878 putative homodimer interface [polypeptide binding]; other site 1224746007879 putative homotetramer interface [polypeptide binding]; other site 1224746007880 putative metal binding site [ion binding]; other site 1224746007881 putative homodimer-homodimer interface [polypeptide binding]; other site 1224746007882 putative allosteric switch controlling residues; other site 1224746007883 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 1224746007884 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 1224746007885 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746007886 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 1224746007887 N-terminal plug; other site 1224746007888 ligand-binding site [chemical binding]; other site 1224746007889 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1224746007890 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 1224746007891 dimer interface [polypeptide binding]; other site 1224746007892 active site 1224746007893 non-prolyl cis peptide bond; other site 1224746007894 insertion regions; other site 1224746007895 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 1224746007896 putative FMN binding site [chemical binding]; other site 1224746007897 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1224746007898 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1224746007899 Walker A/P-loop; other site 1224746007900 ATP binding site [chemical binding]; other site 1224746007901 Q-loop/lid; other site 1224746007902 ABC transporter signature motif; other site 1224746007903 Walker B; other site 1224746007904 D-loop; other site 1224746007905 H-loop/switch region; other site 1224746007906 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1224746007907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007908 dimer interface [polypeptide binding]; other site 1224746007909 conserved gate region; other site 1224746007910 putative PBP binding loops; other site 1224746007911 ABC-ATPase subunit interface; other site 1224746007912 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1224746007913 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 1224746007914 membrane-bound complex binding site; other site 1224746007915 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1224746007916 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1224746007917 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1224746007918 active site 1224746007919 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 1224746007920 active site residue [active] 1224746007921 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 1224746007922 active site residue [active] 1224746007923 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 1224746007924 active site residue [active] 1224746007925 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 1224746007926 active site residue [active] 1224746007927 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1224746007928 hypothetical protein; Provisional; Region: PRK06208 1224746007929 intersubunit interface [polypeptide binding]; other site 1224746007930 active site 1224746007931 Zn2+ binding site [ion binding]; other site 1224746007932 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1224746007933 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1224746007934 NAD binding site [chemical binding]; other site 1224746007935 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 1224746007936 active site 1224746007937 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1224746007938 dimer interface [polypeptide binding]; other site 1224746007939 non-prolyl cis peptide bond; other site 1224746007940 insertion regions; other site 1224746007941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746007942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746007943 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 1224746007944 dimerization interface [polypeptide binding]; other site 1224746007945 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 1224746007946 putative catalytic residues [active] 1224746007947 Flavin Reductases; Region: FlaRed; cl00801 1224746007948 NMT1-like family; Region: NMT1_2; pfam13379 1224746007949 NMT1/THI5 like; Region: NMT1; pfam09084 1224746007950 substrate binding pocket [chemical binding]; other site 1224746007951 membrane-bound complex binding site; other site 1224746007952 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1224746007953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746007954 dimer interface [polypeptide binding]; other site 1224746007955 conserved gate region; other site 1224746007956 putative PBP binding loops; other site 1224746007957 ABC-ATPase subunit interface; other site 1224746007958 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1224746007959 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1224746007960 Walker A/P-loop; other site 1224746007961 ATP binding site [chemical binding]; other site 1224746007962 Q-loop/lid; other site 1224746007963 ABC transporter signature motif; other site 1224746007964 Walker B; other site 1224746007965 D-loop; other site 1224746007966 H-loop/switch region; other site 1224746007967 Predicted acyl esterases [General function prediction only]; Region: COG2936 1224746007968 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1224746007969 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1224746007970 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746007971 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 1224746007972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746007973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746007974 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 1224746007975 dimerization interface [polypeptide binding]; other site 1224746007976 Beta-lactamase; Region: Beta-lactamase; pfam00144 1224746007977 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1224746007978 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1224746007979 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1224746007980 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746007981 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1224746007982 Beta-lactamase; Region: Beta-lactamase; pfam00144 1224746007983 dihydroxyacetone kinase; Provisional; Region: PRK14479 1224746007984 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1224746007985 DAK2 domain; Region: Dak2; pfam02734 1224746007986 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1224746007987 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 1224746007988 TM-ABC transporter signature motif; other site 1224746007989 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1224746007990 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1224746007991 Walker A/P-loop; other site 1224746007992 ATP binding site [chemical binding]; other site 1224746007993 Q-loop/lid; other site 1224746007994 ABC transporter signature motif; other site 1224746007995 Walker B; other site 1224746007996 D-loop; other site 1224746007997 H-loop/switch region; other site 1224746007998 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1224746007999 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 1224746008000 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1224746008001 ligand binding site [chemical binding]; other site 1224746008002 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1224746008003 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1224746008004 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1224746008005 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1224746008006 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 1224746008007 substrate binding site [chemical binding]; other site 1224746008008 dimer interface [polypeptide binding]; other site 1224746008009 triosephosphate isomerase; Provisional; Region: PRK14565 1224746008010 catalytic triad [active] 1224746008011 Integrase core domain; Region: rve_2; pfam13333 1224746008012 Integrase core domain; Region: rve; pfam00665 1224746008013 transcriptional regulator MalT; Provisional; Region: PRK04841 1224746008014 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008015 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 1224746008016 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746008017 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1224746008018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008019 putative substrate translocation pore; other site 1224746008020 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1224746008021 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1224746008022 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1224746008023 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1224746008024 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1224746008025 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1224746008026 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 1224746008027 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1224746008028 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1224746008029 [4Fe-4S] binding site [ion binding]; other site 1224746008030 molybdopterin cofactor binding site; other site 1224746008031 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1224746008032 molybdopterin cofactor binding site; other site 1224746008033 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1224746008034 Flavodoxin; Region: Flavodoxin_1; pfam00258 1224746008035 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 1224746008036 FAD binding pocket [chemical binding]; other site 1224746008037 FAD binding motif [chemical binding]; other site 1224746008038 catalytic residues [active] 1224746008039 NAD binding pocket [chemical binding]; other site 1224746008040 phosphate binding motif [ion binding]; other site 1224746008041 beta-alpha-beta structure motif; other site 1224746008042 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1224746008043 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 1224746008044 active site 1224746008045 phosphorylation site [posttranslational modification] 1224746008046 intermolecular recognition site; other site 1224746008047 ANTAR domain; Region: ANTAR; pfam03861 1224746008048 NMT1-like family; Region: NMT1_2; pfam13379 1224746008049 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1224746008050 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 1224746008051 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008052 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008053 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 1224746008054 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1224746008055 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1224746008056 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008057 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1224746008058 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 1224746008059 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746008060 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746008061 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746008062 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 1224746008063 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008064 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008065 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008066 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1224746008067 TLC ATP/ADP transporter; Region: TLC; cl03940 1224746008068 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1224746008069 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1224746008070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008071 putative substrate translocation pore; other site 1224746008072 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1224746008073 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1224746008074 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1224746008075 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746008076 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1224746008077 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1224746008078 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1224746008079 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1224746008080 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1224746008081 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746008082 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1224746008083 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008084 putative substrate translocation pore; other site 1224746008085 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1224746008086 Helix-turn-helix domain; Region: HTH_18; pfam12833 1224746008087 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008088 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1224746008089 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 1224746008090 inhibitor binding site; inhibition site 1224746008091 catalytic Zn binding site [ion binding]; other site 1224746008092 structural Zn binding site [ion binding]; other site 1224746008093 NADP binding site [chemical binding]; other site 1224746008094 tetramer interface [polypeptide binding]; other site 1224746008095 polyol permease family; Region: 2A0118; TIGR00897 1224746008096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008097 putative substrate translocation pore; other site 1224746008098 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008099 short chain dehydrogenase; Provisional; Region: PRK06523 1224746008100 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1224746008101 putative NAD(P) binding site [chemical binding]; other site 1224746008102 putative active site [active] 1224746008103 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1224746008104 Helix-turn-helix domain; Region: HTH_18; pfam12833 1224746008105 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 1224746008106 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1224746008107 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1224746008108 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1224746008109 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1224746008110 Major royal jelly protein; Region: MRJP; pfam03022 1224746008111 Hint domain; Region: Hint_2; pfam13403 1224746008112 putative phosphoketolase; Provisional; Region: PRK05261 1224746008113 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1224746008114 TPP-binding site; other site 1224746008115 XFP C-terminal domain; Region: XFP_C; pfam09363 1224746008116 Acetokinase family; Region: Acetate_kinase; cl17229 1224746008117 propionate/acetate kinase; Provisional; Region: PRK12379 1224746008118 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1224746008119 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 1224746008120 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 1224746008121 active site 1224746008122 benzoate transport; Region: 2A0115; TIGR00895 1224746008123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008124 putative substrate translocation pore; other site 1224746008125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746008127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746008128 GAF domain; Region: GAF; cl17456 1224746008129 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008130 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 1224746008131 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008132 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008133 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008134 Integrase core domain; Region: rve_3; pfam13683 1224746008135 Integrase core domain; Region: rve; pfam00665 1224746008136 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1224746008137 putative active site [active] 1224746008138 MarR family; Region: MarR_2; cl17246 1224746008139 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1224746008140 carboxyltransferase (CT) interaction site; other site 1224746008141 biotinylation site [posttranslational modification]; other site 1224746008142 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1224746008143 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1224746008144 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1224746008145 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1224746008146 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1224746008147 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1224746008148 carboxyltransferase (CT) interaction site; other site 1224746008149 biotinylation site [posttranslational modification]; other site 1224746008150 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1224746008151 putative active site [active] 1224746008152 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1224746008153 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1224746008154 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1224746008155 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008156 D-galactonate transporter; Region: 2A0114; TIGR00893 1224746008157 putative substrate translocation pore; other site 1224746008158 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008159 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 1224746008160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008162 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 1224746008163 dimerization interface [polypeptide binding]; other site 1224746008164 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1224746008165 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1224746008166 ligand binding site [chemical binding]; other site 1224746008167 NAD binding site [chemical binding]; other site 1224746008168 dimerization interface [polypeptide binding]; other site 1224746008169 catalytic site [active] 1224746008170 Integrase core domain; Region: rve; pfam00665 1224746008171 Integrase core domain; Region: rve_3; cl15866 1224746008172 MarR family; Region: MarR_2; cl17246 1224746008173 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1224746008174 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1224746008175 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746008176 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746008177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008178 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1224746008179 putative substrate translocation pore; other site 1224746008180 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746008181 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746008182 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 1224746008183 active site 1224746008184 phosphorylation site [posttranslational modification] 1224746008185 intermolecular recognition site; other site 1224746008186 dimerization interface [polypeptide binding]; other site 1224746008187 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 1224746008188 DNA binding site [nucleotide binding] 1224746008189 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 1224746008190 dimerization interface [polypeptide binding]; other site 1224746008191 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 1224746008192 dimer interface [polypeptide binding]; other site 1224746008193 phosphorylation site [posttranslational modification] 1224746008194 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 1224746008195 ATP binding site [chemical binding]; other site 1224746008196 Mg2+ binding site [ion binding]; other site 1224746008197 G-X-G motif; other site 1224746008198 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1224746008199 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1224746008200 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1224746008201 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1224746008202 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1224746008203 Trp docking motif [polypeptide binding]; other site 1224746008204 putative active site [active] 1224746008205 Integrase core domain; Region: rve_3; cl15866 1224746008206 Integrase core domain; Region: rve; pfam00665 1224746008207 transcriptional regulator MalT; Provisional; Region: PRK04841 1224746008208 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1224746008209 MFS/sugar transport protein; Region: MFS_2; pfam13347 1224746008210 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1224746008211 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1224746008212 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1224746008213 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 1224746008214 Carboxylesterase family; Region: COesterase; pfam00135 1224746008215 substrate binding pocket [chemical binding]; other site 1224746008216 catalytic triad [active] 1224746008217 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008218 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 1224746008219 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1224746008220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1224746008221 DNA binding site [nucleotide binding] 1224746008222 domain linker motif; other site 1224746008223 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1224746008224 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1224746008225 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 1224746008226 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 1224746008227 acyl-CoA synthetase; Validated; Region: PRK09192 1224746008228 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1224746008229 acyl-activating enzyme (AAE) consensus motif; other site 1224746008230 active site 1224746008231 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1224746008232 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1224746008233 active site 1224746008234 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1224746008235 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1224746008236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008237 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1224746008238 Enoylreductase; Region: PKS_ER; smart00829 1224746008239 NAD(P) binding site [chemical binding]; other site 1224746008240 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 1224746008241 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1224746008242 putative NADP binding site [chemical binding]; other site 1224746008243 active site 1224746008244 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1224746008245 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1224746008246 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1224746008247 active site 1224746008248 CoA binding site [chemical binding]; other site 1224746008249 AMP binding site [chemical binding]; other site 1224746008250 hypothetical protein; Provisional; Region: PRK09945 1224746008251 Hint domain; Region: Hint_2; pfam13403 1224746008252 Hint domain; Region: Hint_2; pfam13403 1224746008253 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1224746008254 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 1224746008255 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1224746008256 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1224746008257 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1224746008258 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 1224746008259 dimer interface [polypeptide binding]; other site 1224746008260 phosphorylation site [posttranslational modification] 1224746008261 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 1224746008262 ATP binding site [chemical binding]; other site 1224746008263 Mg2+ binding site [ion binding]; other site 1224746008264 G-X-G motif; other site 1224746008265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008266 Walker A/P-loop; other site 1224746008267 ATP binding site [chemical binding]; other site 1224746008268 Q-loop/lid; other site 1224746008269 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1224746008270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008271 ABC transporter signature motif; other site 1224746008272 Walker B; other site 1224746008273 D-loop; other site 1224746008274 H-loop/switch region; other site 1224746008275 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008276 Walker A/P-loop; other site 1224746008277 ATP binding site [chemical binding]; other site 1224746008278 Q-loop/lid; other site 1224746008279 ABC transporter signature motif; other site 1224746008280 Walker B; other site 1224746008281 D-loop; other site 1224746008282 H-loop/switch region; other site 1224746008283 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008284 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 1224746008285 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 1224746008286 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1224746008287 substrate binding pocket [chemical binding]; other site 1224746008288 membrane-bound complex binding site; other site 1224746008289 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1224746008290 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1224746008291 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1224746008292 Ferredoxin [Energy production and conversion]; Region: COG1146 1224746008293 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1224746008294 potential frameshift: common BLAST hit: gi|182679607|ref|YP_001833753.1| alkanesulfonate monooxygenase 1224746008295 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; cl00246 1224746008296 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 1224746008297 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 1224746008298 dimer interface [polypeptide binding]; other site 1224746008299 active site 1224746008300 non-prolyl cis peptide bond; other site 1224746008301 insertion regions; other site 1224746008302 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1224746008303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008304 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 1224746008305 dimerization interface [polypeptide binding]; other site 1224746008306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008307 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1224746008308 potential frameshift: common BLAST hit: gi|384412474|ref|YP_005621839.1| transposase 1224746008309 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008310 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1224746008311 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008312 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008313 Winged helix-turn helix; Region: HTH_29; pfam13551 1224746008314 Helix-turn-helix domain; Region: HTH_28; pfam13518 1224746008315 Integrase core domain; Region: rve; pfam00665 1224746008316 Integrase core domain; Region: rve_3; cl15866 1224746008317 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1224746008318 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1224746008319 putative catalytic residue [active] 1224746008320 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008321 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 1224746008322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008324 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 1224746008325 dimerization interface [polypeptide binding]; other site 1224746008326 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1224746008327 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1224746008328 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1224746008329 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1224746008330 active site 1224746008331 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1224746008332 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1224746008333 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1224746008334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008335 Walker A/P-loop; other site 1224746008336 ATP binding site [chemical binding]; other site 1224746008337 Q-loop/lid; other site 1224746008338 ABC transporter signature motif; other site 1224746008339 Walker B; other site 1224746008340 D-loop; other site 1224746008341 H-loop/switch region; other site 1224746008342 TOBE domain; Region: TOBE_2; pfam08402 1224746008343 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1224746008344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008345 dimer interface [polypeptide binding]; other site 1224746008346 conserved gate region; other site 1224746008347 putative PBP binding loops; other site 1224746008348 ABC-ATPase subunit interface; other site 1224746008349 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1224746008350 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008351 dimer interface [polypeptide binding]; other site 1224746008352 conserved gate region; other site 1224746008353 putative PBP binding loops; other site 1224746008354 ABC-ATPase subunit interface; other site 1224746008355 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1224746008356 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 1224746008357 substrate binding pocket [chemical binding]; other site 1224746008358 catalytic triad [active] 1224746008359 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008360 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008361 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008362 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1224746008363 active site 1224746008364 catalytic site [active] 1224746008365 substrate binding site [chemical binding]; other site 1224746008366 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746008367 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008368 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1224746008369 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1224746008370 urea carboxylase; Region: urea_carbox; TIGR02712 1224746008371 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1224746008372 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1224746008373 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1224746008374 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1224746008375 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1224746008376 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1224746008377 carboxyltransferase (CT) interaction site; other site 1224746008378 biotinylation site [posttranslational modification]; other site 1224746008379 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 1224746008380 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 1224746008381 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1224746008382 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1224746008383 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1224746008384 allophanate hydrolase; Provisional; Region: PRK08186 1224746008385 Amidase; Region: Amidase; cl11426 1224746008386 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746008387 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 1224746008388 active site 1224746008389 phosphorylation site [posttranslational modification] 1224746008390 intermolecular recognition site; other site 1224746008391 dimerization interface [polypeptide binding]; other site 1224746008392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1224746008393 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 1224746008394 DNA binding residues [nucleotide binding] 1224746008395 dimerization interface [polypeptide binding]; other site 1224746008396 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 1224746008397 binding surface 1224746008398 TPR motif; other site 1224746008399 TPR repeat; Region: TPR_11; pfam13414 1224746008400 TPR repeat; Region: TPR_11; pfam13414 1224746008401 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 1224746008402 TPR motif; other site 1224746008403 binding surface 1224746008404 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1224746008405 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 1224746008406 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1224746008407 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746008408 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1224746008409 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1224746008410 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1224746008411 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008412 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 1224746008413 N-terminal plug; other site 1224746008414 ligand-binding site [chemical binding]; other site 1224746008415 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1224746008416 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746008417 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008418 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008419 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008420 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008421 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1224746008422 active site 1224746008423 metal binding site [ion binding]; metal-binding site 1224746008424 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1224746008425 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1224746008426 active site 1224746008427 DNA binding site [nucleotide binding] 1224746008428 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1224746008429 DNA binding site [nucleotide binding] 1224746008430 Winged helix-turn helix; Region: HTH_29; pfam13551 1224746008431 Helix-turn-helix domain; Region: HTH_28; pfam13518 1224746008432 Integrase core domain; Region: rve; pfam00665 1224746008433 Integrase core domain; Region: rve_3; cl15866 1224746008434 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1224746008435 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746008436 Walker A/P-loop; other site 1224746008437 ATP binding site [chemical binding]; other site 1224746008438 Q-loop/lid; other site 1224746008439 ABC transporter signature motif; other site 1224746008440 Walker B; other site 1224746008441 D-loop; other site 1224746008442 H-loop/switch region; other site 1224746008443 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1224746008444 Walker A/P-loop; other site 1224746008445 ATP binding site [chemical binding]; other site 1224746008446 Q-loop/lid; other site 1224746008447 ABC transporter signature motif; other site 1224746008448 Walker B; other site 1224746008449 D-loop; other site 1224746008450 H-loop/switch region; other site 1224746008451 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1224746008452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008453 dimer interface [polypeptide binding]; other site 1224746008454 ABC-ATPase subunit interface; other site 1224746008455 putative PBP binding loops; other site 1224746008456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1224746008457 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1224746008458 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 1224746008459 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1224746008460 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008461 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 1224746008462 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1224746008463 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1224746008464 active site 1224746008465 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1224746008466 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 1224746008467 active site 1224746008468 non-prolyl cis peptide bond; other site 1224746008469 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1224746008470 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 1224746008471 active site 1224746008472 dimer interface [polypeptide binding]; other site 1224746008473 non-prolyl cis peptide bond; other site 1224746008474 insertion regions; other site 1224746008475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1224746008476 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1224746008477 benzoate transport; Region: 2A0115; TIGR00895 1224746008478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008479 putative substrate translocation pore; other site 1224746008480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008481 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1224746008482 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 1224746008483 active site 1224746008484 non-prolyl cis peptide bond; other site 1224746008485 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1224746008486 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 1224746008487 substrate binding pocket [chemical binding]; other site 1224746008488 membrane-bound complex binding site; other site 1224746008489 hinge residues; other site 1224746008490 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008491 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 1224746008492 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008493 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008494 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008495 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008496 Sulfatase; Region: Sulfatase; pfam00884 1224746008497 Sulfatase; Region: Sulfatase; cl17466 1224746008498 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008499 Sulfatase; Region: Sulfatase; pfam00884 1224746008500 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008501 Sulfatase; Region: Sulfatase; pfam00884 1224746008502 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1224746008503 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008504 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 1224746008505 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008506 Sulfatase; Region: Sulfatase; pfam00884 1224746008507 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008508 Sulfatase; Region: Sulfatase; pfam00884 1224746008509 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 1224746008510 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008511 Sulfatase; Region: Sulfatase; pfam00884 1224746008512 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008513 Sulfatase; Region: Sulfatase; pfam00884 1224746008514 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1224746008515 Sulfatase; Region: Sulfatase; cl17466 1224746008516 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1224746008517 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1224746008518 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1224746008519 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1224746008520 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1224746008521 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008522 dimer interface [polypeptide binding]; other site 1224746008523 conserved gate region; other site 1224746008524 putative PBP binding loops; other site 1224746008525 ABC-ATPase subunit interface; other site 1224746008526 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1224746008527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008528 dimer interface [polypeptide binding]; other site 1224746008529 conserved gate region; other site 1224746008530 putative PBP binding loops; other site 1224746008531 ABC-ATPase subunit interface; other site 1224746008532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008533 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1224746008534 Walker A/P-loop; other site 1224746008535 ATP binding site [chemical binding]; other site 1224746008536 Q-loop/lid; other site 1224746008537 ABC transporter signature motif; other site 1224746008538 Walker B; other site 1224746008539 D-loop; other site 1224746008540 H-loop/switch region; other site 1224746008541 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008542 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1224746008543 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008544 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746008545 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1224746008546 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1224746008547 acyl-activating enzyme (AAE) consensus motif; other site 1224746008548 AMP binding site [chemical binding]; other site 1224746008549 active site 1224746008550 CoA binding site [chemical binding]; other site 1224746008551 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1224746008552 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1224746008553 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 1224746008554 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 1224746008555 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 1224746008556 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 1224746008557 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 1224746008558 dimerization interface [polypeptide binding]; other site 1224746008559 putative ATP binding site [chemical binding]; other site 1224746008560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1224746008561 Coenzyme A binding pocket [chemical binding]; other site 1224746008562 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 1224746008563 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 1224746008564 FeS/SAM binding site; other site 1224746008565 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1224746008566 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1224746008567 putative active site [active] 1224746008568 catalytic triad [active] 1224746008569 putative dimer interface [polypeptide binding]; other site 1224746008570 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 1224746008571 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 1224746008572 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 1224746008573 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746008574 DNA-binding site [nucleotide binding]; DNA binding site 1224746008575 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 1224746008576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746008577 homodimer interface [polypeptide binding]; other site 1224746008578 catalytic residue [active] 1224746008579 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1224746008580 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 1224746008581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746008582 DNA-binding site [nucleotide binding]; DNA binding site 1224746008583 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 1224746008584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746008585 homodimer interface [polypeptide binding]; other site 1224746008586 catalytic residue [active] 1224746008587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1224746008588 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746008589 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1224746008590 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008591 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008592 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008593 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 1224746008594 non-specific DNA binding site [nucleotide binding]; other site 1224746008595 salt bridge; other site 1224746008596 sequence-specific DNA binding site [nucleotide binding]; other site 1224746008597 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1224746008598 DDE superfamily endonuclease; Region: DDE_5; pfam13546 1224746008599 DDE superfamily endonuclease; Region: DDE_5; cl17874 1224746008600 Cupin; Region: Cupin_6; pfam12852 1224746008601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008602 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1224746008603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008604 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1224746008605 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008606 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008607 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008608 dimer interface [polypeptide binding]; other site 1224746008609 conserved gate region; other site 1224746008610 ABC-ATPase subunit interface; other site 1224746008611 NIL domain; Region: NIL; pfam09383 1224746008612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008613 Walker A/P-loop; other site 1224746008614 ATP binding site [chemical binding]; other site 1224746008615 Q-loop/lid; other site 1224746008616 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008617 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 1224746008618 N-terminal plug; other site 1224746008619 ligand-binding site [chemical binding]; other site 1224746008620 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1224746008621 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1224746008622 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1224746008623 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1224746008624 potential frameshift: common BLAST hit: gi|384412367|ref|YP_005621732.1| transposase 1224746008625 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008626 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1224746008627 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746008628 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 1224746008629 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1224746008630 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1224746008631 Walker A/P-loop; other site 1224746008632 ATP binding site [chemical binding]; other site 1224746008633 Q-loop/lid; other site 1224746008634 ABC transporter signature motif; other site 1224746008635 Walker B; other site 1224746008636 D-loop; other site 1224746008637 H-loop/switch region; other site 1224746008638 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1224746008639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746008640 dimer interface [polypeptide binding]; other site 1224746008641 conserved gate region; other site 1224746008642 putative PBP binding loops; other site 1224746008643 ABC-ATPase subunit interface; other site 1224746008644 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1224746008645 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 1224746008646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1224746008647 active site 1224746008648 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1224746008649 active site 1224746008650 NTP binding site [chemical binding]; other site 1224746008651 metal binding triad [ion binding]; metal-binding site 1224746008652 antibiotic binding site [chemical binding]; other site 1224746008653 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1224746008654 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746008655 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1224746008656 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008657 Integrase core domain; Region: rve; pfam00665 1224746008658 Integrase core domain; Region: rve_3; pfam13683 1224746008659 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1224746008660 active site 1224746008661 metal binding site [ion binding]; metal-binding site 1224746008662 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1224746008663 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 1224746008664 active site 1224746008665 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1224746008666 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1224746008667 putative active site [active] 1224746008668 catalytic triad [active] 1224746008669 putative dimer interface [polypeptide binding]; other site 1224746008670 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008671 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008672 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 1224746008673 putative substrate binding pocket [chemical binding]; other site 1224746008674 putative dimerization interface [polypeptide binding]; other site 1224746008675 potential frameshift: common BLAST hit: gi|310823352|ref|YP_003955710.1| short-chain dehydrogenase 1224746008676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008677 active site 1224746008678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008679 NAD(P) binding site [chemical binding]; other site 1224746008680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008681 NAD(P) binding site [chemical binding]; other site 1224746008682 active site 1224746008683 Cupin; Region: Cupin_6; pfam12852 1224746008684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008685 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1224746008686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008689 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 1224746008690 putative effector binding pocket; other site 1224746008691 putative dimerization interface [polypeptide binding]; other site 1224746008692 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 1224746008693 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746008694 active site 1224746008695 catalytic tetrad [active] 1224746008696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746008697 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746008698 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746008699 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1224746008700 putative active site [active] 1224746008701 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1224746008702 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 1224746008703 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746008704 salt bridge; other site 1224746008705 non-specific DNA binding site [nucleotide binding]; other site 1224746008706 sequence-specific DNA binding site [nucleotide binding]; other site 1224746008707 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1224746008708 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 1224746008709 S-adenosylmethionine binding site [chemical binding]; other site 1224746008710 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 1224746008711 putative deacylase active site [active] 1224746008712 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1224746008713 N-terminal domain interface [polypeptide binding]; other site 1224746008714 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1224746008715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008717 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 1224746008718 dimerization interface [polypeptide binding]; other site 1224746008719 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 1224746008720 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1224746008721 putative NAD(P) binding site [chemical binding]; other site 1224746008722 substrate binding site [chemical binding]; other site 1224746008723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008725 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 1224746008726 dimerization interface [polypeptide binding]; other site 1224746008727 potential frameshift: common BLAST hit: gi|209544464|ref|YP_002276693.1| NAD-dependent epimerase/dehydratase 1224746008728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008730 active site 1224746008731 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 1224746008732 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746008733 active site 1224746008734 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1224746008735 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1224746008736 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1224746008737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008739 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 1224746008740 putative effector binding pocket; other site 1224746008741 dimerization interface [polypeptide binding]; other site 1224746008742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746008743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746008744 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746008745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008746 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1224746008747 putative substrate translocation pore; other site 1224746008748 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1224746008749 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1224746008750 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 1224746008751 DNA binding residues [nucleotide binding] 1224746008752 putative dimer interface [polypeptide binding]; other site 1224746008753 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1224746008754 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1224746008755 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1224746008756 Predicted transcriptional regulator [Transcription]; Region: COG3655 1224746008757 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1224746008758 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1224746008759 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746008760 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1224746008761 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1224746008762 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746008763 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746008764 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1224746008765 GST_N family, unknown subfamily 4; 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_4; cd03056 1224746008766 putative C-terminal domain interface [polypeptide binding]; other site 1224746008767 putative GSH binding site (G-site) [chemical binding]; other site 1224746008768 putative dimer interface [polypeptide binding]; other site 1224746008769 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1224746008770 putative N-terminal domain interface [polypeptide binding]; other site 1224746008771 putative dimer interface [polypeptide binding]; other site 1224746008772 putative substrate binding pocket (H-site) [chemical binding]; other site 1224746008773 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 1224746008774 dimerization interface [polypeptide binding]; other site 1224746008775 substrate binding pocket [chemical binding]; other site 1224746008776 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 1224746008777 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1224746008778 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1224746008779 VirB7 interaction site; other site 1224746008780 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1224746008781 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1224746008782 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1224746008783 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 1224746008784 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1224746008785 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1224746008786 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1224746008787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008788 Walker A/P-loop; other site 1224746008789 ATP binding site [chemical binding]; other site 1224746008790 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1224746008791 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1224746008792 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1224746008793 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1224746008794 ATP binding site [chemical binding]; other site 1224746008795 Walker A motif; other site 1224746008796 hexamer interface [polypeptide binding]; other site 1224746008797 Walker B motif; other site 1224746008798 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1224746008799 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1224746008800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008801 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 1224746008802 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1224746008803 active site 1224746008804 catalytic tetrad [active] 1224746008805 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1224746008806 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1224746008807 Walker A motif; other site 1224746008808 ATP binding site [chemical binding]; other site 1224746008809 Walker B motif; other site 1224746008810 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 1224746008811 CcdB protein; Region: CcdB; cl03380 1224746008812 putative transporter; Provisional; Region: PRK12382 1224746008813 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008814 putative substrate translocation pore; other site 1224746008815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746008816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008817 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 1224746008818 dimerization interface [polypeptide binding]; other site 1224746008819 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1224746008820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1224746008821 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1224746008822 active site 1224746008823 NTP binding site [chemical binding]; other site 1224746008824 metal binding triad [ion binding]; metal-binding site 1224746008825 antibiotic binding site [chemical binding]; other site 1224746008826 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1224746008827 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1224746008828 putative heme binding pocket [chemical binding]; other site 1224746008829 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1224746008830 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1224746008831 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1224746008832 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1224746008833 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 1224746008834 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746008835 catalytic residue [active] 1224746008836 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1224746008837 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1224746008838 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1224746008839 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1224746008840 Replication initiator protein A; Region: RPA; pfam10134 1224746008841 Helix-turn-helix domain; Region: HTH_17; pfam12728 1224746008842 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 1224746008843 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746008844 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 1224746008845 non-specific DNA binding site [nucleotide binding]; other site 1224746008846 salt bridge; other site 1224746008847 sequence-specific DNA binding site [nucleotide binding]; other site 1224746008848 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1224746008849 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1224746008850 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1224746008851 Toprim domain; Region: Toprim_3; pfam13362 1224746008852 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 1224746008853 IHF - DNA interface [nucleotide binding]; other site 1224746008854 IHF dimer interface [polypeptide binding]; other site 1224746008855 oxidoreductase; Provisional; Region: PRK06196 1224746008856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746008857 NAD(P) binding site [chemical binding]; other site 1224746008858 active site 1224746008859 Cupin; Region: Cupin_6; pfam12852 1224746008860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008861 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1224746008862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008863 ParB-like nuclease domain; Region: ParB; smart00470 1224746008864 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 1224746008865 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1224746008866 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1224746008867 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1224746008868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746008869 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 1224746008870 dimerization interface [polypeptide binding]; other site 1224746008871 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746008872 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1224746008873 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 1224746008874 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1224746008875 putative NAD(P) binding site [chemical binding]; other site 1224746008876 putative active site [active] 1224746008877 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1224746008878 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1224746008879 potential catalytic triad [active] 1224746008880 conserved cys residue [active] 1224746008881 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1224746008882 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1224746008883 DNA binding residues [nucleotide binding] 1224746008884 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1224746008885 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1224746008886 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1224746008887 AAA domain; Region: AAA_30; pfam13604 1224746008888 Family description; Region: UvrD_C_2; pfam13538 1224746008889 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1224746008890 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1224746008891 catalytic residues [active] 1224746008892 catalytic nucleophile [active] 1224746008893 Recombinase; Region: Recombinase; pfam07508 1224746008894 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1224746008895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1224746008896 SnoaL-like domain; Region: SnoaL_2; pfam12680 1224746008897 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1224746008898 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1224746008899 conserved cys residue [active] 1224746008900 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1224746008901 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1224746008902 conserved cys residue [active] 1224746008903 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746008904 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1224746008905 Cupin-like domain; Region: Cupin_8; pfam13621 1224746008906 Cupin superfamily protein; Region: Cupin_4; pfam08007 1224746008907 AAA domain; Region: AAA_21; pfam13304 1224746008908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746008909 ABC transporter signature motif; other site 1224746008910 Walker B; other site 1224746008911 D-loop; other site 1224746008912 H-loop/switch region; other site 1224746008913 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1224746008914 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1224746008915 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1224746008916 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1224746008917 putative ligand binding site [chemical binding]; other site 1224746008918 NAD binding site [chemical binding]; other site 1224746008919 dimerization interface [polypeptide binding]; other site 1224746008920 catalytic site [active] 1224746008921 metabolite-proton symporter; Region: 2A0106; TIGR00883 1224746008922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746008923 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746008924 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 1224746008925 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1224746008926 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1224746008927 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1224746008928 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1224746008929 dimer interface [polypeptide binding]; other site 1224746008930 active site 1224746008931 metal binding site [ion binding]; metal-binding site 1224746008932 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1224746008933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746008934 DNA-binding site [nucleotide binding]; DNA binding site 1224746008935 FCD domain; Region: FCD; pfam07729 1224746008936 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 1224746008937 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1224746008938 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 1224746008939 active site 1224746008940 dimer interface [polypeptide binding]; other site 1224746008941 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 1224746008942 nudix motif; other site 1224746008943 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 1224746008944 S-adenosylmethionine binding site [chemical binding]; other site 1224746008945 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 1224746008946 non-specific DNA binding site [nucleotide binding]; other site 1224746008947 salt bridge; other site 1224746008948 sequence-specific DNA binding site [nucleotide binding]; other site 1224746008949 Predicted transcriptional regulator [Transcription]; Region: COG2932 1224746008950 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 1224746008951 Catalytic site [active] 1224746008952 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1224746008953 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1224746008954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1224746008955 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1224746008956 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1224746008957 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1224746008958 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1224746008959 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1224746008960 Transposase; Region: HTH_Tnp_1; cl17663 1224746008961 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1224746008962 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 1224746008963 AAA domain; Region: AAA_30; pfam13604 1224746008964 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1224746008965 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1224746008966 catalytic residues [active] 1224746008967 catalytic nucleophile [active] 1224746008968 Recombinase; Region: Recombinase; pfam07508 1224746008969 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1224746008970 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1224746008971 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1224746008972 heme-binding site [chemical binding]; other site 1224746008973 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1224746008974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1224746008975 metal binding site [ion binding]; metal-binding site 1224746008976 active site 1224746008977 I-site; other site 1224746008978 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1224746008979 active site 1224746008980 Zn binding site [ion binding]; other site 1224746008981 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1224746008982 Permease; Region: Permease; pfam02405 1224746008983 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1224746008984 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1224746008985 Walker A/P-loop; other site 1224746008986 ATP binding site [chemical binding]; other site 1224746008987 Q-loop/lid; other site 1224746008988 ABC transporter signature motif; other site 1224746008989 Walker B; other site 1224746008990 D-loop; other site 1224746008991 H-loop/switch region; other site 1224746008992 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1224746008993 mce related protein; Region: MCE; pfam02470 1224746008994 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1224746008995 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1224746008996 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 1224746008997 substrate binding site [chemical binding]; other site 1224746008998 dimer interface [polypeptide binding]; other site 1224746008999 ATP binding site [chemical binding]; other site 1224746009000 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1224746009001 acetyl-CoA synthetase; Provisional; Region: PRK00174 1224746009002 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1224746009003 acyl-activating enzyme (AAE) consensus motif; other site 1224746009004 AMP binding site [chemical binding]; other site 1224746009005 active site 1224746009006 CoA binding site [chemical binding]; other site 1224746009007 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1224746009008 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1224746009009 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1224746009010 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1224746009011 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1224746009012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746009013 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1224746009014 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 1224746009015 N-terminal plug; other site 1224746009016 ligand-binding site [chemical binding]; other site 1224746009017 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1224746009018 glutathionine S-transferase; Provisional; Region: PRK10542 1224746009019 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 1224746009020 C-terminal domain interface [polypeptide binding]; other site 1224746009021 GSH binding site (G-site) [chemical binding]; other site 1224746009022 dimer interface [polypeptide binding]; other site 1224746009023 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1224746009024 dimer interface [polypeptide binding]; other site 1224746009025 N-terminal domain interface [polypeptide binding]; other site 1224746009026 substrate binding pocket (H-site) [chemical binding]; other site 1224746009027 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1224746009028 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1224746009029 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1224746009030 putative active site [active] 1224746009031 metal binding site [ion binding]; metal-binding site 1224746009032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009034 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 1224746009035 putative effector binding pocket; other site 1224746009036 dimerization interface [polypeptide binding]; other site 1224746009037 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1224746009038 EamA-like transporter family; Region: EamA; pfam00892 1224746009039 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1224746009040 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1224746009041 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1224746009042 substrate binding pocket [chemical binding]; other site 1224746009043 dimer interface [polypeptide binding]; other site 1224746009044 inhibitor binding site; inhibition site 1224746009045 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 1224746009046 B12 binding site [chemical binding]; other site 1224746009047 cobalt ligand [ion binding]; other site 1224746009048 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1224746009049 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1224746009050 FAD binding domain; Region: FAD_binding_4; pfam01565 1224746009051 malate:quinone oxidoreductase; Validated; Region: PRK05257 1224746009052 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1224746009053 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1224746009054 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1224746009055 N- and C-terminal domain interface [polypeptide binding]; other site 1224746009056 active site 1224746009057 MgATP binding site [chemical binding]; other site 1224746009058 catalytic site [active] 1224746009059 metal binding site [ion binding]; metal-binding site 1224746009060 glycerol binding site [chemical binding]; other site 1224746009061 homotetramer interface [polypeptide binding]; other site 1224746009062 homodimer interface [polypeptide binding]; other site 1224746009063 FBP binding site [chemical binding]; other site 1224746009064 protein IIAGlc interface [polypeptide binding]; other site 1224746009065 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 1224746009066 amphipathic channel; other site 1224746009067 Asn-Pro-Ala signature motifs; other site 1224746009068 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1224746009069 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1224746009070 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1224746009071 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1224746009072 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1224746009073 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1224746009074 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1224746009075 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1224746009076 Walker A/P-loop; other site 1224746009077 ATP binding site [chemical binding]; other site 1224746009078 Q-loop/lid; other site 1224746009079 ABC transporter signature motif; other site 1224746009080 Walker B; other site 1224746009081 D-loop; other site 1224746009082 H-loop/switch region; other site 1224746009083 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1224746009084 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 1224746009085 ABC-ATPase subunit interface; other site 1224746009086 dimer interface [polypeptide binding]; other site 1224746009087 putative PBP binding regions; other site 1224746009088 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 1224746009089 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1224746009090 intersubunit interface [polypeptide binding]; other site 1224746009091 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1224746009092 heme binding pocket [chemical binding]; other site 1224746009093 heme ligand [chemical binding]; other site 1224746009094 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1224746009095 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 1224746009096 N-terminal plug; other site 1224746009097 ligand-binding site [chemical binding]; other site 1224746009098 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1224746009099 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1224746009100 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1224746009101 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1224746009102 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1224746009103 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 1224746009104 triosephosphate isomerase; Provisional; Region: PRK14565 1224746009105 substrate binding site [chemical binding]; other site 1224746009106 dimer interface [polypeptide binding]; other site 1224746009107 catalytic triad [active] 1224746009108 Class I aldolases; Region: Aldolase_Class_I; cl17187 1224746009109 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1224746009110 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1224746009111 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1224746009112 putative N- and C-terminal domain interface [polypeptide binding]; other site 1224746009113 putative active site [active] 1224746009114 MgATP binding site [chemical binding]; other site 1224746009115 catalytic site [active] 1224746009116 metal binding site [ion binding]; metal-binding site 1224746009117 putative xylulose binding site [chemical binding]; other site 1224746009118 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1224746009119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1224746009120 DNA-binding site [nucleotide binding]; DNA binding site 1224746009121 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1224746009122 manganese transport regulator MntR; Provisional; Region: PRK11050 1224746009123 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1224746009124 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1224746009125 manganese transport protein MntH; Reviewed; Region: PRK00701 1224746009126 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1224746009127 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1224746009128 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1224746009129 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1224746009130 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1224746009131 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 1224746009132 N-terminal plug; other site 1224746009133 ligand-binding site [chemical binding]; other site 1224746009134 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1224746009135 glutaminase; Provisional; Region: PRK00971 1224746009136 siroheme synthase; Provisional; Region: cysG; PRK10637 1224746009137 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1224746009138 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1224746009139 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1224746009140 active site 1224746009141 SAM binding site [chemical binding]; other site 1224746009142 homodimer interface [polypeptide binding]; other site 1224746009143 HD domain; Region: HD_3; pfam13023 1224746009144 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 1224746009145 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1224746009146 acyl-CoA synthetase; Validated; Region: PRK09192 1224746009147 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1224746009148 acyl-activating enzyme (AAE) consensus motif; other site 1224746009149 active site 1224746009150 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1224746009151 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1224746009152 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 1224746009153 substrate-cofactor binding pocket; other site 1224746009154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1224746009155 catalytic residue [active] 1224746009156 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 1224746009157 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1224746009158 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1224746009159 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1224746009160 active site 1224746009161 metal binding site [ion binding]; metal-binding site 1224746009162 Predicted permeases [General function prediction only]; Region: COG0795 1224746009163 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1224746009164 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1224746009165 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1224746009166 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1224746009167 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 1224746009168 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1224746009169 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 1224746009170 putative ADP-binding pocket [chemical binding]; other site 1224746009171 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 1224746009172 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 1224746009173 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1224746009174 active site 1224746009175 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1224746009176 putative amphipathic alpha helix; other site 1224746009177 YceG-like family; Region: YceG; pfam02618 1224746009178 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1224746009179 dimerization interface [polypeptide binding]; other site 1224746009180 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1224746009181 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 1224746009182 dimer interface [polypeptide binding]; other site 1224746009183 active site 1224746009184 acyl carrier protein; Provisional; Region: acpP; PRK00982 1224746009185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746009186 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1224746009187 NAD(P) binding site [chemical binding]; other site 1224746009188 active site 1224746009189 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1224746009190 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1224746009191 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 1224746009192 S-adenosylmethionine binding site [chemical binding]; other site 1224746009193 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1224746009194 acetoin reductases; Region: 23BDH; TIGR02415 1224746009195 NAD binding site [chemical binding]; other site 1224746009196 homotetramer interface [polypeptide binding]; other site 1224746009197 homodimer interface [polypeptide binding]; other site 1224746009198 active site 1224746009199 substrate binding site [chemical binding]; other site 1224746009200 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1224746009201 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 1224746009202 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1224746009203 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1224746009204 active site 1224746009205 Zn binding site [ion binding]; other site 1224746009206 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1224746009207 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1224746009208 dinuclear metal binding motif [ion binding]; other site 1224746009209 biotin synthase; Provisional; Region: PRK15108 1224746009210 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 1224746009211 FeS/SAM binding site; other site 1224746009212 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1224746009213 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1224746009214 putative chaperone; Provisional; Region: PRK11678 1224746009215 nucleotide binding site [chemical binding]; other site 1224746009216 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1224746009217 SBD interface [polypeptide binding]; other site 1224746009218 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1224746009219 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1224746009220 mce related protein; Region: MCE; pfam02470 1224746009221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746009222 Q-loop/lid; other site 1224746009223 ABC transporter signature motif; other site 1224746009224 Walker B; other site 1224746009225 Permease; Region: Permease; pfam02405 1224746009226 Cache domain; Region: Cache_1; pfam02743 1224746009227 GAF domain; Region: GAF; pfam01590 1224746009228 cyclase homology domain; Region: CHD; cd07302 1224746009229 dimer interface [polypeptide binding]; other site 1224746009230 nucleotidyl binding site; other site 1224746009231 metal binding site [ion binding]; metal-binding site 1224746009232 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1224746009233 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1224746009234 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1224746009235 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1224746009236 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; cl00208 1224746009237 CAS motifs; other site 1224746009238 active site 1224746009239 S-formylglutathione hydrolase; Region: PLN02442 1224746009240 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1224746009241 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1224746009242 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1224746009243 substrate binding site [chemical binding]; other site 1224746009244 catalytic Zn binding site [ion binding]; other site 1224746009245 NAD binding site [chemical binding]; other site 1224746009246 structural Zn binding site [ion binding]; other site 1224746009247 dimer interface [polypeptide binding]; other site 1224746009248 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1224746009249 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1224746009250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746009251 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1224746009252 NAD(P) binding site [chemical binding]; other site 1224746009253 active site 1224746009254 Response regulator receiver domain; Region: Response_reg; pfam00072 1224746009255 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 1224746009256 active site 1224746009257 phosphorylation site [posttranslational modification] 1224746009258 intermolecular recognition site; other site 1224746009259 dimerization interface [polypeptide binding]; other site 1224746009260 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1224746009261 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 1224746009262 TPR motif; other site 1224746009263 binding surface 1224746009264 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1224746009265 Family of unknown function (DUF490); Region: DUF490; pfam04357 1224746009266 Family of unknown function (DUF490); Region: DUF490; pfam04357 1224746009267 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1224746009268 Surface antigen; Region: Bac_surface_Ag; pfam01103 1224746009269 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1224746009270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1224746009271 putative acyl-acceptor binding pocket; other site 1224746009272 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1224746009273 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1224746009274 TRAM domain; Region: TRAM; pfam01938 1224746009275 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1224746009276 PhoH-like protein; Region: PhoH; pfam02562 1224746009277 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1224746009278 FOG: CBS domain [General function prediction only]; Region: COG0517 1224746009279 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 1224746009280 Transporter associated domain; Region: CorC_HlyC; smart01091 1224746009281 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1224746009282 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1224746009283 catalytic residues [active] 1224746009284 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1224746009285 Thioredoxin; Region: Thioredoxin_4; pfam13462 1224746009286 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1224746009287 AAA domain; Region: AAA_23; pfam13476 1224746009288 Walker A/P-loop; other site 1224746009289 ATP binding site [chemical binding]; other site 1224746009290 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1224746009291 ABC transporter signature motif; other site 1224746009292 Walker B; other site 1224746009293 D-loop; other site 1224746009294 H-loop/switch region; other site 1224746009295 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1224746009296 active site 1224746009297 metal binding site [ion binding]; metal-binding site 1224746009298 chorismate mutase; Provisional; Region: PRK09239 1224746009299 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 1224746009300 catalytic core [active] 1224746009301 Hint domain; Region: Hint_2; pfam13403 1224746009302 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 1224746009303 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1224746009304 dimer interface [polypeptide binding]; other site 1224746009305 active site 1224746009306 citrylCoA binding site [chemical binding]; other site 1224746009307 NADH binding [chemical binding]; other site 1224746009308 cationic pore residues; other site 1224746009309 oxalacetate/citrate binding site [chemical binding]; other site 1224746009310 coenzyme A binding site [chemical binding]; other site 1224746009311 catalytic triad [active] 1224746009312 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1224746009313 active site 1224746009314 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1224746009315 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1224746009316 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1224746009317 substrate binding pocket [chemical binding]; other site 1224746009318 chain length determination region; other site 1224746009319 substrate-Mg2+ binding site; other site 1224746009320 catalytic residues [active] 1224746009321 aspartate-rich region 1; other site 1224746009322 active site lid residues [active] 1224746009323 aspartate-rich region 2; other site 1224746009324 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1224746009325 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1224746009326 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1224746009327 dimer interface [polypeptide binding]; other site 1224746009328 putative radical transfer pathway; other site 1224746009329 diiron center [ion binding]; other site 1224746009330 tyrosyl radical; other site 1224746009331 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1224746009332 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1224746009333 active site 1224746009334 dimer interface [polypeptide binding]; other site 1224746009335 catalytic residues [active] 1224746009336 effector binding site; other site 1224746009337 R2 peptide binding site; other site 1224746009338 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1224746009339 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1224746009340 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1224746009341 Tetramer interface [polypeptide binding]; other site 1224746009342 active site 1224746009343 FMN-binding site [chemical binding]; other site 1224746009344 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1224746009345 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1224746009346 NAD binding site [chemical binding]; other site 1224746009347 homotetramer interface [polypeptide binding]; other site 1224746009348 homodimer interface [polypeptide binding]; other site 1224746009349 substrate binding site [chemical binding]; other site 1224746009350 active site 1224746009351 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1224746009352 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1224746009353 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1224746009354 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 1224746009355 Ligand Binding Site [chemical binding]; other site 1224746009356 Alginate lyase; Region: Alginate_lyase2; pfam08787 1224746009357 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1224746009358 putative acyl-acceptor binding pocket; other site 1224746009359 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1224746009360 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1224746009361 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1224746009362 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1224746009363 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1224746009364 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1224746009365 putative acyl-acceptor binding pocket; other site 1224746009366 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1224746009367 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1224746009368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746009369 dimer interface [polypeptide binding]; other site 1224746009370 conserved gate region; other site 1224746009371 putative PBP binding loops; other site 1224746009372 ABC-ATPase subunit interface; other site 1224746009373 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1224746009374 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 1224746009375 substrate binding pocket [chemical binding]; other site 1224746009376 catalytic triad [active] 1224746009377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746009378 dimer interface [polypeptide binding]; other site 1224746009379 conserved gate region; other site 1224746009380 ABC-ATPase subunit interface; other site 1224746009381 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1224746009382 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1224746009383 Walker A/P-loop; other site 1224746009384 ATP binding site [chemical binding]; other site 1224746009385 Q-loop/lid; other site 1224746009386 ABC transporter signature motif; other site 1224746009387 Walker B; other site 1224746009388 D-loop; other site 1224746009389 H-loop/switch region; other site 1224746009390 NIL domain; Region: NIL; pfam09383 1224746009391 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 1224746009392 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746009393 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009394 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746009395 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1224746009396 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746009397 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1224746009398 EF-hand domain pair; Region: EF_hand_5; pfam13499 1224746009399 Ca2+ binding site [ion binding]; other site 1224746009400 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746009401 potential frameshift: common BLAST hit: gi|347822900|ref|YP_004869946.1| transposase 1224746009402 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746009403 Integrase core domain; Region: rve; pfam00665 1224746009404 Integrase core domain; Region: rve_3; pfam13683 1224746009405 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1224746009406 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1224746009407 putative active site [active] 1224746009408 catalytic triad [active] 1224746009409 putative dimer interface [polypeptide binding]; other site 1224746009410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009412 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 1224746009413 putative substrate binding pocket [chemical binding]; other site 1224746009414 putative dimerization interface [polypeptide binding]; other site 1224746009415 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1224746009416 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 1224746009417 active site 1224746009418 DNA binding site [nucleotide binding] 1224746009419 Int/Topo IB signature motif; other site 1224746009420 ScpA/B protein; Region: ScpA_ScpB; cl00598 1224746009421 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 1224746009422 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1224746009423 hypothetical protein; Provisional; Region: PRK06126 1224746009424 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1224746009425 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1224746009426 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1224746009427 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 1224746009428 putative DNA binding site [nucleotide binding]; other site 1224746009429 putative Zn2+ binding site [ion binding]; other site 1224746009430 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1224746009431 S-formylglutathione hydrolase; Region: PLN02442 1224746009432 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 1224746009433 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746009434 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1224746009435 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1224746009436 substrate binding site [chemical binding]; other site 1224746009437 catalytic Zn binding site [ion binding]; other site 1224746009438 NAD binding site [chemical binding]; other site 1224746009439 structural Zn binding site [ion binding]; other site 1224746009440 dimer interface [polypeptide binding]; other site 1224746009441 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1224746009442 putative metal binding site [ion binding]; other site 1224746009443 putative homodimer interface [polypeptide binding]; other site 1224746009444 putative homotetramer interface [polypeptide binding]; other site 1224746009445 putative homodimer-homodimer interface [polypeptide binding]; other site 1224746009446 putative allosteric switch controlling residues; other site 1224746009447 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1224746009448 YCII-related domain; Region: YCII; pfam03795 1224746009449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009451 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 1224746009452 putative effector binding pocket; other site 1224746009453 dimerization interface [polypeptide binding]; other site 1224746009454 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1224746009455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746009456 NAD(P) binding site [chemical binding]; other site 1224746009457 active site 1224746009458 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1224746009459 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746009460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746009461 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1224746009462 Transcriptional regulator; Region: Rrf2; pfam02082 1224746009463 Predicted transcriptional regulator [Transcription]; Region: COG1959 1224746009464 Winged helix-turn helix; Region: HTH_29; pfam13551 1224746009465 Integrase core domain; Region: rve; pfam00665 1224746009466 Integrase core domain; Region: rve_3; pfam13683 1224746009467 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1224746009468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746009469 NAD(P) binding site [chemical binding]; other site 1224746009470 active site 1224746009471 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746009472 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746009473 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746009474 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 1224746009475 active site 1224746009476 metal binding site [ion binding]; metal-binding site 1224746009477 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1224746009478 GST_N family, unknown subfamily 4; 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_4; cd03056 1224746009479 putative C-terminal domain interface [polypeptide binding]; other site 1224746009480 putative GSH binding site (G-site) [chemical binding]; other site 1224746009481 putative dimer interface [polypeptide binding]; other site 1224746009482 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1224746009483 putative N-terminal domain interface [polypeptide binding]; other site 1224746009484 putative dimer interface [polypeptide binding]; other site 1224746009485 putative substrate binding pocket (H-site) [chemical binding]; other site 1224746009486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009488 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 1224746009489 putative effector binding pocket; other site 1224746009490 putative dimerization interface [polypeptide binding]; other site 1224746009491 DDE superfamily endonuclease; Region: DDE_5; pfam13546 1224746009492 DDE superfamily endonuclease; Region: DDE_5; cl17874 1224746009493 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746009494 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746009495 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 1224746009496 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746009497 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009498 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746009499 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1224746009500 generic binding surface II; other site 1224746009501 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1224746009502 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1224746009503 putative active site [active] 1224746009504 putative PHP Thumb interface [polypeptide binding]; other site 1224746009505 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1224746009506 generic binding surface I; other site 1224746009507 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1224746009508 DNA Polymerase Y-family; Region: PolY_like; cd03468 1224746009509 active site 1224746009510 DNA binding site [nucleotide binding] 1224746009511 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1224746009512 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 1224746009513 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1224746009514 P-loop; other site 1224746009515 Magnesium ion binding site [ion binding]; other site 1224746009516 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1224746009517 Ligand Binding Site [chemical binding]; other site 1224746009518 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1224746009519 Transposase; Region: HTH_Tnp_1; cl17663 1224746009520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1224746009521 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1224746009522 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1224746009523 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1224746009524 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1224746009525 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1224746009526 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1224746009527 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1224746009528 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 1224746009529 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 1224746009530 active site triad [active] 1224746009531 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1224746009532 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1224746009533 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1224746009534 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1224746009535 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1224746009536 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1224746009537 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1224746009538 plasmid partitioning protein; Provisional; Region: PRK13832 1224746009539 ParB-like nuclease domain; Region: ParB; smart00470 1224746009540 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1224746009541 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 1224746009542 dimer interface [polypeptide binding]; other site 1224746009543 ssDNA binding site [nucleotide binding]; other site 1224746009544 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1224746009545 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1224746009546 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; cd00188 1224746009547 active site 1224746009548 metal binding site [ion binding]; metal-binding site 1224746009549 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1224746009550 Family description; Region: UvrD_C_2; pfam13538 1224746009551 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 1224746009552 Nuclease-related domain; Region: NERD; pfam08378 1224746009553 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1224746009554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1224746009555 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1224746009556 Fic/DOC family; Region: Fic; cl00960 1224746009557 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1224746009558 FIC domain binding interface [polypeptide binding]; other site 1224746009559 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1224746009560 G1 box; other site 1224746009561 GTP/Mg2+ binding site [chemical binding]; other site 1224746009562 G2 box; other site 1224746009563 Switch I region; other site 1224746009564 G3 box; other site 1224746009565 Switch II region; other site 1224746009566 bifunctional UGMP family protein/serine/threonine protein kinase; Validated; Region: PRK09605 1224746009567 BRO family, N-terminal domain; Region: Bro-N; smart01040 1224746009568 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1224746009569 TrwC relaxase; Region: TrwC; pfam08751 1224746009570 AAA domain; Region: AAA_30; pfam13604 1224746009571 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1224746009572 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1224746009573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1224746009574 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1224746009575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1224746009576 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1224746009577 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 1224746009578 TPP-binding site [chemical binding]; other site 1224746009579 AAA-like domain; Region: AAA_10; pfam12846 1224746009580 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1224746009581 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 1224746009582 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1224746009583 catalytic residue [active] 1224746009584 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 1224746009585 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 1224746009586 ATP binding site [chemical binding]; other site 1224746009587 Walker B motif; other site 1224746009588 RelB antitoxin; Region: RelB; cl01171 1224746009589 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1224746009590 AAA-like domain; Region: AAA_10; pfam12846 1224746009591 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 1224746009592 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 1224746009593 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746009594 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 1224746009595 non-specific DNA binding site [nucleotide binding]; other site 1224746009596 salt bridge; other site 1224746009597 sequence-specific DNA binding site [nucleotide binding]; other site 1224746009598 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 1224746009599 non-specific DNA binding site [nucleotide binding]; other site 1224746009600 salt bridge; other site 1224746009601 sequence-specific DNA binding site [nucleotide binding]; other site 1224746009602 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 1224746009603 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1224746009604 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1224746009605 replication initiation protein RepC; Provisional; Region: PRK13824 1224746009606 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1224746009607 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1224746009608 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 1224746009609 potential frameshift: common BLAST hit: gi|170748940|ref|YP_001755200.1| filamentation induced by cAMP protein fic 1224746009610 Fic/DOC family; Region: Fic; pfam02661 1224746009611 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1224746009612 classical (c) SDRs; Region: SDR_c; cd05233 1224746009613 NAD(P) binding site [chemical binding]; other site 1224746009614 active site 1224746009615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009617 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 1224746009618 putative effector binding pocket; other site 1224746009619 putative dimerization interface [polypeptide binding]; other site 1224746009620 classical (c) SDRs; Region: SDR_c; cd05233 1224746009621 NAD(P) binding site [chemical binding]; other site 1224746009622 active site 1224746009623 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1224746009624 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1224746009625 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1224746009626 Class II fumarases; Region: Fumarase_classII; cd01362 1224746009627 active site 1224746009628 tetramer interface [polypeptide binding]; other site 1224746009629 malate dehydrogenase; Provisional; Region: PRK13529 1224746009630 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1224746009631 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1224746009632 NAD(P) binding site [chemical binding]; other site 1224746009633 transcriptional activator TtdR; Provisional; Region: PRK09801 1224746009634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009635 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 1224746009636 putative effector binding pocket; other site 1224746009637 dimerization interface [polypeptide binding]; other site 1224746009638 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 1224746009639 PAS domain; Region: PAS_9; pfam13426 1224746009640 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746009641 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009642 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746009643 DDE superfamily endonuclease; Region: DDE_5; pfam13546 1224746009644 DDE superfamily endonuclease; Region: DDE_5; cl17874 1224746009645 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746009646 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746009647 Winged helix-turn helix; Region: HTH_29; pfam13551 1224746009648 Integrase core domain; Region: rve; pfam00665 1224746009649 Integrase core domain; Region: rve_3; cl15866 1224746009650 Fic family protein [Function unknown]; Region: COG3177 1224746009651 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1224746009652 Fic/DOC family; Region: Fic; pfam02661 1224746009653 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1224746009654 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1224746009655 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1224746009656 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1224746009657 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746009658 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009659 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746009660 HTH-like domain; Region: HTH_21; pfam13276 1224746009661 Integrase core domain; Region: rve; pfam00665 1224746009662 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1224746009663 Integrase core domain; Region: rve_3; pfam13683 1224746009664 Transposase; Region: HTH_Tnp_1; cl17663 1224746009665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1224746009666 haloalkane dehalogenase; Provisional; Region: PRK03592 1224746009667 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746009668 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746009669 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1224746009670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746009671 NAD(P) binding site [chemical binding]; other site 1224746009672 active site 1224746009673 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1224746009674 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1224746009675 putative NAD(P) binding site [chemical binding]; other site 1224746009676 dimer interface [polypeptide binding]; other site 1224746009677 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746009678 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746009679 Ta0938; Region: Ta0938; pfam11494 1224746009680 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1224746009681 HNH endonuclease; Region: HNH_5; pfam14279 1224746009682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009684 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 1224746009685 putative substrate binding pocket [chemical binding]; other site 1224746009686 putative dimerization interface [polypeptide binding]; other site 1224746009687 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 1224746009688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1224746009689 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1224746009690 putative substrate translocation pore; other site 1224746009691 Isochorismatase family; Region: Isochorismatase; pfam00857 1224746009692 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 1224746009693 catalytic triad [active] 1224746009694 conserved cis-peptide bond; other site 1224746009695 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746009696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746009697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1224746009698 cyanate hydratase; Validated; Region: PRK02866 1224746009699 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1224746009700 oligomer interface [polypeptide binding]; other site 1224746009701 active site 1224746009702 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1224746009703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009704 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 1224746009705 dimerization interface [polypeptide binding]; other site 1224746009706 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 1224746009707 salt bridge; other site 1224746009708 non-specific DNA binding site [nucleotide binding]; other site 1224746009709 sequence-specific DNA binding site [nucleotide binding]; other site 1224746009710 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1224746009711 Predicted transcriptional regulators [Transcription]; Region: COG1733 1224746009712 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1224746009713 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1224746009714 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1224746009715 putative NAD(P) binding site [chemical binding]; other site 1224746009716 dimer interface [polypeptide binding]; other site 1224746009717 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1224746009718 Major royal jelly protein; Region: MRJP; pfam03022 1224746009719 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; cl17393 1224746009720 DNA-binding interface [nucleotide binding]; DNA binding site 1224746009721 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1224746009722 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1224746009723 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 1224746009724 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1224746009725 DNA binding residues [nucleotide binding] 1224746009726 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1224746009727 dimer interface [polypeptide binding]; other site 1224746009728 putative metal binding site [ion binding]; other site 1224746009729 Cation efflux family; Region: Cation_efflux; cl00316 1224746009730 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746009731 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 1224746009732 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746009733 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009734 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746009735 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746009736 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009737 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746009738 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 1224746009739 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1224746009740 catalytic residues [active] 1224746009741 catalytic nucleophile [active] 1224746009742 Presynaptic Site I dimer interface [polypeptide binding]; other site 1224746009743 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1224746009744 Synaptic Flat tetramer interface [polypeptide binding]; other site 1224746009745 Synaptic Site I dimer interface [polypeptide binding]; other site 1224746009746 DNA binding site [nucleotide binding] 1224746009747 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 1224746009748 DNA-binding interface [nucleotide binding]; DNA binding site 1224746009749 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1224746009750 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1224746009751 putative active site [active] 1224746009752 Hint domain; Region: Hint_2; pfam13403 1224746009753 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1224746009754 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1224746009755 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746009756 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009757 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746009758 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1224746009759 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 1224746009760 non-specific DNA binding site [nucleotide binding]; other site 1224746009761 salt bridge; other site 1224746009762 sequence-specific DNA binding site [nucleotide binding]; other site 1224746009763 Hint domain; Region: Hint_2; pfam13403 1224746009764 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 1224746009765 Transposase domain (DUF772); Region: DUF772; pfam05598 1224746009766 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1224746009767 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1224746009768 Lactoylglutathione lyase and related lyases [Amino acid transport and metabolism]; Region: GloA; COG0346 1224746009769 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746009770 active site 1224746009771 metal binding site [ion binding]; metal-binding site 1224746009772 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 1224746009773 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1224746009774 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1224746009775 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1224746009776 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1224746009777 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1224746009778 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1224746009779 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1224746009780 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1224746009781 HlyD family secretion protein; Region: HlyD_3; pfam13437 1224746009782 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1224746009783 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1224746009784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1224746009785 Coenzyme A binding pocket [chemical binding]; other site 1224746009786 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1224746009787 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1224746009788 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1224746009789 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1224746009790 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1224746009791 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1224746009792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1224746009793 NAD(P) binding site [chemical binding]; other site 1224746009794 active site 1224746009795 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1224746009796 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1224746009797 putative catalytic residue [active] 1224746009798 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1224746009799 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 1224746009800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1224746009801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1224746009802 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 1224746009803 dimerization interface [polypeptide binding]; other site 1224746009804 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1224746009805 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1224746009806 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1224746009807 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1224746009808 active site 1224746009809 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1224746009810 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1224746009811 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1224746009812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1224746009813 Walker A/P-loop; other site 1224746009814 ATP binding site [chemical binding]; other site 1224746009815 Q-loop/lid; other site 1224746009816 ABC transporter signature motif; other site 1224746009817 Walker B; other site 1224746009818 D-loop; other site 1224746009819 H-loop/switch region; other site 1224746009820 TOBE domain; Region: TOBE_2; pfam08402 1224746009821 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1224746009822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1224746009823 dimer interface [polypeptide binding]; other site 1224746009824 conserved gate region; other site 1224746009825 putative PBP binding loops; other site 1224746009826 ABC-ATPase subunit interface; other site