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Dethiobiotin synthetase

ID 2334
Name Dethiobiotin synthetase
Synonyms
  • EC 6.3.3.3
  • Dethiobiotin synthase
  • DTB synthetase
  • DTBS
Gene Name bioD
Protein Sequence 
>Dethiobiotin synthetase
MSKRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPVASGSEKTPEGLRNSDALALQ
RNSSLQLDYATVNPYTFAEPTSPHIISAQEGRPIESLVMSAGLRALEQQADWVLVEGAGG
WFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVANDVTP
PGKRHAEYMTTLTRMIPAPLLGEIPWLAENPENAATGKYINLALL
Number of Residues 225
Molecular Weight 24140
Theoretical pI 5.64
GO Classification
Function
glutaminase activity
cobyrinic acid a,c-diamide synthase activity
purine nucleotide binding
dethiobiotin synthase activity
adenyl nucleotide binding
ATP binding
binding
ligase activity
nucleotide binding
catalytic activity
ligase activity, forming carbon-nitrogen bonds
hydrolase activity
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds
cyclo-ligase activity
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides
Process
biotin metabolism
biotin biosynthesis
physiological process
heterocycle metabolism
porphyrin metabolism
porphyrin biosynthesis
metabolism
cellular metabolism
vitamin metabolism
water-soluble vitamin metabolism
cobalamin biosynthesis
General Function Coenzyme transport and metabolism
Specific Function ATP + 7,8-diaminononanoate + CO(2) = ADP + phosphate + dethiobiotin
Pathways Not Available
Reactions
  • ATP + 7,8-diaminononanoate + CO2 = ADP + phosphate + dethiobiotin
Pfam Domain Function
Signals None
Transmembrane Regions None
Essentiality Non-Essential
GenBank Protein ID 145427 Link_out
UniProtKB ID P13000 Link_out
UniProtKB Entry Name BIOD_ECOLI Link_out
PDB ID 1DAM Link_out
PDB File show
3D Structure View 3D Structure
Cellular Location Cytoplasm
Gene Sequence 
>660 bp
GTGAGTAAACGTTATTTTGTCACCGGAACGGATACCGAAGTGGGGAAAACTGTCGCCAGT
TGTGCACTTTTACAAGCCGCAAAGCGAGCAGGCTACCGGACGGCAGGTTATAAACCGGTC
GCCTCTGGCAGCGAAAAGACCCCGGAAGGTTTACGCAATAGCGACGCGCTGGCGTTACAG
CGCAACAGCAGCCTGCAGCTGGATTACGCAACAGTAAATCCTTACACCTTCGCAGAACCC
ACTTCGCCGCACATCATCAGCGCGCAAGAGGGCAGACCGATAGAATCATTGGTAATGAGC
GCCGGATTACGCGCGCTTGAACAACAGGCTGACTGGGTGTTAGTGGAAGGTGCTGGCGGC
TGGTTTACGCCGCTTTCTGACACTTTCACTTTTGCAGATTGGGTAACACAGGAACAACTG
CCGGTGATACTGGTAGTTGGTGTGAAACTCGGCTGTATTAATCACGCGATGTTGACTGCA
CAGGTAATACAACACGCCGGACTGACTCTGGCGGGTTGGGTGGCGAACGATGTTACGCCT
CCGGGAAAACGTCACGCTGAATATATGACCACGCTCACCCGCATGATTCCGCGCCGCTGC
TGGGAGAGATCCCCTGGCTTGCAGAAAATCCAGAAAATGCGGCAACCGGAAAGTACATAA
GenBank Gene ID J04423 Link_out
GeneCard ID Not Available
GenAtlas ID Not Available
HGNC ID Not Available
HPRD ID Not Available
IUPHAR ID Not Available
Guide to Pharmacology ID Not Available
Chromosome Location Not Available
Locus Not Available
SNPs bioD Link_out
General References
  1. Otsuka AJ, Buoncristiani MR, Howard PK, Flamm J, Johnson C, Yamamoto R, Uchida K, Cook C, Ruppert J, Matsuzaki J: The Escherichia coli biotin biosynthetic enzyme sequences predicted from the nucleotide sequence of the bio operon. J Biol Chem. 1988 Dec 25;263(36):19577-85. Pubmed
  2. Alexeev D, Bury SM, Boys CW, Turner MA, Sawyer L, Ramsey AJ, Baxter HC, Baxter RL: Sequence and crystallization of Escherichia coli dethiobiotin synthetase, the penultimate enzyme of biotin biosynthesis. J Mol Biol. 1994 Jan 14;235(2):774-6. Pubmed
  3. Blattner FR, Plunkett G 3rd, Bloch CA, Perna NT, Burland V, Riley M, Collado-Vides J, Glasner JD, Rode CK, Mayhew GF, Gregor J, Davis NW, Kirkpatrick HA, Goeden MA, Rose DJ, Mau B, Shao Y: The complete genome sequence of Escherichia coli K-12. Science. 1997 Sep 5;277(5331):1453-74. Pubmed
  4. Huang W, Lindqvist Y, Schneider G, Gibson KJ, Flint D, Lorimer G: Crystal structure of an ATP-dependent carboxylase, dethiobiotin synthetase, at 1.65 A resolution. Structure. 1994 May 15;2(5):407-14. Pubmed
  5. Alexeev D, Baxter RL, Sawyer L: Mechanistic implications and family relationships from the structure of dethiobiotin synthetase. Structure. 1994 Nov 15;2(11):1061-72. Pubmed
  6. Kack H, Gibson KJ, Lindqvist Y, Schneider G: Snapshot of a phosphorylated substrate intermediate by kinetic crystallography. Proc Natl Acad Sci U S A. 1998 May 12;95(10):5495-500. Pubmed
  7. Kack H, Sandmark J, Gibson KJ, Schneider G, Lindqvist Y: Crystal structure of two quaternary complexes of dethiobiotin synthetase, enzyme-MgADP-AlF3-diaminopelargonic acid and enzyme-MgADP-dethiobiotin-phosphate; implications for catalysis. Protein Sci. 1998 Dec;7(12):2560-6. Pubmed
  8. Sandalova T, Schneider G, Kack H, Lindqvist Y: Structure of dethiobiotin synthetase at 0.97 A resolution. Acta Crystallogr D Biol Crystallogr. 1999 Mar;55(Pt 3):610-24. Pubmed
  9. Yang G, Sandalova T, Lohman K, Lindqvist Y, Rendina AR: Active site mutants of Escherichia coli dethiobiotin synthetase: effects of mutations on enzyme catalytic and structural properties. Biochemistry. 1997 Apr 22;36(16):4751-60. Pubmed
Drugs
# DrugBank ID Drug Name Drug Type Drug Groups
1 DB02941 3-(1-Aminoethyl)Nonanedioic Acid small molecule experimental
2 DB03624 7-(Carboxyamino)-8-Amino-Nonanoic Acid small molecule experimental
3 DB01715 7,8-Diamino-Nonanoic Acid small molecule experimental
4 DB03431 Adenosine-5'-Diphosphate small molecule experimental
5 DB03775 D-Dethiobiotin small molecule experimental
6 DB02927 Mixed Carbamic Phosphoric Acid Anhydride of 7,8-Diaminononanic Acid small molecule experimental