1R30
The Crystal Structure of Biotin Synthase, an S-Adenosylmethionine-Dependent Radical Enzyme
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d1r30a_ | Alpha and beta proteins (a/b) | TIM beta/alpha-barrel | Radical SAM enzymes | Biotin synthase | Biotin synthase | (Escherichia coli ) [TaxId: 562 ], | SCOPe (2.08) |
B | d1r30b_ | Alpha and beta proteins (a/b) | TIM beta/alpha-barrel | Radical SAM enzymes | Biotin synthase | Biotin synthase | (Escherichia coli ) [TaxId: 562 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | Radical_SAM | e1r30A1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: Radical_SAM | ECOD (1.6) |
B | Radical_SAM | e1r30B1 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: Radical_SAM | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 3.20.20.70 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Aldolase class I | CATH (4.3.0) |
B | 3.20.20.70 | Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Aldolase class I | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF04055 | Radical SAM superfamily (Radical_SAM) | Radical SAM superfamily | Radical SAM proteins catalyse diverse reactions, including unusual methylations, isomerisation, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. | Domain | |
PF06968 | Biotin and Thiamin Synthesis associated domain (BATS) | Biotin and Thiamin Synthesis associated domain | Biotin synthase (BioB), EC:2.8.1.6 , catalyses the last step of the biotin biosynthetic pathway. The reaction consists in the introduction of a sulphur atom into dethiobiotin. BioB functions as a homodimer [1]. Thiamin synthesis if a complex proces ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR007197 | Radical SAM | Domain | |
IPR006638 | Elp3/MiaA/NifB-like, radical SAM core domain | Domain | |
IPR002684 | Biotin synthase/Biotin biosynthesis bifunctional protein BioAB | Family | |
IPR013785 | Aldolase-type TIM barrel | Homologous Superfamily | |
IPR010722 | Biotin and thiamin synthesis-associated domain | Domain | |
IPR024177 | Biotin synthase | Family |
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
biotin synthase M-CSA #767 | Biotin synthase (BioB) is a member of the radical-SAM superfamily. It catalyses the insertion of an S atom between the C6 and C9 carbon atoms of dethiobiotin (DTB). BioB contains [4Fe-4S] clusters involved in the reduction and cleavage of S-adenosyl-L-methionine (AdoMet), generating methionine and a primary 5'-deoxyadenosyl radical responsible for dethiobiotin H-abstraction. i.e. BioB is involved in the activation of AdoMet in the biotin synthesis pathway and the incorporation of S atoms into DTB. An oxygen sensitive Fe/S cluster is bound to each polypeptide chain and is chelated by three catalytic Cys residues. The cluster provides electrons for AdoMet cleavage and can adopt both +1 and +2 redox states. | Defined by 7 residues: CYS:A-76 [auth A-53]CYS:A-80 [auth A-57]CYS:A-83 [auth A-60]CYS:A-120 [auth A-97]CYS:A-151 [auth A-128]CYS:A-211 [auth A-188]ARG:A-283 [auth A-260] | EC: 2.8.1.6 (PDB Primary Data) |