1U8V
Crystal Structure of 4-Hydroxybutyryl-CoA Dehydratase from Clostridium aminobutyricum: Radical catalysis involving a [4Fe-4S] cluster and flavin
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2 Family | Medium chain acyl-CoA dehydrogenase C-terminal domain-like | 8030463 | 4000821 | SCOP2 (2022-06-29) |
A | SCOP2 Family | Medium chain acyl-CoA dehydrogenase FAD-binding domain-like | 8030464 | 4002751 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Acyl-CoA dehydrogenase C-terminal domain-like | 8042842 | 3001580 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Acyl-CoA dehydrogenase N-terminal lobe-like | 8042843 | 3001701 | SCOP2 (2022-06-29) |
B | SCOP2B Superfamily | Acyl-CoA dehydrogenase N-terminal lobe-like | 8042843 | 3001701 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Acyl-CoA dehydrogenase C-terminal domain-like | 8042842 | 3001580 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | Acyl-CoA dehydrogenase N-terminal lobe-like | 8042843 | 3001701 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | Acyl-CoA dehydrogenase C-terminal domain-like | 8042842 | 3001580 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Acyl-CoA dehydrogenase C-terminal domain-like | 8042842 | 3001580 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Acyl-CoA dehydrogenase N-terminal lobe-like | 8042843 | 3001701 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | HpaB_N_C | e1u8vA1 | A: beta complex topology | X: Acyl-CoA dehydrogenase middle domain-like (From Topology) | H: Acyl-CoA dehydrogenase middle domain-like (From Topology) | T: Acyl-CoA dehydrogenase middle domain-like | F: HpaB_N_C | ECOD (1.6) |
A | HpaB_N_N | e1u8vA2 | A: alpha arrays | X: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | H: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase N-terminal domain-like | F: HpaB_N_N | ECOD (1.6) |
A | HpaB | e1u8vA3 | A: alpha bundles | X: Bromodomain-like | H: Acyl-CoA dehydrogenase C-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase C-terminal domain-like | F: HpaB | ECOD (1.6) |
B | HpaB_N_C | e1u8vB1 | A: beta complex topology | X: Acyl-CoA dehydrogenase middle domain-like (From Topology) | H: Acyl-CoA dehydrogenase middle domain-like (From Topology) | T: Acyl-CoA dehydrogenase middle domain-like | F: HpaB_N_C | ECOD (1.6) |
B | HpaB_N_N | e1u8vB2 | A: alpha arrays | X: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | H: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase N-terminal domain-like | F: HpaB_N_N | ECOD (1.6) |
B | HpaB | e1u8vB3 | A: alpha bundles | X: Bromodomain-like | H: Acyl-CoA dehydrogenase C-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase C-terminal domain-like | F: HpaB | ECOD (1.6) |
C | HpaB_N_C | e1u8vC1 | A: beta complex topology | X: Acyl-CoA dehydrogenase middle domain-like (From Topology) | H: Acyl-CoA dehydrogenase middle domain-like (From Topology) | T: Acyl-CoA dehydrogenase middle domain-like | F: HpaB_N_C | ECOD (1.6) |
C | HpaB_N_N | e1u8vC2 | A: alpha arrays | X: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | H: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase N-terminal domain-like | F: HpaB_N_N | ECOD (1.6) |
C | HpaB | e1u8vC3 | A: alpha bundles | X: Bromodomain-like | H: Acyl-CoA dehydrogenase C-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase C-terminal domain-like | F: HpaB | ECOD (1.6) |
D | HpaB_N_C | e1u8vD1 | A: beta complex topology | X: Acyl-CoA dehydrogenase middle domain-like (From Topology) | H: Acyl-CoA dehydrogenase middle domain-like (From Topology) | T: Acyl-CoA dehydrogenase middle domain-like | F: HpaB_N_C | ECOD (1.6) |
D | HpaB_N_N | e1u8vD2 | A: alpha arrays | X: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | H: Acyl-CoA dehydrogenase N-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase N-terminal domain-like | F: HpaB_N_N | ECOD (1.6) |
D | HpaB | e1u8vD3 | A: alpha bundles | X: Bromodomain-like | H: Acyl-CoA dehydrogenase C-terminal domain-like (From Topology) | T: Acyl-CoA dehydrogenase C-terminal domain-like | F: HpaB | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF11794 | 4-hydroxyphenylacetate 3-hydroxylase N terminal (HpaB_N) | 4-hydroxyphenylacetate 3-hydroxylase N terminal | - | Family | |
PF03241 | 4-hydroxyphenylacetate 3-hydroxylase C terminal (HpaB) | 4-hydroxyphenylacetate 3-hydroxylase C terminal | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR009100 | Acyl-CoA dehydrogenase/oxidase, N-terminal and middle domain superfamily | Homologous Superfamily | |
IPR024719 | HpaB/PvcC/4-BUDH C-terminal | Domain | |
IPR046373 | Acyl-CoA oxidase/dehydrogenase, middle domain superfamily | Homologous Superfamily | |
IPR004925 | HpaB/PvcC/4-BUDH | Family | |
IPR036250 | Acyl-CoA dehydrogenase-like, C-terminal | Homologous Superfamily | |
IPR024674 | HpaB/PvcC/4-BUDH N-terminal | Domain |
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
4-hydroxybutanoyl-CoA dehydratase M-CSA #750 | 4-hydroxybutyryl-CoA dehydratase (4-BUDH) catalyses the dehydration of 4-hydroxybutanoyl-CoA to crotonyl-CoA, as well as the isomerisation of vinylacetyl-CoA to crotonyl-CoA. The reaction is mechanistically the most demanding step in the fermentation of gamma-aminobutyrate to ammonia, acetate and butyrate by Clostridium aminobutyricum. | Defined by 8 residues: CYS:A-99CYS:A-103THR:A-190GLU:A-257HIS:A-292TYR:A-296CYS:A-299GLU:A-455 | EC: 4.2 (PDB Primary Data) EC: 5.3.3.3 (PDB Primary Data) |