6H6V | pdb_00006h6v

Structure of the UbiD-class enzyme HmfF from Pelotomaculum thermopropionicum in complex with FMN

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F		e6h6vF1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Ribonuc_2-5A	F:	ECOD (20:10:01)
E		e6h6vE1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Ribonuc_2-5A	F:	ECOD (20:10:01)
D		e6h6vD1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Ribonuc_2-5A	F:	ECOD (20:10:01)
C		e6h6vC1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Ribonuc_2-5A	F:	ECOD (20:10:01)
B		e6h6vB1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Ribonuc_2-5A	F:	ECOD (20:10:01)
A		e6h6vA1	A: PriB N-terminal domain-like	X: Rubredoxin-related	H: Aconitase iron-sulfur domain	T: Ribonuc_2-5A	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF20695	3-octaprenyl-4-hydroxybenzoate carboxy-lyase N-terminal domain (UbiD_N)	3-octaprenyl-4-hydroxybenzoate carboxy-lyase N-terminal domain	This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [1]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [1]. This entry repr ...	This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [1]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [1]. This entry represents the N-terminal domain.	Domain
A, B, C, D, E A, B, C, D, E, F	PF01977	3-octaprenyl-4-hydroxybenzoate carboxy-lyase Rift-related domain (UbiD)	3-octaprenyl-4-hydroxybenzoate carboxy-lyase Rift-related domain	This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [1]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [1]. This entry repr ...	This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [1]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [1]. This entry represents the central RIFT-related domain.	Domain
A, B, C, D, E A, B, C, D, E, F	PF20696	3-octaprenyl-4-hydroxybenzoate carboxy-lyase C-terminal domain (UbiD_C)	3-octaprenyl-4-hydroxybenzoate carboxy-lyase C-terminal domain	This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [1]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [1]. This entry repr ...	This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [1]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [1]. This entry represents the C-terminal domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases	4-hydroxybenzoate decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity 4-hydroxy-3-polyprenylbenzoate decarboxylase activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cation binding ion binding metal ion binding	response to stimulus response to chemical response to toxic substance small molecule biosynthetic process ketone metabolic process ubiquinone biosynthetic process quinone metabolic process biosynthetic process quinone biosynthetic process metabolic process cellular process small molecule metabolic process ubiquinone metabolic process ketone biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR049383	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-like, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR048304	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-like, Rift-related domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR002830	UbiD decarboxylyase family	Family
A, B, C, D, E A, B, C, D, E, F	IPR049381	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-like, C-terminal domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.