4ZAC | pdb_00004zac

Structure of S. cerevisiae Fdc1 with the prenylated-flavin cofactor in the iminium form.

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	GTP_EFTU	e4zacD1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: GTP_EFTU	ECOD (v294.1)
C	GTP_EFTU	e4zacC1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: GTP_EFTU	ECOD (v294.1)
B	GTP_EFTU	e4zacB1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: GTP_EFTU	ECOD (v294.1)
A	GTP_EFTU	e4zacA1	A: a/b three-layered sandwiches	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: GTP_EFTU	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.5.4570	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
C	1.20.5.4570	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
B	1.20.5.4570	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
A	1.20.5.4570	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	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	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
A, B, C, D	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Ferulic acid decarboxylase 1	cation binding ion binding binding metal ion binding small molecule binding carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	catabolic process oxoacid metabolic process ferulate metabolic process carboxylic acid metabolic process organic acid metabolic process organic acid catabolic process ether catabolic process phenol-containing compound catabolic process ferulate catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process phenol-containing compound metabolic process olefinic compound catabolic process olefinic compound metabolic process catabolic process oxoacid metabolic process ferulate metabolic process carboxylic acid metabolic process organic acid metabolic process organic acid catabolic process ether catabolic process phenol-containing compound catabolic process ferulate catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process phenol-containing compound metabolic process olefinic compound catabolic process olefinic compound metabolic process metabolic process cellular process small molecule metabolic process monocarboxylic acid metabolic process small molecule catabolic process phenylpropanoid catabolic process phenylpropanoid metabolic process benzene-containing compound metabolic process secondary metabolic process cinnamic acid catabolic process cinnamic acid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR049383	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-like, N-terminal domain	Domain
A, B, C, D	IPR032903	Ferulic acid decarboxylase-like	Family
A, B, C, D	IPR048304	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-like, Rift-related domain	Domain
A, B, C, D	IPR002830	UbiD decarboxylyase family	Family
A, B, C, D	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.