Annotations: 4IWS

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF01977	e4iwsA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PF01977	ECOD (1.6)
A	PF20696	e4iwsA4	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: UbiD C-terminal domain-like (From Topology)	T: UbiD C-terminal domain-like	F: PF20696	ECOD (1.6)
A	PF20695	e4iwsA3	A: a+b two layers	X: N-terminal subdomain in UbiD middle domain (From Topology)	H: N-terminal subdomain in UbiD middle domain (From Topology)	T: N-terminal subdomain in UbiD middle domain	F: PF20695	ECOD (1.6)
B	PF01977	e4iwsB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PF01977	ECOD (1.6)
B	PF20696	e4iwsB2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: UbiD C-terminal domain-like (From Topology)	T: UbiD C-terminal domain-like	F: PF20696	ECOD (1.6)
B	PF20695	e4iwsB4	A: a+b two layers	X: N-terminal subdomain in UbiD middle domain (From Topology)	H: N-terminal subdomain in UbiD middle domain (From Topology)	T: N-terminal subdomain in UbiD middle domain	F: PF20695	ECOD (1.6)
C	PF01977	e4iwsC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PF01977	ECOD (1.6)
C	PF20696	e4iwsC3	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: UbiD C-terminal domain-like (From Topology)	T: UbiD C-terminal domain-like	F: PF20696	ECOD (1.6)
C	PF20695	e4iwsC4	A: a+b two layers	X: N-terminal subdomain in UbiD middle domain (From Topology)	H: N-terminal subdomain in UbiD middle domain (From Topology)	T: N-terminal subdomain in UbiD middle domain	F: PF20695	ECOD (1.6)
D	PF01977	e4iwsD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: PF01977	ECOD (1.6)
D	PF20696	e4iwsD4	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: UbiD C-terminal domain-like (From Topology)	T: UbiD C-terminal domain-like	F: PF20696	ECOD (1.6)
D	PF20695	e4iwsD3	A: a+b two layers	X: N-terminal subdomain in UbiD middle domain (From Topology)	H: N-terminal subdomain in UbiD middle domain (From Topology)	T: N-terminal subdomain in UbiD middle domain	F: PF20695	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.1670.10	Alpha Beta	3-Layer(aba) Sandwich	UbiD C-terminal domain-like	UbiD C-terminal domain-like	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)
B	3.40.1670.10	Alpha Beta	3-Layer(aba) Sandwich	UbiD C-terminal domain-like	UbiD C-terminal domain-like	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)
C	3.40.1670.10	Alpha Beta	3-Layer(aba) Sandwich	UbiD C-terminal domain-like	UbiD C-terminal domain-like	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)
D	3.40.1670.10	Alpha Beta	3-Layer(aba) Sandwich	UbiD C-terminal domain-like	UbiD C-terminal domain-like	CATH (4.3.0)
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)

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	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	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	PA0254	3-octaprenyl-4-hydroxybenzoate carboxy-lyase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity cation binding ion binding binding metal ion binding small molecule binding	small molecule biosynthetic process cellular biosynthetic process cellular metabolic process ubiquinone biosynthetic process quinone metabolic process cellular ketone metabolic process organic substance metabolic process biosynthetic process quinone biosynthetic process organic substance biosynthetic process small molecule metabolic process metabolic process cellular process ubiquinone metabolic process small molecule biosynthetic process cellular biosynthetic process cellular metabolic process ubiquinone biosynthetic process quinone metabolic process cellular ketone metabolic process organic substance metabolic process biosynthetic process quinone biosynthetic process organic substance biosynthetic process small molecule metabolic process metabolic process cellular process ubiquinone metabolic process ketone biosynthetic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

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	IPR002830	UbiD decarboxylyase family	Family
A, B, C, D	IPR049381	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-like, C-terminal domain	Domain
A, B, C, D	IPR048304	3-octaprenyl-4-hydroxybenzoate carboxy-lyase-likw, Rift-related domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.