5U6G

Crystal Structure of the holo Domain-Swapped Dimer mutant Q108K:K40D Human Cellular Retinol Binding Protein II bound with all trans retinal

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5u6ga_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d5u6gb_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d5u6gc_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d5u6gd_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth H]	d5u6gh_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth E]	d5u6ge_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G [auth F]	d5u6gf_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J	d5u6gj_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K	d5u6gk_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
L	d5u6gl_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H [auth G]	d5u6gg_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I	d5u6gi_	All beta proteins	Lipocalins	Lipocalins	Fatty acid binding protein-like	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
E [auth H]	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
G [auth F]	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Lipocalins	8062823	3001332	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Lipocalins	8062823	3001332	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	PF00061	e5u6gA1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
B	PF00061	e5u6gB1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
C	PF00061	e5u6gC1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
D	PF00061	e5u6gD1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
E [auth H]	PF00061	e5u6gH1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
F [auth E]	PF00061	e5u6gE1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
G [auth F]	PF00061	e5u6gF1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
J	PF00061	e5u6gJ1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
K	PF00061	e5u6gK1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
L	PF00061	e5u6gL1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
H [auth G]	PF00061	e5u6gG1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)
I	PF00061	e5u6gI1	A: beta barrels	X: Lipocalins/Streptavidin	H: Lipocalins (From Topology)	T: Lipocalins	F: PF00061	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
B	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
C	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
D	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
E [auth H]	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
F [auth E]	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
G [auth F]	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
J	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
K	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
L	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
H [auth G]	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)
I	2.40.128.20	Mainly Beta	Beta Barrel	Lipocalin	Calycin beta-barrel core domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	PF00061	Lipocalin / cytosolic fatty-acid binding protein family (Lipocalin)	Lipocalin / cytosolic fatty-acid binding protein family	Lipocalins are transporters for small hydrophobic molecules, such as lipids, steroid hormones, bilins, and retinoids. The family also encompasses the enzyme prostaglandin D synthase (EC:5.3.99.2). Alignment subsumes both the lipocalin and fatty acid ...	Lipocalins are transporters for small hydrophobic molecules, such as lipids, steroid hormones, bilins, and retinoids. The family also encompasses the enzyme prostaglandin D synthase (EC:5.3.99.2). Alignment subsumes both the lipocalin and fatty acid binding protein signatures from PROSITE. This is supported on structural and functional grounds. The structure is an eight-stranded beta barrel.	Domain
H [auth G], I	PF00061	Lipocalin / cytosolic fatty-acid binding protein family (Lipocalin)	Lipocalin / cytosolic fatty-acid binding protein family	Lipocalins are transporters for small hydrophobic molecules, such as lipids, steroid hormones, bilins, and retinoids. The family also encompasses the enzyme prostaglandin D synthase (EC:5.3.99.2). Alignment subsumes both the lipocalin and fatty acid ...	Lipocalins are transporters for small hydrophobic molecules, such as lipids, steroid hormones, bilins, and retinoids. The family also encompasses the enzyme prostaglandin D synthase (EC:5.3.99.2). Alignment subsumes both the lipocalin and fatty acid binding protein signatures from PROSITE. This is supported on structural and functional grounds. The structure is an eight-stranded beta barrel.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	Retinol-binding protein 2	vitamin binding binding retinal binding isoprenoid binding retinoid binding lipid binding small molecule binding fatty acid binding organic acid binding ion binding anion binding carboxylic acid binding monocarboxylic acid binding alcohol binding vitamin binding binding retinal binding isoprenoid binding retinoid binding lipid binding small molecule binding fatty acid binding organic acid binding ion binding anion binding carboxylic acid binding monocarboxylic acid binding alcohol binding retinol binding	organic anion transport carboxylic acid transport transport organic substance transport lipid localization lipid transport establishment of localization organic acid transport localization monocarboxylic acid transport fatty acid transport macromolecule localization developmental process epidermis development organic anion transport carboxylic acid transport transport organic substance transport lipid localization lipid transport establishment of localization organic acid transport localization monocarboxylic acid transport fatty acid transport macromolecule localization developmental process epidermis development anatomical structure development tissue development diterpenoid metabolic process fat-soluble vitamin metabolic process cellular metabolic process primary metabolic process vitamin A metabolic process vitamin metabolic process organic substance metabolic process retinoid metabolic process cellular lipid metabolic process metabolic process cellular process small molecule metabolic process terpenoid metabolic process isoprenoid metabolic process lipid metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
H [auth G], I	Retinol-binding protein 2	vitamin binding binding retinal binding isoprenoid binding retinoid binding lipid binding small molecule binding fatty acid binding organic acid binding ion binding anion binding carboxylic acid binding monocarboxylic acid binding alcohol binding vitamin binding binding retinal binding isoprenoid binding retinoid binding lipid binding small molecule binding fatty acid binding organic acid binding ion binding anion binding carboxylic acid binding monocarboxylic acid binding alcohol binding retinol binding	organic anion transport carboxylic acid transport transport organic substance transport lipid localization lipid transport establishment of localization organic acid transport localization monocarboxylic acid transport fatty acid transport macromolecule localization developmental process epidermis development organic anion transport carboxylic acid transport transport organic substance transport lipid localization lipid transport establishment of localization organic acid transport localization monocarboxylic acid transport fatty acid transport macromolecule localization developmental process epidermis development anatomical structure development tissue development diterpenoid metabolic process fat-soluble vitamin metabolic process cellular metabolic process primary metabolic process vitamin A metabolic process vitamin metabolic process organic substance metabolic process retinoid metabolic process cellular lipid metabolic process metabolic process cellular process small molecule metabolic process terpenoid metabolic process isoprenoid metabolic process lipid metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	IPR000463	Cytosolic fatty-acid binding	Domain
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	IPR012674	Calycin	Homologous Superfamily
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	IPR031259	Intracellular lipid binding protein	Family
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	IPR000566	Lipocalin/cytosolic fatty-acid binding domain	Domain
H [auth G], I	IPR000463	Cytosolic fatty-acid binding	Domain
H [auth G], I	IPR012674	Calycin	Homologous Superfamily
H [auth G], I	IPR031259	Intracellular lipid binding protein	Family
H [auth G], I	IPR000566	Lipocalin/cytosolic fatty-acid binding domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E [auth H], A, B, C, D, E [auth H], F [auth E], G [auth F], J, K, L	Pharos: P50120	psoriasis ulcerative colitis
H [auth G], I	Pharos: P50120	psoriasis ulcerative colitis

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 R01GM133198.