5IU0 | pdb_00005iu0

Rubisco from Arabidopsis thaliana

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth J]	d5iu0j_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
D [auth I]	d5iu0i_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d5iu0a2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d5iu0a1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d5iu0b2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d5iu0b1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth J]	SCOP2B Superfamily	RuBisCO, small subunit	8069971	3001622	SCOP2B (2022-06-29)
D [auth I]	SCOP2 Family	RuBisCO, small subunit	8069970	4001455	SCOP2 (2022-06-29)
D [auth I]	SCOP2 Superfamily	RuBisCO, small subunit	8069971	3001622	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth J]		e5iu0J1	A: gH main domain	X: gH main domain	H: gH main domain	T: Tubulin_C	F:	ECOD (20:10:01)
D [auth I]		e5iu0I1	A: gH main domain	X: gH main domain	H: gH main domain	T: Tubulin_C	F:	ECOD (20:10:01)
A		e5iu0A1	A: gH main domain	X: gH main domain	H: gH main domain	T: Tubulin_C	F:	ECOD (20:10:01)
B		e5iu0B1	A: gH main domain	X: gH main domain	H: gH main domain	T: Tubulin_C	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth J]	3.30.190.10	Alpha Beta	2-Layer Sandwich	Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase	Ribulose bisphosphate carboxylase, small subunit	CATH (4.3.0)
D [auth I]	3.30.190.10	Alpha Beta	2-Layer Sandwich	Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase	Ribulose bisphosphate carboxylase, small subunit	CATH (4.3.0)
A	3.30.70.150	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RuBisCO large subunit, N-terminal domain	CATH (4.3.0)
A	3.20.20.110	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Ribulose bisphosphate carboxylase, large subunit, C-terminal domain	CATH (4.3.0)
B	3.30.70.150	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RuBisCO large subunit, N-terminal domain	CATH (4.3.0)
B	3.20.20.110	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Ribulose bisphosphate carboxylase, large subunit, C-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth J], D [auth I]	PF00101	Ribulose bisphosphate carboxylase, small chain (RuBisCO_small)	Ribulose bisphosphate carboxylase, small chain		Domain
A, B	PF02788	Ribulose bisphosphate carboxylase large chain, N-terminal domain (RuBisCO_large_N)	Ribulose bisphosphate carboxylase large chain, N-terminal domain	The N-terminal domain of RuBisCO large chain adopts a ferredoxin-like fold.	Domain
A, B	PF00016	Ribulose bisphosphate carboxylase large chain, catalytic domain (RuBisCO_large)	Ribulose bisphosphate carboxylase large chain, catalytic domain	The C-terminal domain of RuBisCO large chain is the catalytic domain adopting a TIM barrel fold.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth J], D [auth I]	Ribulose bisphosphate carboxylase small chain 1B, chloroplastic	protein binding binding protein domain specific binding RNA binding nucleic acid binding mRNA binding ribulose-bisphosphate carboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	metabolic compound salvage biosynthetic process metabolic process cellular process photorespiration carbohydrate metabolic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process carbon fixation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle plastid stroma chloroplast stroma chloroplast extracellular region apoplast chloroplast envelope membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle plastid stroma chloroplast stroma chloroplast extracellular region apoplast chloroplast envelope organelle envelope plastid envelope membraneless organelle intracellular membraneless organelle thylakoid
A, B	Ribulose bisphosphate carboxylase large chain	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding RNA binding nucleic acid binding mRNA binding ribulose-bisphosphate carboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding RNA binding nucleic acid binding mRNA binding ribulose-bisphosphate carboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity monooxygenase activity oxidoreductase activity	metabolic compound salvage biosynthetic process metabolic process cellular process photorespiration carbohydrate metabolic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process carbon fixation response to abscisic acid response to stimulus metabolic compound salvage biosynthetic process metabolic process cellular process photorespiration carbohydrate metabolic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process carbon fixation response to abscisic acid response to stimulus response to lipid response to hormone response to alcohol response to chemical response to endogenous stimulus response to oxygen-containing compound response to metal ion response to cadmium ion	chloroplast thylakoid membrane membrane-bounded organelle plastid membrane intracellular anatomical structure plastid organelle outer membrane plastid thylakoid membrane plastid thylakoid intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle membraneless organelle plastid envelope chloroplast thylakoid membrane membrane-bounded organelle plastid membrane intracellular anatomical structure plastid organelle outer membrane plastid thylakoid membrane plastid thylakoid intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle membraneless organelle plastid envelope thylakoid chloroplast membrane intracellular membraneless organelle intracellular membrane-bounded organelle thylakoid membrane organelle chloroplast thylakoid outer membrane cytoplasm photosynthetic membrane organelle membrane cytosolic ribosome ribosome cytosol plastid stroma chloroplast stroma extracellular region apoplast chloroplast envelope cell periphery external encapsulating structure plant-type cell wall cell wall

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth J], D [auth I]	IPR024680	Ribulose-1,5-bisphosphate carboxylase small subunit, N-terminal	Domain
C [auth J], D [auth I]	IPR000894	Ribulose bisphosphate carboxylase small subunit, domain	Domain
C [auth J], D [auth I]	IPR036385	Ribulose bisphosphate carboxylase, small subunit superfamily	Homologous Superfamily
C [auth J], D [auth I]	IPR024681	Ribulose bisphosphate carboxylase, small subunit	Family
A, B	IPR020888	Ribulose bisphosphate carboxylase large subunit, type I	Family
A, B	IPR036376	Ribulose bisphosphate carboxylase, large subunit, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR020878	Ribulose bisphosphate carboxylase, large chain, active site	Active Site
A, B	IPR000685	Ribulose bisphosphate carboxylase, large subunit, C-terminal	Domain
A, B	IPR033966	RuBisCO	Family
A, B	IPR017443	Ribulose bisphosphate carboxylase, large subunit, ferrodoxin-like N-terminal	Domain
A, B	IPR036422	RuBisCO large subunit, N-terminal domain superfamily	Homologous Superfamily

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.