Annotations: 8ILB

The complexes of RbcL, AtRaf1 and AtBSD2 (LFB)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
R	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	DnaJ/Hsp40 cysteine-rich domain-like	8102247	3001550	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RuBisCO, large subunit, small (N-terminal) domain	8035453	3001258	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RuBisCo, C-terminal domain	8043701	3000552	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)
R	Cullin_AB	e8ilbR1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
Q	Cullin_AB	e8ilbQ1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
P	Cullin_AB	e8ilbP1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
O	Cullin_AB	e8ilbO1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
I	Cullin_AB	e8ilbI1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
H	Cullin_AB	e8ilbH1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
G	Cullin_AB	e8ilbG1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
F	Cullin_AB	e8ilbF1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
N	Cullin_AB	e8ilbN1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
E	Cullin_AB	e8ilbE1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
M	Cullin_AB	e8ilbM1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
L	Cullin_AB	e8ilbL1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
K	Cullin_AB	e8ilbK1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
J	Cullin_AB	e8ilbJ1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
D	Cullin_AB	e8ilbD1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
C	Cullin_AB	e8ilbC1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
B	Cullin_AB	e8ilbB1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)
A	Cullin_AB	e8ilbA1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
F, G, H, I, O F, G, H, I, O, P, Q, R	PF25436	BSD2 cysteine rich domain (BSD2_CRD)	BSD2 cysteine rich domain	This domain is found in the chloroplastic Protein BUNDLE SHEATH DEFECTIVE 2 (BSD2) from Arabidopsis thaliana and related proteins. BSD2 is a chloroplast chaperone required for RuBisCo biogenesis and translational regulation of the RuBisCo large subun ...	This domain is found in the chloroplastic Protein BUNDLE SHEATH DEFECTIVE 2 (BSD2) from Arabidopsis thaliana and related proteins. BSD2 is a chloroplast chaperone required for RuBisCo biogenesis and translational regulation of the RuBisCo large subunit [1]. It has a role in stabilizing an end-state assembly intermediate of eight RuBisCo large subunits until the small subunits become available. The structure of this domain has been determined and it has a hairpin architecture arranged around two Zn atoms, each coordinated by four cysteines [1]. Members with this domain contain a highly conserved CxxCxGxG sequence motif.	Domain
E, N	PF18579	Rubisco accumulation factor 1 helix turn helix domain (Raf1_HTH)	Rubisco accumulation factor 1 helix turn helix domain	This is helix turn helix domain found in alpha helical region of Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates di ...	This is helix turn helix domain found in alpha helical region of Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. The alpha-domains mediate the majority of functionally important contacts with RbcL (Rubisco large subunits) by bracketing each RbcL dimer at the top and bottom. The alpha-domain alone is essentially inactive [1].	Domain
E, N	PF18578	Rubisco accumulation factor 1 alpha helical domain (Raf1_N)	Rubisco accumulation factor 1 alpha helical domain	This is the N-terminal alpha helical domain found in Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. ...	This is the N-terminal alpha helical domain found in Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. The alpha-domains mediate the majority of functionally important contacts with RbcL (Rubisco large subunits) by bracketing each RbcL dimer at the top and bottom. The alpha-domain alone is essentially inactive [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F, G, H, I, O F, G, H, I, O, P, Q, R	Protein BUNDLE SHEATH DEFECTIVE 2, chloroplastic	protein folding chaperone cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	cellular component organization cellular component biogenesis cellular component assembly ribulose bisphosphate carboxylase complex assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis protein folding biosynthetic process metabolic process primary metabolic process protein metabolic process macromolecule metabolic process cellular component organization cellular component biogenesis cellular component assembly ribulose bisphosphate carboxylase complex assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis protein folding biosynthetic process metabolic process primary metabolic process protein metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process protein maturation	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex protein folding chaperone complex intracellular protein-containing complex membrane-bounded organelle intracellular organelle plastid organelle intracellular membrane-bounded organelle chloroplast plastid stroma cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex protein folding chaperone complex intracellular protein-containing complex membrane-bounded organelle intracellular organelle plastid organelle intracellular membrane-bounded organelle chloroplast plastid stroma chloroplast stroma
E, N	Rubisco accumulation factor 1.2, chloroplastic	-	cellular component organization cellular component biogenesis cellular component assembly ribulose bisphosphate carboxylase complex assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle plastid organelle intracellular membrane-bounded organelle chloroplast plastid stroma chloroplast stroma
A, B, C, D, J A, B, C, D, J, K, L, M	Ribulose bisphosphate carboxylase large chain	cation binding magnesium ion binding ion binding binding metal ion binding small molecule 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	intracellular organelle bacterial microcompartment cellular anatomical structure intracellular anatomical structure organelle carboxysome membraneless organelle intracellular membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F, G, H, I, O F, G, H, I, O, P, Q, R	IPR057453	BSD2, cysteine rich domain	Domain
F, G, H, I, O F, G, H, I, O, P, Q, R	IPR036410	Heat shock protein DnaJ, cysteine-rich domain superfamily	Homologous Superfamily
E, N	IPR037494	Rubisco accumulation factor 1	Family
E, N	IPR040858	Rubisco accumulation factor 1, C-terminal	Domain
E, N	IPR041358	Rubisco accumulation factor 1, alpha-helical domain	Domain
E, N	IPR040781	Rubisco accumulation factor 1, helix turn helix domain	Domain
A, B, C, D, J A, B, C, D, J, K, L, M	IPR020888	Ribulose bisphosphate carboxylase large subunit, type I	Family
A, B, C, D, J A, B, C, D, J, K, L, M	IPR036376	Ribulose bisphosphate carboxylase, large subunit, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, J A, B, C, D, J, K, L, M	IPR020878	Ribulose bisphosphate carboxylase, large chain, active site	Active Site
A, B, C, D, J A, B, C, D, J, K, L, M	IPR000685	Ribulose bisphosphate carboxylase, large subunit, C-terminal	Domain
A, B, C, D, J A, B, C, D, J, K, L, M	IPR033966	RuBisCO	Family
A, B, C, D, J A, B, C, D, J, K, L, M	IPR017443	Ribulose bisphosphate carboxylase, large subunit, ferrodoxin-like N-terminal	Domain
A, B, C, D, J A, B, C, D, J, K, L, M	IPR036422	RuBisCO large subunit, N-terminal domain superfamily	Homologous Superfamily