6HBC

Structure of the repeat unit in the network formed by CcmM and Rubisco from Synechococcus elongatus

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
D	d6hbcd_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	Anacystis nidulans R2 (Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
E	d6hbce_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	Anacystis nidulans R2 (Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
B	d6hbcb2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	Ribulose 1,5-bisphosphate carboxylase-oxygenase	Anacystis nidulans R2 (Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
B	d6hbcb1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	Ribulose 1,5-bisphosphate carboxylase-oxygenase	Ribulose 1,5-bisphosphate carboxylase-oxygenase	Anacystis nidulans R2 (Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
C	d6hbcc2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	Ribulose 1,5-bisphosphate carboxylase-oxygenase	Anacystis nidulans R2 (Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
C	d6hbcc1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	Ribulose 1,5-bisphosphate carboxylase-oxygenase	Ribulose 1,5-bisphosphate carboxylase-oxygenase	Anacystis nidulans R2 (Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	RuBisCO_small	e6hbcD1	A: a+b two layers	X: Reverse ferredoxin	H: RuBisCO, small subunit (From Topology)	T: RuBisCO, small subunit	F: RuBisCO_small	ECOD (1.6)
E	RuBisCO_small	e6hbcE1	A: a+b two layers	X: Reverse ferredoxin	H: RuBisCO, small subunit (From Topology)	T: RuBisCO, small subunit	F: RuBisCO_small	ECOD (1.6)
A	RuBisCO_small	e6hbcA1	A: a+b two layers	X: Reverse ferredoxin	H: RuBisCO, small subunit (From Topology)	T: RuBisCO, small subunit	F: RuBisCO_small	ECOD (1.6)
B	RuBisCO_large_N	e6hbcB1	A: a+b two layers	X: Alpha-beta plaits	H: RuBisCO, large subunit, small (N-terminal) domain (From Topology)	T: RuBisCO, large subunit, small (N-terminal) domain	F: RuBisCO_large_N	ECOD (1.6)
B	RuBisCO_large	e6hbcB2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: RuBisCO_large	ECOD (1.6)
C	RuBisCO_large_N	e6hbcC1	A: a+b two layers	X: Alpha-beta plaits	H: RuBisCO, large subunit, small (N-terminal) domain (From Topology)	T: RuBisCO, large subunit, small (N-terminal) domain	F: RuBisCO_large_N	ECOD (1.6)
C	RuBisCO_large	e6hbcC2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: RuBisCO_large	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.190.10	Alpha Beta	2-Layer Sandwich	Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase	Ribulose bisphosphate carboxylase, small subunit	CATH (4.3.0)
E	3.30.190.10	Alpha Beta	2-Layer Sandwich	Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase	Ribulose bisphosphate carboxylase, small subunit	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)
C	3.30.70.150	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RuBisCO large subunit, N-terminal domain	CATH (4.3.0)
C	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
D, E	PF00101	Ribulose bisphosphate carboxylase, small chain (RuBisCO_small)	Ribulose bisphosphate carboxylase, small chain	-	Domain
A	PF00101	Ribulose bisphosphate carboxylase, small chain (RuBisCO_small)	Ribulose bisphosphate carboxylase, small chain	-	Domain
B, C	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
B, C	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
D, E	Ribulose 1,5-bisphosphate carboxylase small subunit	ribulose-bisphosphate carboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	cellular metabolic process metabolic process cellular process cellular metabolic compound salvage photorespiration carbohydrate metabolic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process organic substance metabolic process biosynthetic process reductive pentose-phosphate cycle organic substance biosynthetic process cellular metabolic process metabolic process cellular process cellular metabolic compound salvage photorespiration carbohydrate metabolic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process organic substance metabolic process biosynthetic process reductive pentose-phosphate cycle organic substance biosynthetic process carbon fixation	intracellular organelle bacterial microcompartment intracellular anatomical structure organelle carboxysome intracellular non-membrane-bounded organelle cellular anatomical entity non-membrane-bounded organelle
A	Carbon dioxide concentrating mechanism protein CcmM	structural molecule activity structural constituent of carboxysome shell	photosynthesis cellular metabolic process metabolic process cellular process organic substance metabolic process carbon fixation	intracellular organelle bacterial microcompartment intracellular anatomical structure organelle carboxysome intracellular non-membrane-bounded organelle cellular anatomical entity non-membrane-bounded organelle
B, C	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	cellular metabolic process metabolic process cellular process cellular metabolic compound salvage photorespiration carbohydrate metabolic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process organic substance metabolic process biosynthetic process reductive pentose-phosphate cycle organic substance biosynthetic process cellular metabolic process metabolic process cellular process cellular metabolic compound salvage photorespiration carbohydrate metabolic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process organic substance metabolic process biosynthetic process reductive pentose-phosphate cycle organic substance biosynthetic process carbon fixation	intracellular organelle bacterial microcompartment intracellular anatomical structure organelle carboxysome intracellular non-membrane-bounded organelle cellular anatomical entity non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, E	IPR036385	Ribulose bisphosphate carboxylase, small subunit superfamily	Homologous Superfamily
D, E	IPR024681	Ribulose bisphosphate carboxylase, small subunit	Family
D, E	IPR000894	Ribulose bisphosphate carboxylase small subunit, domain	Domain
A	IPR036385	Ribulose bisphosphate carboxylase, small subunit superfamily	Homologous Superfamily
A	IPR011004	Trimeric LpxA-like superfamily	Homologous Superfamily
A	IPR047223	Carbonic anhydrase, gamma-class, LbH domain	Domain
A	IPR017156	Carboxysome assembly protein CcmM	Family
A	IPR000894	Ribulose bisphosphate carboxylase small subunit, domain	Domain
B, C	IPR020888	Ribulose bisphosphate carboxylase large subunit, type I	Family
B, C	IPR036376	Ribulose bisphosphate carboxylase, large subunit, C-terminal domain superfamily	Homologous Superfamily
B, C	IPR020878	Ribulose bisphosphate carboxylase, large chain, active site	Active Site
B, C	IPR000685	Ribulose bisphosphate carboxylase, large subunit, C-terminal	Domain
B, C	IPR033966	RuBisCO	Family
B, C	IPR017443	Ribulose bisphosphate carboxylase, large subunit, ferrodoxin-like N-terminal	Domain
B, C	IPR036422	RuBisCO large subunit, N-terminal domain superfamily	Homologous Superfamily

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.