5MZ2 | pdb_00005mz2

Rubisco from Thalassiosira antarctica

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5mz2a2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
A	d5mz2a1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
B [auth C]	d5mz2c2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
B [auth C]	d5mz2c1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
C [auth H]	d5mz2h2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
C [auth H]	d5mz2h1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
D [auth F]	d5mz2f2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
D [auth F]	d5mz2f1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
E [auth D]	d5mz2d2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
E [auth D]	d5mz2d1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
F [auth B]	d5mz2b2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
F [auth B]	d5mz2b1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
G [auth E]	d5mz2e2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
G [auth E]	d5mz2e1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
H [auth G]	d5mz2g2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	RuBisCo, C-terminal domain	RuBisCo, large subunit, C-terminal domain	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
H [auth G]	d5mz2g1	Alpha and beta proteins (a+b)	Ferredoxin-like	RuBisCO, large subunit, small (N-terminal) domain	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
I	d5mz2i_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
J [auth O]	d5mz2o_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
K [auth L]	d5mz2l_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
L [auth N]	d5mz2n_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
M	d5mz2m_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
N [auth P]	d5mz2p_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
O [auth J]	d5mz2j_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)
P [auth K]	d5mz2k_	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	automated matches	automated matches	(Thalassiosira antarctica var. borealis ) [TaxId: 555753 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2B (2022-06-29)
J [auth O]	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2B (2022-06-29)
K [auth L]	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2B (2022-06-29)
L [auth N]	SCOP2 Family	RuBisCO, small subunit	8095088	4001455	SCOP2 (2022-06-29)
L [auth N]	SCOP2 Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2 (2022-06-29)
M	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2B (2022-06-29)
N [auth P]	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2B (2022-06-29)
O [auth J]	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	SCOP2B (2022-06-29)
P [auth K]	SCOP2B Superfamily	RuBisCO, small subunit	8095089	3001622	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	SAM_KSR1_N	e5mz2A1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
B [auth C]	SAM_KSR1_N	e5mz2C1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
C [auth H]	SAM_KSR1_N	e5mz2H1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
D [auth F]	SAM_KSR1_N	e5mz2F1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
E [auth D]	CTP_transf_like	e5mz2D1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: CTP_transf_like	ECOD (v294.1)
F [auth B]	SAM_KSR1_N	e5mz2B1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
G [auth E]	SAM_KSR1_N	e5mz2E1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
H [auth G]	SAM_KSR1_N	e5mz2G1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
I	CTP_transf_like	e5mz2I1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: CTP_transf_like	ECOD (v294.1)
J [auth O]	SAM_KSR1_N	e5mz2O1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
K [auth L]	SAM_KSR1_N	e5mz2L1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
L [auth N]	SAM_KSR1_N	e5mz2N1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
M	SAM_KSR1_N	e5mz2M1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
N [auth P]	SAM_KSR1_N	e5mz2P1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
O [auth J]	SAM_KSR1_N	e5mz2J1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)
P [auth K]	SAM_KSR1_N	e5mz2K1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SAM_KSR1_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	Rubisco large subunit	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding monooxygenase activity oxidoreductase activity catalytic activity ribulose-bisphosphate carboxylase activity carboxy-lyase activity lyase activity carbon-carbon lyase activity	carbohydrate metabolic process biosynthetic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process metabolic process cellular process carbon fixation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast
I, J [auth O], K [auth L], L [auth N], M, I, J [auth O], K [auth L], L [auth N], M, N [auth P], O [auth J], P [auth K]	Rubisco small subunit	ribulose-bisphosphate carboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	carbohydrate metabolic process biosynthetic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process metabolic process cellular process carbon fixation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast

InterPro: Protein Family Classification InterPro Database Homepage

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

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	CSO	Parent Component: CYS RESID: AA0205 PSI-MOD : L-cysteine sulfenic acid MOD:00210
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	HLU	Parent Component: LEU RESID: AA0205
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	HYP	Parent Component: PRO RESID: AA0205 , AA0030 PSI-MOD : L-cysteine sulfenic acid MOD:00210 , 4-hydroxy-L-proline MOD:00039
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	KCX	Parent Component: LYS RESID: AA0205 , AA0030
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	LYO	Parent Component: LYS RESID: AA0205 , AA0030
A, B [auth C], C [auth H], D [auth F], E [auth D], A, B [auth C], C [auth H], D [auth F], E [auth D], F [auth B], G [auth E], H [auth G]	M3L	Parent Component: LYS RESID: AA0205 , AA0030 , AA0074 PSI-MOD : L-cysteine sulfenic acid MOD:00210 , 4-hydroxy-L-proline MOD:00039 , N6,N6,N6-trimethyl-L-lysine MOD:00083