7SA3 | pdb_00007sa3

Structure of a monomeric photosystem II core complex from a cyanobacterium acclimated to far-red light

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Bacterial photosystem II reaction centre, L and M subunits	8105699	4002035	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8105700	3000736	SCOP2 (2022-06-29)
B	SCOP2 Family	Photosystem II antenna protein-like	8105701	4002735	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Photosystem II antenna protein-like	8105702	3001674	SCOP2 (2022-06-29)
C	SCOP2 Family	Photosystem II antenna protein-like	8105703	4002735	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Photosystem II antenna protein-like	8105704	3001674	SCOP2 (2022-06-29)
D	SCOP2 Family	Bacterial photosystem II reaction centre, L and M subunits	8105705	4002035	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8105706	3000736	SCOP2 (2022-06-29)
F	SCOP2 Family	Cytochrome b559 subunits	8105707	4002681	SCOP2 (2022-06-29)
F	SCOP2 Superfamily	Cytochrome b559 subunits	8105708	3001602	SCOP2 (2022-06-29)
H [auth K]	SCOP2 Family	PsbK-like	8105719	4002673	SCOP2 (2022-06-29)
H [auth K]	SCOP2 Superfamily	Photosystem II reaction center protein K, PsbK	8105720	3001585	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)
A	Photo_RC	e7sa3A1	A: alpha bundles	X: Bacterial photosystem II reaction centre L and M subunits-like (From Topology)	H: Bacterial photosystem II reaction centre L and M subunits-like (From Topology)	T: Bacterial photosystem II reaction centre L and M subunits-like	F: Photo_RC	ECOD (1.6)
B	PSII_1st	e7sa3B1	A: alpha bundles	X: Photosystem II antenna protein-like (From Topology)	H: Photosystem II antenna protein-like (From Topology)	T: Photosystem II antenna protein-like	F: PSII_1st	ECOD (1.6)
B	PSII_2nd	e7sa3B2	A: a+b two layers	X: Photosystem II antenna protein PsbB insertion domain (From Topology)	H: Photosystem II antenna protein PsbB insertion domain (From Topology)	T: Photosystem II antenna protein PsbB insertion domain	F: PSII_2nd	ECOD (1.6)
C	PSII_1st	e7sa3C1	A: alpha bundles	X: Photosystem II antenna protein-like (From Topology)	H: Photosystem II antenna protein-like (From Topology)	T: Photosystem II antenna protein-like	F: PSII_1st	ECOD (1.6)
D	Photo_RC	e7sa3D1	A: alpha bundles	X: Bacterial photosystem II reaction centre L and M subunits-like (From Topology)	H: Bacterial photosystem II reaction centre L and M subunits-like (From Topology)	T: Bacterial photosystem II reaction centre L and M subunits-like	F: Photo_RC	ECOD (1.6)
E	Cytochrom_B559a	e7sa3E1	A: extended segments	X: Cytochrome b559 subunits (From Topology)	H: Cytochrome b559 subunits (From Topology)	T: Cytochrome b559 subunits	F: Cytochrom_B559a	ECOD (1.6)
F	Cytochrom_B559	e7sa3F1	A: extended segments	X: Cytochrome b559 subunits (From Topology)	H: Cytochrome b559 subunits (From Topology)	T: Cytochrome b559 subunits	F: Cytochrom_B559	ECOD (1.6)
G [auth I]	PsbI	e7sa3I1	A: extended segments	X: Photosystem II reaction center protein I, PsbI (From Topology)	H: Photosystem II reaction center protein I, PsbI (From Topology)	T: Photosystem II reaction center protein I, PsbI	F: PsbI	ECOD (1.6)
H [auth K]	PsbK	e7sa3K1	A: extended segments	X: Photosystem II reaction center protein K, PsbK (From Topology)	H: Photosystem II reaction center protein K, PsbK (From Topology)	T: Photosystem II reaction center protein K, PsbK	F: PsbK	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
C	PF00421	Photosystem II protein (PSII)	Photosystem II protein	-	Family
D	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
E	PF00284	Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit (Cytochrom_B559a)	Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit	-	Family
G [auth I]	PF02532	Photosystem II reaction centre I protein (PSII 4.8 kDa protein) (PsbI)	Photosystem II reaction centre I protein (PSII 4.8 kDa protein)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Photosystem q(B) protein	oxidoreductase activity catalytic activity chlorophyll binding binding tetrapyrrole binding cation binding ion binding metal ion binding small molecule binding	response to stimulus response to chemical response to stress response to herbicide response to toxic substance photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain photosynthetic electron transport in photosystem II metabolic process cellular process generation of precursor metabolites and energy	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
B	Photosystem II CP47 reaction center protein	chlorophyll binding binding tetrapyrrole binding	photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain photosynthetic electron transport in photosystem II metabolic process cellular process generation of precursor metabolites and energy	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
C	Photosystem II CP43 reaction center protein	chlorophyll binding binding tetrapyrrole binding cation binding ion binding metal ion binding small molecule binding	photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain photosynthetic electron transport in photosystem II metabolic process cellular process generation of precursor metabolites and energy	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
D	Photosystem II D2 protein	oxidoreductase activity oxygen evolving activity catalytic activity chlorophyll binding binding tetrapyrrole binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain photosynthetic electron transport in photosystem II metabolic process cellular process generation of precursor metabolites and energy	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
E	Cytochrome b559 subunit alpha	binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain metabolic process cellular process generation of precursor metabolites and energy	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
F	Cytochrome b559 subunit beta	binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain metabolic process cellular process generation of precursor metabolites and energy	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
G [auth I]	Photosystem II reaction center protein I	-	photosynthesis metabolic process cellular process	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
H [auth K]	Photosystem II reaction center protein K	-	photosynthesis metabolic process cellular process	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle photosystem II reaction center intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm
I [auth N]	Unknown	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
A	IPR005867	Photosystem II protein D1	Family
A	IPR000484	Photosynthetic reaction centre, L/M	Family
A	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
A	IPR055266	Photosystem II protein D1/D2	Family
B	IPR036001	Photosystem antenna protein-like superfamily	Homologous Superfamily
B	IPR000932	Photosystem antenna protein-like	Family
B	IPR017486	Photosystem II CP47 reaction centre protein	Family
C	IPR036001	Photosystem antenna protein-like superfamily	Homologous Superfamily
C	IPR000932	Photosystem antenna protein-like	Family
C	IPR005869	Photosystem II CP43 reaction centre protein	Family
C	IPR044900	Photosystem II CP43 reaction centre protein superfamily	Homologous Superfamily
D	IPR005868	Photosystem II D2	Family
D	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
D	IPR000484	Photosynthetic reaction centre, L/M	Family
D	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
D	IPR055266	Photosystem II protein D1/D2	Family
E	IPR013081	Photosystem II cytochrome b559, N-terminal	Domain
E	IPR006217	Photosystem II cytochrome b559, alpha subunit	Family
E	IPR013082	Photosystem II cytochrome b559, alpha subunit, lumenal region	Domain
E	IPR037025	Photosystem II cytochrome b559, alpha subunit superfamily	Homologous Superfamily
E	IPR006216	Photosystem II cytochrome b559, conserved site	Conserved Site
F	IPR006241	Photosystem II cytochrome b559, beta subunit	Family
F	IPR013081	Photosystem II cytochrome b559, N-terminal	Domain
F	IPR006216	Photosystem II cytochrome b559, conserved site	Conserved Site
G [auth I]	IPR037271	Photosystem II PsbI superfamily	Homologous Superfamily
G [auth I]	IPR003686	Photosystem II PsbI	Family
H [auth K]	IPR037270	Photosystem II PsbK superfamily	Homologous Superfamily
H [auth K]	IPR003687	Photosystem II PsbK	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E A, B, C, D, E, F, G [auth I], H [auth K]	OPM	Transmembrane	Alpha-helical polytopic	Photosystems	Photosystem II

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G [auth I], H [auth K]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G [auth I], H [auth K]	MemProtMD	Annotated as membrane protein by MemProtMD

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.

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Structure of a monomeric photosystem II core complex from a cyanobacterium acclimated to far-red light

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Membrane Protein Annotation: OPM OPM Database Homepage

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

7SA3 | pdb_00007sa3