6J3Z | pdb_00006j3z

Structure of C2S1M1-type PSII-FCPII supercomplex from diatom

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
EA [auth h]	SCOP2B Superfamily	Photosystem II 10 kDa phosphoprotein PsbH	8094731	3001547	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	Photosystem II 10 kDa phosphoprotein PsbH	8094731	3001547	SCOP2B (2022-06-29)
KA [auth o]	SCOP2B Superfamily	OMPA barrel-like	8095677	3000208	SCOP2B (2022-06-29)
M [auth O]	SCOP2B Superfamily	OMPA barrel-like	8095677	3000208	SCOP2B (2022-06-29)
MA [auth u]	SCOP2B Superfamily	PsbU/PolX domain-like	8094223	3000893	SCOP2B (2022-06-29)
O [auth U]	SCOP2 Family	PsbU-like	8094222	4001403	SCOP2 (2022-06-29)
O [auth U]	SCOP2 Superfamily	PsbU/PolX domain-like	8094223	3000893	SCOP2 (2022-06-29)
NA [auth v]	SCOP2B Superfamily	Cytochrome c	8094925	3000815	SCOP2B (2022-06-29)
P [auth V]	SCOP2B Superfamily	Cytochrome c	8094925	3000815	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)
Z [auth b]	UQ_con	e6j3zb1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
B	UQ_con	e6j3zB1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
BA [auth d]	UQ_con	e6j3zd1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
D	UQ_con	e6j3zD1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
CA [auth e]	UQ_con	e6j3ze1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
E	UQ_con	e6j3zE1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
F	UQ_con	e6j3zF1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
DA [auth f]	UQ_con	e6j3zf1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
EA [auth h]	UQ_con	e6j3zh1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
G [auth H]	UQ_con	e6j3zH1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
FA [auth i]	UQ_con	e6j3zi1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
H [auth I]	UQ_con	e6j3zI1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
I [auth J]	UQ_con	e6j3zJ1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
GA [auth j]	UQ_con	e6j3zj1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
J [auth K]	UQ_con	e6j3zK1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
HA [auth k]	UQ_con	e6j3zk1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
IA [auth l]	UQ_con	e6j3zl1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
K [auth L]	UQ_con	e6j3zL1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
JA [auth m]	UQ_con	e6j3zm1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
L [auth M]	UQ_con	e6j3zM1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
KA [auth o]	UQ_con	e6j3zo1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
M [auth O]	UQ_con	e6j3zO1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
N [auth T]	UQ_con	e6j3zT1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
LA [auth t]	UQ_con	e6j3zt1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
MA [auth u]	UQ_con	e6j3zu1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
O [auth U]	UQ_con	e6j3zU1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
PA [auth x]	UQ_con	e6j3zx1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
R [auth X]	UQ_con	e6j3zX1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
RA [auth q]	UQ_con	e6j3zq1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
T [auth Q]	UQ_con	e6j3zQ1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
U [auth W]	Levi_coat	e6j3zW1	A: alpha arrays	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Levi_coat	ECOD (v295.2)
SA [auth w]	Levi_coat	e6j3zw1	A: alpha arrays	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel	F: Levi_coat	ECOD (v295.2)
AA [auth c]	UQ_con	e6j3zc1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
C	UQ_con	e6j3zC1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
BB [auth 16]	UQ_con	e6j3z161	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
CB [auth 17]	UQ_con	e6j3z171	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
WA [auth 11]	UQ_con	e6j3z111	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
XA [auth 12]	UQ_con	e6j3z121	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
ZA [auth 14]	UQ_con	e6j3z141	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
YA [auth 13]	UQ_con	e6j3z131	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
DB [auth 18]	UQ_con	e6j3z181	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
AB [auth 15]	UQ_con	e6j3z151	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
QA [auth z]	UQ_con	e6j3zz1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
S [auth Z]	UQ_con	e6j3zZ1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
Q [auth Y]	UQ_con	e6j3zY1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
OA [auth y]	UQ_con	e6j3zy1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
NA [auth v]	UQ_con	e6j3zv1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
P [auth V]	UQ_con	e6j3zV1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
A	UQ_con	e6j3zA1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)
Y [auth a]	UQ_con	e6j3za1	A: alpha arrays	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: UQ_con	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, Z [auth b]	Photosystem II chlorophyll protein CP47	-	-	-
BA [auth d], D	Photosystem II reaction center protein D2	-	-	-
CA [auth e], E	Cytochrome b559 subunit alpha	-	-	-
DA [auth f], F	Cytochrome b559 subunit beta	-	-	-
EA [auth h], G [auth H]	Photosystem II reaction center protein H	ion binding binding anion binding phosphate ion binding small molecule binding	regulation of protein stability biological regulation regulation of biological quality protein stabilization photosynthesis metabolic process cellular process	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 chloroplast thylakoid 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 chloroplast thylakoid membrane membrane-bounded organelle plastid membrane plastid organelle outer membrane plastid thylakoid membrane plastid thylakoid organelle envelope bounding membrane of organelle plastid envelope chloroplast intracellular membrane-bounded organelle thylakoid membrane chloroplast thylakoid outer membrane cytoplasm organelle membrane
FA [auth i], H [auth I]	Photosystem II reaction center protein I	-	-	-
GA [auth j], I [auth J]	Photosystem II reaction center protein J	-	-	-
HA [auth k], J [auth K]	Photosystem II reaction center protein K	-	-	-
IA [auth l], K [auth L]	Photosystem II reaction center protein L	-	-	-
JA [auth m], L [auth M]	Photosystem II reaction center protein M	-	-	-
KA [auth o], M [auth O]	Extrinsic protein in photosystem II	-	photosynthesis protein-containing complex organization photosynthesis, light reaction generation of precursor metabolites and energy photosystem II assembly cellular component organization cellular component biogenesis cellular component assembly protein-containing complex assembly cellular process metabolic process cellular component organization or biogenesis regulation of biological process regulation of cellular process photosynthesis protein-containing complex organization photosynthesis, light reaction generation of precursor metabolites and energy photosystem II assembly cellular component organization cellular component biogenesis cellular component assembly protein-containing complex assembly cellular process metabolic process cellular component organization or biogenesis regulation of biological process regulation of cellular process regulation of photosynthesis photosystem II stabilization regulation of photosynthesis, light reaction biological regulation regulation of generation of precursor metabolites and energy regulation of metabolic process	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
LA [auth t], N [auth T]	Photosystem II reaction center protein T	-	-	-
MA [auth u], O [auth U]	Extrinsic protein in photosystem II	-	photosynthesis metabolic process cellular process regulation of biological process regulation of cellular process regulation of photosynthesis photosynthesis, light reaction photosystem II stabilization regulation of photosynthesis, light reaction biological regulation regulation of generation of precursor metabolites and energy generation of precursor metabolites and energy regulation of metabolic process	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 extrinsic component of membrane
PA [auth x], R [auth X]	Photosystem II reaction center X protein	-	photosynthesis metabolic process cellular process	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 chloroplast thylakoid 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 chloroplast thylakoid membrane membrane-bounded organelle plastid membrane plastid organelle outer membrane plastid thylakoid membrane plastid thylakoid organelle envelope bounding membrane of organelle plastid envelope chloroplast intracellular membrane-bounded organelle thylakoid membrane chloroplast thylakoid outer membrane cytoplasm organelle membrane
RA [auth q], T [auth Q]	Extrinsic protein in photosystem II	-	-	-
SA [auth w], U [auth W]	Photosystem II reaction center protein W	-	-	-
TA [auth 5], V [auth 0]	Unknown protein 0	-	-	-
UA [auth 6], W [auth 1]	Unknown protein 1	-	-	-
VA [auth 7], X [auth 2]	Unknown protein 2	-	-	-
EB [auth 19]	Fucoxanthin chlorophyll a/c-binding protein monomer 1	-	-	-
FB [auth 20]	Fucoxanthin chlorophyll a/c-binding protein monomer 2	-	-	-
AA [auth c], C	Photosystem II chlorophyll protein CP43	-	-	-
GB [auth 21]	Fucoxanthin chlorophyll a/c-binding protein monomer 3	-	-	-
AB [auth 15], BB [auth 16], CB [auth 17], DB [auth 18], WA [auth 11], AB [auth 15], BB [auth 16], CB [auth 17], DB [auth 18], WA [auth 11], XA [auth 12], YA [auth 13], ZA [auth 14]	Fucoxanthin chlorophyll a/c-binding protein Lhcf1, FCP1	-	-	-
QA [auth z], S [auth Z]	Photosystem II reaction center protein Z	-	-	-
OA [auth y], Q [auth Y]	Photosystem II reaction center protein Ycf12	-	-	-
NA [auth v], P [auth V]	Cytochrome c-550	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 metabolic process cellular process generation of precursor metabolites and energy cellular respiration energy derivation by oxidation of organic compounds respiratory electron transport chain electron transport chain	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 chloroplast thylakoid 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 chloroplast thylakoid membrane membrane-bounded organelle plastid membrane plastid organelle outer membrane plastid thylakoid membrane plastid thylakoid organelle envelope bounding membrane of organelle plastid envelope chloroplast intracellular membrane-bounded organelle thylakoid membrane chloroplast thylakoid outer membrane cytoplasm organelle membrane
A, Y [auth a]	Photosystem II reaction center protein D1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
EA [auth h], G [auth H]	IPR036863	Photosystem II reaction centre protein H superfamily	Homologous Superfamily
EA [auth h], G [auth H]	IPR001056	Photosystem II reaction centre protein H	Family
KA [auth o], M [auth O]	IPR011250	Outer membrane protein/outer membrane enzyme PagP, beta-barrel	Homologous Superfamily
KA [auth o], M [auth O]	IPR002628	Photosystem II extrinsic protein O	Family
MA [auth u], O [auth U]	IPR010527	Photosystem II PsbU, oxygen evolving complex	Family
PA [auth x], R [auth X]	IPR009518	Photosystem II PsbX	Family
PA [auth x], R [auth X]	IPR023431	Photosystem II PsbX, type 1 subfamily	Family
RA [auth q], T [auth Q]	IPR023222	PsbQ-like domain superfamily	Homologous Superfamily
NA [auth v], P [auth V]	IPR017851	Photosystem II extrinsic protein V, cytochrome c-550 precursor	Family
NA [auth v], P [auth V]	IPR016003	Photosystem II extrinsic protein V, cytochrome c-550 precursor-like	Family
NA [auth v], P [auth V]	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
NA [auth v], P [auth V]	IPR009056	Cytochrome c-like domain	Domain
NA [auth v], P [auth V]	IPR029490	Cytochrome c-550 domain	Domain

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

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.