7S3D | pdb_00007s3d

Structure of photosystem I with bound ferredoxin from Synechococcus sp. PCC 7335 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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
S [auth R]	SCOP2 Family	Subunit VIII of photosystem I reaction centre, PsaI	8105715	4002098	SCOP2 (2022-06-29)
S [auth R]	SCOP2 Superfamily	Subunit VIII of photosystem I reaction centre, PsaI	8105716	3000819	SCOP2 (2022-06-29)
DA [auth f]	SCOP2 Family	Subunit III of photosystem I reaction centre, PsaF	8105717	4002091	SCOP2 (2022-06-29)
DA [auth f]	SCOP2 Superfamily	Subunit III of photosystem I reaction centre, PsaF	8105718	3000813	SCOP2 (2022-06-29)
Q [auth P]	SCOP2 Family	Photosystem I accessory protein E (PsaE)	8105721	4001749	SCOP2 (2022-06-29)
Q [auth P]	SCOP2 Superfamily	Electron transport accessory proteins	8105722	3000325	SCOP2 (2022-06-29)
P [auth O]	SCOP2 Family	Photosystem I subunit PsaD	8105695	4003498	SCOP2 (2022-06-29)
P [auth O]	SCOP2 Superfamily	Photosystem I subunit PsaD	8105696	3000951	SCOP2 (2022-06-29)
Z [auth b]	SCOP2 Family	Photosystem I subunits PsaA/PsaB	8105711	4002118	SCOP2 (2022-06-29)
Z [auth b]	SCOP2 Superfamily	Photosystem I subunits PsaA/PsaB	8105712	3000850	SCOP2 (2022-06-29)
X [auth W]	SCOP2 Family	2Fe-2S ferredoxin-related	8105697	4000982	SCOP2 (2022-06-29)
X [auth W]	SCOP2 Superfamily	2Fe-2S ferredoxin-like	8105698	3000113	SCOP2 (2022-06-29)
HA [auth l]	SCOP2 Family	Photosystem I reaction center subunit XI, PsaL	8105713	4002135	SCOP2 (2022-06-29)
HA [auth l]	SCOP2 Superfamily	Photosystem I reaction center subunit XI, PsaL	8105714	3000870	SCOP2 (2022-06-29)
M [auth G]	SCOP2 Family	Photosystem I subunits PsaA/PsaB	8105709	4002118	SCOP2 (2022-06-29)
M [auth G]	SCOP2 Superfamily	Photosystem I subunits PsaA/PsaB	8105710	3000850	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)
U [auth T]	PSI_PSAK	e7s3dT1	A: alpha bundles	X: Photosystem I reaction center subunit X, PsaK (From Topology)	H: Photosystem I reaction center subunit X, PsaK (From Topology)	T: Photosystem I reaction center subunit X, PsaK	F: PSI_PSAK	ECOD (1.6)
I [auth K]	PSI_PSAK	e7s3dK1	A: alpha bundles	X: Photosystem I reaction center subunit X, PsaK (From Topology)	H: Photosystem I reaction center subunit X, PsaK (From Topology)	T: Photosystem I reaction center subunit X, PsaK	F: PSI_PSAK	ECOD (1.6)
GA [auth k]	PSI_PSAK	e7s3dk1	A: alpha bundles	X: Photosystem I reaction center subunit X, PsaK (From Topology)	H: Photosystem I reaction center subunit X, PsaK (From Topology)	T: Photosystem I reaction center subunit X, PsaK	F: PSI_PSAK	ECOD (1.6)
T [auth S]	PSI_PsaJ	e7s3dS1	A: extended segments	X: Subunit IX of photosystem I reaction centre, PsaJ (From Topology)	H: Subunit IX of photosystem I reaction centre, PsaJ (From Topology)	T: Subunit IX of photosystem I reaction centre, PsaJ	F: PSI_PsaJ	ECOD (1.6)
H [auth J]	PSI_PsaJ	e7s3dJ1	A: extended segments	X: Subunit IX of photosystem I reaction centre, PsaJ (From Topology)	H: Subunit IX of photosystem I reaction centre, PsaJ (From Topology)	T: Subunit IX of photosystem I reaction centre, PsaJ	F: PSI_PsaJ	ECOD (1.6)
FA [auth j]	PSI_PsaJ	e7s3dj1	A: extended segments	X: Subunit IX of photosystem I reaction centre, PsaJ (From Topology)	H: Subunit IX of photosystem I reaction centre, PsaJ (From Topology)	T: Subunit IX of photosystem I reaction centre, PsaJ	F: PSI_PsaJ	ECOD (1.6)
S [auth R]	PSI_8	e7s3dR1	A: extended segments	X: Subunit VIII of photosystem I reaction centre, PsaI (From Topology)	H: Subunit VIII of photosystem I reaction centre, PsaI (From Topology)	T: Subunit VIII of photosystem I reaction centre, PsaI	F: PSI_8	ECOD (1.6)
G [auth I]	PSI_8	e7s3dI1	A: extended segments	X: Subunit VIII of photosystem I reaction centre, PsaI (From Topology)	H: Subunit VIII of photosystem I reaction centre, PsaI (From Topology)	T: Subunit VIII of photosystem I reaction centre, PsaI	F: PSI_8	ECOD (1.6)
EA [auth i]	PSI_8	e7s3di1	A: extended segments	X: Subunit VIII of photosystem I reaction centre, PsaI (From Topology)	H: Subunit VIII of photosystem I reaction centre, PsaI (From Topology)	T: Subunit VIII of photosystem I reaction centre, PsaI	F: PSI_8	ECOD (1.6)
R [auth Q]	PSI_PsaF	e7s3dQ1	A: extended segments	X: Subunit III of photosystem I reaction centre, PsaF (From Topology)	H: Subunit III of photosystem I reaction centre, PsaF (From Topology)	T: Subunit III of photosystem I reaction centre, PsaF	F: PSI_PsaF	ECOD (1.6)
F	PSI_PsaF	e7s3dF1	A: extended segments	X: Subunit III of photosystem I reaction centre, PsaF (From Topology)	H: Subunit III of photosystem I reaction centre, PsaF (From Topology)	T: Subunit III of photosystem I reaction centre, PsaF	F: PSI_PsaF	ECOD (1.6)
DA [auth f]	PSI_PsaF	e7s3df1	A: extended segments	X: Subunit III of photosystem I reaction centre, PsaF (From Topology)	H: Subunit III of photosystem I reaction centre, PsaF (From Topology)	T: Subunit III of photosystem I reaction centre, PsaF	F: PSI_PsaF	ECOD (1.6)
Q [auth P]	PSI_PsaE	e7s3dP1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PSI_PsaE	ECOD (1.6)
E	PSI_PsaE	e7s3dE1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PSI_PsaE	ECOD (1.6)
CA [auth e]	PSI_PsaE	e7s3de1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PSI_PsaE	ECOD (1.6)
P [auth O]	PsaD	e7s3dO1	A: a+b two layers	X: Photosystem I subunit PsaD (From Topology)	H: Photosystem I subunit PsaD (From Topology)	T: Photosystem I subunit PsaD	F: PsaD	ECOD (1.6)
D	PsaD	e7s3dD1	A: a+b two layers	X: Photosystem I subunit PsaD (From Topology)	H: Photosystem I subunit PsaD (From Topology)	T: Photosystem I subunit PsaD	F: PsaD	ECOD (1.6)
BA [auth d]	PsaD	e7s3dd1	A: a+b two layers	X: Photosystem I subunit PsaD (From Topology)	H: Photosystem I subunit PsaD (From Topology)	T: Photosystem I subunit PsaD	F: PsaD	ECOD (1.6)
O [auth N]	Fer4_21_1	e7s3dN1	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
C	Fer4_21_1	e7s3dC1	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
AA [auth c]	Fer4_21_1	e7s3dc1	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
Z [auth b]	PsaA_PsaB_C	e7s3db2	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: PsaA_PsaB_C	ECOD (1.6)
Z [auth b]	PsaA_PsaB_N	e7s3db1	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: PsaA_PsaB_N	ECOD (1.6)
N [auth H]	PsaA_PsaB_C	e7s3dH2	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: PsaA_PsaB_C	ECOD (1.6)
N [auth H]	PsaA_PsaB_N	e7s3dH1	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: PsaA_PsaB_N	ECOD (1.6)
B	PsaA_PsaB_C	e7s3dB2	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: PsaA_PsaB_C	ECOD (1.6)
B	PsaA_PsaB_N	e7s3dB1	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: PsaA_PsaB_N	ECOD (1.6)
X [auth W]	Fer2	e7s3dW1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
L [auth X]	Fer2	e7s3dX1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
JA [auth x]	Fer2	e7s3dx1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
W [auth V]	PsaM	e7s3dV1	A: extended segments	X: Subunit XII of photosystem I reaction centre, PsaM (From Topology)	H: Subunit XII of photosystem I reaction centre, PsaM (From Topology)	T: Subunit XII of photosystem I reaction centre, PsaM	F: PsaM	ECOD (1.6)
K [auth M]	PsaM	e7s3dM1	A: extended segments	X: Subunit XII of photosystem I reaction centre, PsaM (From Topology)	H: Subunit XII of photosystem I reaction centre, PsaM (From Topology)	T: Subunit XII of photosystem I reaction centre, PsaM	F: PsaM	ECOD (1.6)
IA [auth m]	PsaM	e7s3dm1	A: extended segments	X: Subunit XII of photosystem I reaction centre, PsaM (From Topology)	H: Subunit XII of photosystem I reaction centre, PsaM (From Topology)	T: Subunit XII of photosystem I reaction centre, PsaM	F: PsaM	ECOD (1.6)
V [auth U]	PsaL	e7s3dU1	A: alpha bundles	X: Photosystem I reaction center subunit XI, PsaL (From Topology)	H: Photosystem I reaction center subunit XI, PsaL (From Topology)	T: Photosystem I reaction center subunit XI, PsaL	F: PsaL	ECOD (1.6)
J [auth L]	PsaL	e7s3dL1	A: alpha bundles	X: Photosystem I reaction center subunit XI, PsaL (From Topology)	H: Photosystem I reaction center subunit XI, PsaL (From Topology)	T: Photosystem I reaction center subunit XI, PsaL	F: PsaL	ECOD (1.6)
HA [auth l]	PsaL	e7s3dl1	A: alpha bundles	X: Photosystem I reaction center subunit XI, PsaL (From Topology)	H: Photosystem I reaction center subunit XI, PsaL (From Topology)	T: Photosystem I reaction center subunit XI, PsaL	F: PsaL	ECOD (1.6)
Y [auth a]	PsaA_PsaB_C	e7s3da2	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: PsaA_PsaB_C	ECOD (1.6)
Y [auth a]	PsaA_PsaB_N	e7s3da1	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: PsaA_PsaB_N	ECOD (1.6)
M [auth G]	PsaA_PsaB_C	e7s3dG2	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: PsaA_PsaB_C	ECOD (1.6)
M [auth G]	PsaA_PsaB_N	e7s3dG1	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: PsaA_PsaB_N	ECOD (1.6)
A	PsaA_PsaB_C	e7s3dA2	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: PsaA_PsaB_C	ECOD (1.6)
A	PsaA_PsaB_N	e7s3dA1	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: PsaA_PsaB_N	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
AA [auth c], C, O [auth N]	PF12838	4Fe-4S dicluster domain (Fer4_7)	4Fe-4S dicluster domain	Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ...	Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.	Domain
IA [auth m], K [auth M], W [auth V]	PF07465	Photosystem I protein M (PsaM) (PsaM)	Photosystem I protein M (PsaM)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
GA [auth k], I [auth K], U [auth T]	Photosystem I reaction center subunit PsaK	-	-	-
FA [auth j], H [auth J], T [auth S]	Photosystem I reaction center subunit IX	-	-	-
EA [auth i], G [auth I], S [auth R]	PsaI2	-	-	-
DA [auth f], F, R [auth Q]	PSI-F	-	-	-
CA [auth e], E, Q [auth P]	Photosystem I reaction center subunit IV	-	-	-
BA [auth d], D, P [auth O]	Photosystem I 16 kDa polypeptide	-	-	-
AA [auth c], C, O [auth N]	PsaC	oxidoreductase activity catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding electron transfer activity cation binding ion binding metal ion binding	photosynthesis photosynthesis, light reaction photosynthetic electron transport chain electron transport chain metabolic process cellular process generation of precursor metabolites and energy photosynthetic electron transport in photosystem I	intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane plasma membrane intracellular membraneless organelle plasma membrane-derived chromatophore thylakoid membrane intracellular organelle cell periphery cellular anatomical structure plasma membrane-derived thylakoid membrane organelle membraneless organelle plasma membrane region intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane plasma membrane intracellular membraneless organelle plasma membrane-derived chromatophore thylakoid membrane intracellular organelle cell periphery cellular anatomical structure plasma membrane-derived thylakoid membrane organelle membraneless organelle plasma membrane region bacterial thylakoid cytoplasm photosynthetic membrane thylakoid protein-containing complex photosystem photosystem I membrane protein complex
B, N [auth H], Z [auth b]	Photosystem I P700 chlorophyll a apoprotein A2	-	-	-
JA [auth x], L [auth X], X [auth W]	2Fe-2S ferredoxin-type domain-containing protein	-	-	-
IA [auth m], K [auth M], W [auth V]	PsaM	-	photosynthesis metabolic process cellular process	intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane plasma membrane intracellular membraneless organelle plasma membrane-derived chromatophore thylakoid membrane intracellular organelle cell periphery cellular anatomical structure plasma membrane-derived thylakoid membrane organelle membraneless organelle plasma membrane region intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane plasma membrane intracellular membraneless organelle plasma membrane-derived chromatophore thylakoid membrane intracellular organelle cell periphery cellular anatomical structure plasma membrane-derived thylakoid membrane organelle membraneless organelle plasma membrane region bacterial thylakoid cytoplasm photosynthetic membrane thylakoid protein-containing complex photosystem photosystem I membrane protein complex
HA [auth l], J [auth L], V [auth U]	PSI subunit V	-	-	-
A, M [auth G], Y [auth a]	Photosystem I P700 chlorophyll a apoprotein A1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
AA [auth c], C, O [auth N]	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
AA [auth c], C, O [auth N]	IPR050157	Photosystem I iron-sulfur center	Family
AA [auth c], C, O [auth N]	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
AA [auth c], C, O [auth N]	IPR017491	Photosystem I protein PsaC	Family
IA [auth m], K [auth M], W [auth V]	IPR010010	Photosystem I PsaM, reaction centre	Family
IA [auth m], K [auth M], W [auth V]	IPR037279	Photosystem I PsaM, reaction centre superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
AA [auth c], C, IA [auth m], K [auth M], O [auth N] AA [auth c], C, IA [auth m], K [auth M], O [auth N], W [auth V]	OPM	Transmembrane	Alpha-helical polytopic	Photosystems	Photosystem I

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
AA [auth c], C, IA [auth m], K [auth M], O [auth N] AA [auth c], C, IA [auth m], K [auth M], O [auth N], W [auth V]	PDBTM	Annotated as membrane protein by PDBTM