Annotations: 7VY3

STRUCTURE OF PHOTOSYNTHETIC LH1-RC SUPER-COMPLEX OF RHODOBACTER SPHAEROIDES LACKING PROTEIN-U

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
U [auth W]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
S [auth T]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
Q [auth R]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
O [auth P]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
M [auth N]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
K [auth J]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
I [auth G]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
G [auth E]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
E [auth B]	SCOP2B Superfamily	Light-harvesting complex subunits	8076353	3000199	SCOP2B (2022-06-29)
C [auth H]	SCOP2B Superfamily	Photosystem II reaction centre subunit H, transmembrane region	8041121	3000750	SCOP2B (2022-06-29)
C [auth H]	SCOP2B Superfamily	PRC-barrel domain	8041120	3000637	SCOP2B (2022-06-29)
B [auth M]	SCOP2B Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8034636	3000736	SCOP2B (2022-06-29)
A [auth L]	SCOP2B Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8034635	3000736	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)
Y [auth X]	zf-Tim10_DDP	e7vy3X1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
W [auth Z]	zf-Tim10_DDP	e7vy3Z1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
U [auth W]	zf-Tim10_DDP	e7vy3W1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
S [auth T]	zf-Tim10_DDP	e7vy3T1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
Q [auth R]	zf-Tim10_DDP	e7vy3R1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
O [auth P]	zf-Tim10_DDP	e7vy3P1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
M [auth N]	zf-Tim10_DDP	e7vy3N1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
K [auth J]	zf-Tim10_DDP	e7vy3J1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
I [auth G]	zf-Tim10_DDP	e7vy3G1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
G [auth E]	zf-Tim10_DDP	e7vy3E1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
E [auth B]	zf-Tim10_DDP	e7vy3B1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
X [auth 1]	zf-Tim10_DDP	e7vy311	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
V [auth Y]	zf-Tim10_DDP	e7vy3Y1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
T [auth V]	zf-Tim10_DDP	e7vy3V1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
R [auth S]	zf-Tim10_DDP	e7vy3S1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
P [auth Q]	zf-Tim10_DDP	e7vy3Q1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
N [auth O]	zf-Tim10_DDP	e7vy3O1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
L [auth K]	zf-Tim10_DDP	e7vy3K1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
J [auth I]	zf-Tim10_DDP	e7vy3I1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
H [auth F]	zf-Tim10_DDP	e7vy3F1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
F [auth D]	zf-Tim10_DDP	e7vy3D1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
D [auth A]	zf-Tim10_DDP	e7vy3A1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
C [auth H]	zf-Tim10_DDP	e7vy3H1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
B [auth M]	zf-Tim10_DDP	e7vy3M1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)
A [auth L]	zf-Tim10_DDP	e7vy3L1	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F: zf-Tim10_DDP	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
T [auth V]	4.10.220.20	Few Secondary Structures	Irregular	Light-harvesting Protein	Light-harvesting complex	CATH (utative)
C [auth H]	3.90.50.10	Alpha Beta	Alpha-Beta Complex	Photosynthetic Reaction Center	Chain H, domain 2	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
Y [auth X]	PufX	-	photosynthesis metabolic process cellular process	cell periphery cellular anatomical structure plasma membrane membrane
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	Antenna pigment protein beta chain	chlorophyll binding binding bacteriochlorophyll binding tetrapyrrole binding cation binding ion binding metal ion binding small molecule binding	photosynthesis photosynthesis, light reaction metabolic process cellular process generation of precursor metabolites and energy	cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle plasma membrane light-harvesting complex protein-containing complex intracellular anatomical structure intracellular vesicle plasma membrane-derived chromatophore light-harvesting complex intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle plasma membrane light-harvesting complex protein-containing complex intracellular anatomical structure intracellular vesicle plasma membrane-derived chromatophore light-harvesting complex intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	Antenna pigment protein alpha chain	chlorophyll binding binding bacteriochlorophyll binding tetrapyrrole binding cation binding ion binding metal ion binding small molecule binding	photosynthesis photosynthesis, light reaction metabolic process cellular process generation of precursor metabolites and energy	membrane-bounded organelle intracellular organelle organelle envelope organelle inner membrane cellular anatomical structure intracellular anatomical structure organelle membrane organelle membrane cell periphery plasma membrane plasma membrane light-harvesting complex protein-containing complex intracellular vesicle membrane-bounded organelle intracellular organelle organelle envelope organelle inner membrane cellular anatomical structure intracellular anatomical structure organelle membrane organelle membrane cell periphery plasma membrane plasma membrane light-harvesting complex protein-containing complex intracellular vesicle plasma membrane-derived chromatophore light-harvesting complex intracellular membrane-bounded organelle cytoplasmic vesicle cytoplasm vesicle
C [auth H]	Photosynthetic reaction center subunit H	chlorophyll binding binding bacteriochlorophyll binding tetrapyrrole binding	photosynthesis photosynthesis, light reaction metabolic process cellular process generation of precursor metabolites and energy	intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane intracellular membraneless organelle plasma membrane-derived chromatophore intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm photosynthetic membrane thylakoid membrane-bounded organelle plasma membrane light-harvesting complex intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane intracellular membraneless organelle plasma membrane-derived chromatophore intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm photosynthetic membrane thylakoid membrane-bounded organelle plasma membrane light-harvesting complex protein-containing complex intracellular vesicle light-harvesting complex intracellular membrane-bounded organelle cytoplasmic vesicle vesicle
B [auth M]	Reaction center protein M chain	chlorophyll binding binding bacteriochlorophyll 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	intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane intracellular membraneless organelle plasma membrane-derived chromatophore intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm photosynthetic membrane thylakoid membrane-bounded organelle plasma membrane light-harvesting complex intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane intracellular membraneless organelle plasma membrane-derived chromatophore intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm photosynthetic membrane thylakoid membrane-bounded organelle plasma membrane light-harvesting complex protein-containing complex intracellular vesicle light-harvesting complex intracellular membrane-bounded organelle cytoplasmic vesicle vesicle
A [auth L]	Photosynthetic reaction center L subunit	chlorophyll binding binding bacteriochlorophyll 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	intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane intracellular membraneless organelle plasma membrane-derived chromatophore intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm photosynthetic membrane thylakoid membrane-bounded organelle plasma membrane light-harvesting complex intracellular anatomical structure plasma membrane-derived chromatophore membrane membrane intracellular membraneless organelle plasma membrane-derived chromatophore intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm photosynthetic membrane thylakoid membrane-bounded organelle plasma membrane light-harvesting complex protein-containing complex intracellular vesicle light-harvesting complex intracellular membrane-bounded organelle cytoplasmic vesicle vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
Y [auth X]	IPR020169	Intrinsic membrane protein family, PufX	Family
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	IPR000066	Antenna complex, alpha/beta subunit	Domain
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	IPR035889	Light-harvesting complex	Homologous Superfamily
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], E [auth B], G [auth E], I [auth G], K [auth J], M [auth N], O [auth P], Q [auth R], S [auth T], U [auth W], W [auth Z]	IPR002362	Light-harvesting protein B beta chain	Family
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	IPR000066	Antenna complex, alpha/beta subunit	Domain
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	IPR018332	Antenna complex, alpha subunit	Family
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	IPR035889	Light-harvesting complex	Homologous Superfamily
C [auth H]	IPR014747	Bacterial photosynthetic reaction centre, H-chain, C-terminal	Homologous Superfamily
C [auth H]	IPR015810	Photosynthetic reaction centre, H subunit, N-terminal	Domain
C [auth H]	IPR005652	Photosynthetic reaction centre, H subunit	Family
C [auth H]	IPR037097	Photosynthetic reaction centre, H subunit, N-terminal domain superfamily	Homologous Superfamily
C [auth H]	IPR011033	PRC-barrel-like superfamily	Homologous Superfamily
C [auth H]	IPR027275	PRC-barrel domain	Domain
B [auth M]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
B [auth M]	IPR005781	Photosynthetic reaction centre, M subunit	Family
B [auth M]	IPR000484	Photosynthetic reaction centre, L/M	Family
B [auth M]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
A [auth L]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
A [auth L]	IPR000484	Photosynthetic reaction centre, L/M	Family
A [auth L]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
A [auth L]	IPR005871	Photosynthetic reaction centre, L subunit	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth L], B [auth M], C [auth H], D [auth A], E [auth B] A [auth L], B [auth M], C [auth H], D [auth A], E [auth B], F [auth D], G [auth E], H [auth F], I [auth G], J [auth I], K [auth J], L [auth K], M [auth N], N [auth O], O [auth P], P [auth Q], Q [auth R], R [auth S], S [auth T], T [auth V], U [auth W], V [auth Y], W [auth Z], X [auth 1], Y [auth X]	OPM	Transmembrane	Alpha-helical polytopic	Photosystems	Bacterial photosystems

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth L], B [auth M], C [auth H], D [auth A], E [auth B] A [auth L], B [auth M], C [auth H], D [auth A], E [auth B], F [auth D], G [auth E], H [auth F], I [auth G], J [auth I], K [auth J], L [auth K], M [auth N], N [auth O], O [auth P], P [auth Q], Q [auth R], R [auth S], S [auth T], T [auth V], U [auth W], V [auth Y], W [auth Z], X [auth 1], Y [auth X]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth L], B [auth M], C [auth H], D [auth A], E [auth B] A [auth L], B [auth M], C [auth H], D [auth A], E [auth B], F [auth D], G [auth E], H [auth F], I [auth G], J [auth I], K [auth J], L [auth K], M [auth N], N [auth O], O [auth P], P [auth Q], Q [auth R], R [auth S], S [auth T], T [auth V], U [auth W], V [auth Y], W [auth Z], X [auth 1], Y [auth X]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth L], B [auth M], C [auth H], D [auth A], E [auth B] A [auth L], B [auth M], C [auth H], D [auth A], E [auth B], F [auth D], G [auth E], H [auth F], I [auth G], J [auth I], K [auth J], L [auth K], M [auth N], N [auth O], O [auth P], P [auth Q], Q [auth R], R [auth S], S [auth T], T [auth V], U [auth W], V [auth Y], W [auth Z], X [auth 1], Y [auth X]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Light-Harvesting+Reaction Center Complexes	LH1-RC super complex dimer

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], D [auth A], F [auth D], H [auth F], J [auth I], L [auth K], N [auth O], P [auth Q], R [auth S], T [auth V], V [auth Y], X [auth 1]	FME	Parent Component: MET : AA0021 , AA0566 : N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891