Annotations: 9K3Q

Cryo-EM structure of the Rhodospirillum rubrum RC-LH1 complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
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)
S [auth L]	SCOP2B Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8103953	3000736	SCOP2B (2022-06-29)
Z [auth T]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
X [auth R]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
U [auth N]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
Q [auth J]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
N [auth G]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
M [auth F]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
L [auth E]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
K [auth D]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
J [auth A]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
H [auth 8]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
FA [auth Z]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
F [auth 6]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
DA [auth X]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
D [auth 4]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
BA [auth V]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	SCOP2B (2022-06-29)
B [auth 2]	SCOP2B Superfamily	Light-harvesting complex subunits	8033868	3000199	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)
T [auth M]	KR, adh_short_C2	e9k3qM01	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: KR, adh_short_C2	ECOD (v295.2)
S [auth L]	KR, adh_short_C2	e9k3qL01	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: KR, adh_short_C2	ECOD (v295.2)
O [auth H]	KR, adh_short_C2	e9k3qH01	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: KR, adh_short_C2	ECOD (v295.2)
Z [auth T]	Beta-Casp	e9k3qT1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
X [auth R]	Beta-Casp	e9k3qR1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
U [auth N]	Beta-Casp	e9k3qN1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
Q [auth J]	Beta-Casp	e9k3qJ1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
N [auth G]	Beta-Casp	e9k3qG1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
M [auth F]	Beta-Casp	e9k3qF1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
L [auth E]	Beta-Casp	e9k3qE1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
K [auth D]	Beta-Casp	e9k3qD1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
J [auth A]	Beta-Casp	e9k3qA1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
H [auth 8]	Beta-Casp	e9k3q81	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
FA [auth Z]	Beta-Casp	e9k3qZ1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
F [auth 6]	Beta-Casp	e9k3q61	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
DA [auth X]	Beta-Casp	e9k3qX1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
D [auth 4]	Beta-Casp	e9k3q41	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
BA [auth V]	Beta-Casp	e9k3qV1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
B [auth 2]	KR, adh_short_C2	e9k3q201	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: KR, adh_short_C2	ECOD (v295.2)
Y [auth S]	Beta-Casp	e9k3qS1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
W [auth Q]	Beta-Casp	e9k3qQ1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
V [auth O]	Beta-Casp	e9k3qO1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
R [auth K]	Beta-Casp	e9k3qK1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
P [auth I]	Beta-Casp	e9k3qI1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
IA [auth n]	Beta-Casp	e9k3qn1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
I [auth 9]	Beta-Casp	e9k3q91	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
HA [auth m]	Beta-Casp	e9k3qm1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
GA [auth d]	Beta-Casp	e9k3qd1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
G [auth 7]	Beta-Casp	e9k3q71	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
EA [auth Y]	Beta-Casp	e9k3qY1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
E [auth 5]	Beta-Casp	e9k3q51	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
CA [auth W]	Beta-Casp	e9k3qW1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
C [auth 3]	Beta-Casp	e9k3q31	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
AA [auth U]	Beta-Casp	e9k3qU1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
A [auth 1]	KR, adh_short_C2	e9k3q101	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: KR, adh_short_C2	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
T [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
S [auth L]	Reaction center protein L 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
O [auth H]	Photoreaction center protein H	-	photosynthesis photosynthesis, light reaction metabolic process cellular process generation of precursor metabolites and energy	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 cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle
B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], FA [auth Z], H [auth 8], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], Q [auth J], U [auth N], X [auth R], Z [auth T]	Light-harvesting protein B-870 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
A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], EA [auth Y], G [auth 7], GA [auth d], HA [auth m], I [auth 9], IA [auth n], P [auth I], R [auth K], V [auth O], W [auth Q], Y [auth S]	Light-harvesting protein B-870 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
T [auth M]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
T [auth M]	IPR005781	Photosynthetic reaction centre, M subunit	Family
T [auth M]	IPR000484	Photosynthetic reaction centre, L/M	Family
T [auth M]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
S [auth L]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
S [auth L]	IPR000484	Photosynthetic reaction centre, L/M	Family
S [auth L]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
S [auth L]	IPR005871	Photosynthetic reaction centre, L subunit	Family
O [auth H]	IPR014747	Bacterial photosynthetic reaction centre, H-chain, C-terminal	Homologous Superfamily
O [auth H]	IPR015810	Photosynthetic reaction centre, H subunit, N-terminal	Domain
O [auth H]	IPR005652	Photosynthetic reaction centre, H subunit	Family
O [auth H]	IPR037097	Photosynthetic reaction centre, H subunit, N-terminal domain superfamily	Homologous Superfamily
O [auth H]	IPR011033	PRC-barrel-like superfamily	Homologous Superfamily
O [auth H]	IPR027275	PRC-barrel domain	Domain
B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], FA [auth Z], H [auth 8], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], Q [auth J], U [auth N], X [auth R], Z [auth T]	IPR000066	Antenna complex, alpha/beta subunit	Domain
B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], FA [auth Z], H [auth 8], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], Q [auth J], U [auth N], X [auth R], Z [auth T]	IPR018332	Antenna complex, alpha subunit	Family
B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], FA [auth Z], H [auth 8], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], Q [auth J], U [auth N], X [auth R], Z [auth T]	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], B [auth 2], BA [auth V], D [auth 4], DA [auth X], F [auth 6], FA [auth Z], H [auth 8], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], Q [auth J], U [auth N], X [auth R], Z [auth T]	IPR035889	Light-harvesting complex	Homologous Superfamily
A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], EA [auth Y], G [auth 7], GA [auth d], HA [auth m], I [auth 9], IA [auth n], P [auth I], R [auth K], V [auth O], W [auth Q], Y [auth S]	IPR000066	Antenna complex, alpha/beta subunit	Domain
A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], EA [auth Y], G [auth 7], GA [auth d], HA [auth m], I [auth 9], IA [auth n], P [auth I], R [auth K], V [auth O], W [auth Q], Y [auth S]	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], EA [auth Y], G [auth 7], GA [auth d], HA [auth m], I [auth 9], IA [auth n], P [auth I], R [auth K], V [auth O], W [auth Q], Y [auth S]	IPR035889	Light-harvesting complex	Homologous Superfamily
A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], EA [auth Y], G [auth 7], GA [auth d], HA [auth m], I [auth 9], IA [auth n], P [auth I], R [auth K], V [auth O], W [auth Q], Y [auth S]	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], A [auth 1], AA [auth U], C [auth 3], CA [auth W], E [auth 5], EA [auth Y], G [auth 7], GA [auth d], HA [auth m], I [auth 9], IA [auth n], P [auth I], R [auth K], V [auth O], W [auth Q], Y [auth S]	IPR002362	Light-harvesting protein B beta chain	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth 1], AA [auth U], B [auth 2], BA [auth V], C [auth 3] A [auth 1], AA [auth U], B [auth 2], BA [auth V], C [auth 3], CA [auth W], D [auth 4], DA [auth X], E [auth 5], EA [auth Y], F [auth 6], FA [auth Z], G [auth 7], GA [auth d], H [auth 8], HA [auth m], I [auth 9], IA [auth n], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth K], S [auth L], T [auth M], U [auth N], V [auth O], W [auth Q], X [auth R], Y [auth S], Z [auth T]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth 1], AA [auth U], B [auth 2], BA [auth V], C [auth 3] A [auth 1], AA [auth U], B [auth 2], BA [auth V], C [auth 3], CA [auth W], D [auth 4], DA [auth X], E [auth 5], EA [auth Y], F [auth 6], FA [auth Z], G [auth 7], GA [auth d], H [auth 8], HA [auth m], I [auth 9], IA [auth n], J [auth A], K [auth D], L [auth E], M [auth F], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth K], S [auth L], T [auth M], U [auth N], V [auth O], W [auth Q], X [auth R], Y [auth S], Z [auth T]	MemProtMD	Annotated as membrane protein by MemProtMD