7PBW | pdb_00007pbw

Cryo-EM structure of light harvesting complex 2 from Rba. sphaeroides.

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: mpstruc
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth AC]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
E [auth AE]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
F [auth AF]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
G [auth AG]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
H [auth AH]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
I [auth AI]	SCOP2 Family	Light-harvesting complex subunits	8105847	4003043	SCOP2 (2022-06-29)
I [auth AI]	SCOP2 Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2 (2022-06-29)
D [auth AD]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
B [auth AB]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	3000199	SCOP2B (2022-06-29)
A [auth AA]	SCOP2B Superfamily	Light-harvesting complex subunits	8105848	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)
J [auth BA]		e7pbwBA1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
K [auth BB]		e7pbwBB1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
M [auth BD]		e7pbwBD1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
P [auth BG]		e7pbwBG1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
Q [auth BH]		e7pbwBH1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
R [auth BI]		e7pbwBI1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
O [auth BF]		e7pbwBF1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
N [auth BE]		e7pbwBE1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
L [auth BC]		e7pbwBC1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
C [auth AC]		e7pbwAC1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
E [auth AE]		e7pbwAE1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
F [auth AF]		e7pbwAF1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
G [auth AG]		e7pbwAG1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
H [auth AH]		e7pbwAH1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
I [auth AI]		e7pbwAI1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
D [auth AD]		e7pbwAD1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
B [auth AB]		e7pbwAB1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)
A [auth AA]		e7pbwAA1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Arm, ARM_PUB	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	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
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	Light-harvesting protein B-800/850 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
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	Light-harvesting protein B-800/850 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	IPR000066	Antenna complex, alpha/beta subunit	Domain
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	IPR035889	Light-harvesting complex	Homologous Superfamily
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	IPR002362	Light-harvesting protein B beta chain	Family
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	IPR000066	Antenna complex, alpha/beta subunit	Domain
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	IPR018332	Antenna complex, alpha subunit	Family
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	IPR035889	Light-harvesting complex	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE] A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	OPM	Transmembrane	Alpha-helical polytopic	Photosystems	Light-harvesting complexes from bacteria

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE] A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI], J [auth BA], K [auth BB], L [auth BC], M [auth BD], N [auth BE], O [auth BF], P [auth BG], Q [auth BH], R [auth BI]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Light-Harvesting Complexes	Light-Harvesting Complex LHC-II

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], A [auth AA], B [auth AB], C [auth AC], D [auth AD], E [auth AE], F [auth AF], G [auth AG], H [auth AH], I [auth AI]	CXM	Parent Component: MET RESID: AA0363 , AA0493 PSI-MOD : N-carboxy-L-methionine MOD:00368 , N-(dihydroxymethyl)-L-methionine (fMet) MOD:01446 , N-(dihydroxymethyl)-L-methionine (Met) MOD:01447

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.