9KLM | pdb_00009klm

Cryo-EM structure of the monomeric Rhodobacter sphaeroides G1C LH1-RC core complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth M]	SCOP2B Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8034636	3000736	SCOP2B (2022-06-29)
Y [auth n]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
W [auth k]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
U [auth j]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
S [auth i]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
Q [auth g]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
O [auth f]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
M [auth e]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
K [auth d]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
I [auth c]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
G [auth b]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
E [auth a]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
CA [auth p]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	3000199	SCOP2B (2022-06-29)
AA [auth o]	SCOP2B Superfamily	Light-harvesting complex subunits	8105876	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)
A [auth L]	SCOP2B Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8034635	3000736	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth M]	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
C [auth H]	PF03967	Photosynthetic reaction centre, H-chain N-terminal region (PRCH)	Photosynthetic reaction centre, H-chain N-terminal region	-	Family
C [auth H]	PF05239	PRC-barrel domain (PRC)	PRC-barrel domain	The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, ...	The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain [1].	Domain
A [auth L]	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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
GA [auth X]	Intrinsic membrane protein PufX	-	-	cellular anatomical structure membrane
FA [auth U]	protein-U	-	-	-
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	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
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	Light-harvesting protein B-875 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]	Reaction center protein H chain	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
A [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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
GA [auth X]	IPR020169	Intrinsic membrane protein family, PufX	Family
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	IPR000066	Antenna complex, alpha/beta subunit	Domain
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	IPR035889	Light-harvesting complex	Homologous Superfamily
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	IPR002362	Light-harvesting protein B beta chain	Family
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	IPR000066	Antenna complex, alpha/beta subunit	Domain
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	IPR018332	Antenna complex, alpha subunit	Family
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	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
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

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth M]	FME	Parent Component: MET RESID: AA0021 , AA0566 PSI-MOD : 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
GA [auth X]	FME	Parent Component: MET RESID: AA0021 , AA0566 , AA0021 , AA0566 PSI-MOD : 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 , 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
FA [auth U]	FME	Parent Component: MET RESID: AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 PSI-MOD : 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 , 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 , 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
AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], AA [auth o], CA [auth p], E [auth a], EA [auth q], G [auth b], I [auth c], K [auth d], M [auth e], O [auth f], Q [auth g], S [auth i], U [auth j], W [auth k], Y [auth n]	FME	Parent Component: MET RESID: AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 PSI-MOD : 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 , 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 , 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 , 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
BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], BA [auth P], D [auth A], DA [auth Q], F [auth B], H [auth C], J [auth D], L [auth E], N [auth F], P [auth G], R [auth I], T [auth J], V [auth K], X [auth N], Z [auth O]	FME	Parent Component: MET RESID: AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 PSI-MOD : 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 , 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 , 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 , 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 , 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
A [auth L]	FME	Parent Component: MET RESID: AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 PSI-MOD : 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 , 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 , 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 , 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 , 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 , 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