Annotations: 9J2F

Structure of photosynthetic LH1-RC complex from the purple bacterium Blastochloris tepida

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
YA [auth o]	Beta-Casp	e9j2fo1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
X	Beta-Casp	e9j2fX1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
VA [auth l]	Beta-Casp	e9j2fl1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
U	Beta-Casp	e9j2fU1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
SA [auth i]	Beta-Casp	e9j2fi1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
R	Beta-Casp	e9j2fR1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
PA [auth f]	Beta-Casp	e9j2ff1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
O	Beta-Casp	e9j2fO1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
MA [auth c]	Beta-Casp	e9j2fc1	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 J]	Beta-Casp	e9j2fJ1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
JA [auth 0]	Beta-Casp	e9j2f01	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 E]	Beta-Casp	e9j2fE1	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 7]	Beta-Casp	e9j2f71	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 B]	Catalase	e9j2fB01	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Catalase	ECOD (v295.2)
DA [auth 4]	Beta-Casp	e9j2f41	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)
BB [auth r]	Beta-Casp	e9j2fr1	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 1]	Beta-Casp	e9j2f11	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Beta-Casp	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
BA [auth 2], EA [auth 5], HA [auth 8], J [auth F], KA [auth a], BA [auth 2], EA [auth 5], HA [auth 8], J [auth F], KA [auth a], M [auth K], NA [auth d], P, QA [auth g], S, TA [auth j], V, WA [auth m], Y, ZA [auth p]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], IA [auth 9], K [auth I], LA [auth b], N, OA [auth e], Q, RA [auth h], T, UA [auth k], W, XA [auth n], Z	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
D [auth H]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
D [auth H]	PF03967	Photosynthetic reaction centre, H-chain N-terminal region (PRCH)	Photosynthetic reaction centre, H-chain N-terminal region	-	Family
D [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
C [auth M]	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
B [auth L]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
B [auth L]	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
A [auth C]	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
A [auth C]	PF02276	Photosynthetic reaction centre cytochrome C subunit (CytoC_RC)	Photosynthetic reaction centre cytochrome C subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
BA [auth 2], EA [auth 5], HA [auth 8], J [auth F], KA [auth a], BA [auth 2], EA [auth 5], HA [auth 8], J [auth F], KA [auth a], M [auth K], NA [auth d], P, QA [auth g], S, TA [auth j], V, WA [auth m], Y, ZA [auth p]	Light-harvesting protein B-1015 gamma chain	-	-	-
G	Light-harvesting protein gamma1	-	-	-
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	Antenna complex alpha/beta subunit domain-containing protein	-	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
AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], IA [auth 9], K [auth I], LA [auth b], N, OA [auth e], Q, RA [auth h], T, UA [auth k], W, XA [auth n], Z	Antenna complex alpha/beta subunit domain-containing protein	-	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
D [auth H]	Photosynthetic reaction center subunit 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
C [auth M]	Reaction center protein M chain	-	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
B [auth L]	Reaction center protein L chain	-	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	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
A [auth C]	Photosynthetic reaction center cytochrome c subunit	binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion 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 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	IPR000066	Antenna complex, alpha/beta subunit	Domain
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	IPR035889	Light-harvesting complex	Homologous Superfamily
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], AA [auth 1], BB [auth r], DA [auth 4], F [auth B], GA [auth 7], I [auth E], JA [auth 0], L [auth J], MA [auth c], O, PA [auth f], R, SA [auth i], U, VA [auth l], X, YA [auth o]	IPR002362	Light-harvesting protein B beta chain	Family
AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], IA [auth 9], K [auth I], LA [auth b], N, OA [auth e], Q, RA [auth h], T, UA [auth k], W, XA [auth n], Z	IPR000066	Antenna complex, alpha/beta subunit	Domain
AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], IA [auth 9], K [auth I], LA [auth b], N, OA [auth e], Q, RA [auth h], T, UA [auth k], W, XA [auth n], Z	IPR018332	Antenna complex, alpha subunit	Family
AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], IA [auth 9], K [auth I], LA [auth b], N, OA [auth e], Q, RA [auth h], T, UA [auth k], W, XA [auth n], Z	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], AB [auth q], CA [auth 3], E [auth A], FA [auth 6], H [auth D], IA [auth 9], K [auth I], LA [auth b], N, OA [auth e], Q, RA [auth h], T, UA [auth k], W, XA [auth n], Z	IPR035889	Light-harvesting complex	Homologous Superfamily
D [auth H]	IPR014747	Bacterial photosynthetic reaction centre, H-chain, C-terminal	Homologous Superfamily
D [auth H]	IPR015810	Photosynthetic reaction centre, H subunit, N-terminal	Domain
D [auth H]	IPR005652	Photosynthetic reaction centre, H subunit	Family
D [auth H]	IPR037097	Photosynthetic reaction centre, H subunit, N-terminal domain superfamily	Homologous Superfamily
D [auth H]	IPR011033	PRC-barrel-like superfamily	Homologous Superfamily
D [auth H]	IPR027275	PRC-barrel domain	Domain
C [auth M]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
C [auth M]	IPR005781	Photosynthetic reaction centre, M subunit	Family
C [auth M]	IPR000484	Photosynthetic reaction centre, L/M	Family
C [auth M]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
B [auth L]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
B [auth L]	IPR000484	Photosynthetic reaction centre, L/M	Family
B [auth L]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
B [auth L]	IPR005871	Photosynthetic reaction centre, L subunit	Family
A [auth C]	IPR036280	Multiheme cytochrome superfamily	Homologous Superfamily
A [auth C]	IPR023119	Multihaem cytochrome, PRC subunit superfamily	Homologous Superfamily
A [auth C]	IPR003158	Photosynthetic reaction centre, cytochrome c subunit	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
AA [auth 1], AB [auth q], B [auth L], BA [auth 2], BB [auth r] AA [auth 1], AB [auth q], B [auth L], BA [auth 2], BB [auth r], C [auth M], CA [auth 3], D [auth H], DA [auth 4], E [auth A], EA [auth 5], F [auth B], FA [auth 6], G, GA [auth 7], H [auth D], HA [auth 8], I [auth E], IA [auth 9], J [auth F], JA [auth 0], K [auth I], KA [auth a], L [auth J], LA [auth b], M [auth K], MA [auth c], N, NA [auth d], O, OA [auth e], P, PA [auth f], Q, QA [auth g], R, RA [auth h], S, SA [auth i], T, TA [auth j], U, UA [auth k], V, VA [auth l], W, WA [auth m], X, XA [auth n], Y, YA [auth o], Z, ZA [auth p]	PDBTM	Annotated as membrane protein by PDBTM

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
D [auth H]	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