Annotations: 7XXF

Structure of photosynthetic LH1-RC super-complex of Rhodopila globiformis

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth B]	FAD_binding_4	e7xxfB1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
FA [auth 6]	FAD_binding_4	e7xxf61	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
H [auth E]	FAD_binding_4	e7xxfE1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
HA [auth 8]	FAD_binding_4	e7xxf81	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
J [auth G]	FAD_binding_4	e7xxfG1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
JA [auth 0]	FAD_binding_4	e7xxf01	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
N	FAD_binding_4	e7xxfN1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
R	FAD_binding_4	e7xxfR1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
T	FAD_binding_4	e7xxfT1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
Z	FAD_binding_4	e7xxfZ1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
X	FAD_binding_4	e7xxfX1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
V	FAD_binding_4	e7xxfV1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
P	FAD_binding_4	e7xxfP1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
L [auth J]	FAD_binding_4	e7xxfJ1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
DA [auth 4]	FAD_binding_4	e7xxf41	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
BA [auth 2]	FAD_binding_4	e7xxf21	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
AA [auth 1]	FAD_binding_4	e7xxf11	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
CA [auth 3]	FAD_binding_4	e7xxf31	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
E [auth A]	FAD_binding_4	e7xxfA1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
EA [auth 5]	FAD_binding_4	e7xxf51	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
G [auth D]	FAD_binding_4	e7xxfD1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
I [auth F]	FAD_binding_4	e7xxfF1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
IA [auth 9]	FAD_binding_4	e7xxf91	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
S	FAD_binding_4	e7xxfS1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
U	FAD_binding_4	e7xxfU1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
Y	FAD_binding_4	e7xxfY1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
W	FAD_binding_4	e7xxfW1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
Q	FAD_binding_4	e7xxfQ1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
O	FAD_binding_4	e7xxfO1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
M [auth K]	FAD_binding_4	e7xxfK1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
K [auth I]	FAD_binding_4	e7xxfI1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
GA [auth 7]	FAD_binding_4	e7xxf71	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
D [auth H]	FAD_binding_4	e7xxfH1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
C [auth M]	FAD_binding_4	e7xxfM1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
B [auth L]	FAD_binding_4	e7xxfL1	A: beta barrels	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.2)
A [auth C]	MFS_1	e7xxfC01	A: beta barrels	X: Fe-binding domain in prismane-like proteins	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: MFS_1	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	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]	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
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
KA [auth a], LA [auth b], MA [auth c], NA [auth d], OA [auth e], KA [auth a], LA [auth b], MA [auth c], NA [auth d], OA [auth e], PA [auth f], QA [auth g], RA [auth h], SA [auth i], TA [auth j], UA [auth k]	Light-harvesting protein LH1 Gamma-like	-	-	-
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	Light-harvesting protein	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
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	Light-harvesting protein	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
D [auth H]	Photosynthetic reaction center H subunit	-	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	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
B [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	cellular anatomical structure endomembrane system 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 cellular anatomical structure endomembrane system 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 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
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	IPR000066	Antenna complex, alpha/beta subunit	Domain
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	IPR035889	Light-harvesting complex	Homologous Superfamily
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], BA [auth 2], DA [auth 4], F [auth B], FA [auth 6], H [auth E], HA [auth 8], J [auth G], JA [auth 0], L [auth J], N, P, R, T, V, X, Z	IPR002362	Light-harvesting protein B beta chain	Family
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	IPR000066	Antenna complex, alpha/beta subunit	Domain
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	IPR018332	Antenna complex, alpha subunit	Family
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	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: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
AA [auth 1], B [auth L], BA [auth 2], C [auth M], CA [auth 3] AA [auth 1], B [auth L], BA [auth 2], 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 [auth D], GA [auth 7], H [auth E], HA [auth 8], I [auth F], IA [auth 9], J [auth G], JA [auth 0], K [auth I], L [auth J], M [auth K], N, O, P, Q, R, S, T, U, V, W, X, Y, Z	OPM	Transmembrane	Alpha-helical polytopic	Photosystems	Photosynthetic reaction centers from bacteria

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
AA [auth 1], B [auth L], BA [auth 2], C [auth M], CA [auth 3] AA [auth 1], B [auth L], BA [auth 2], 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 [auth D], GA [auth 7], H [auth E], HA [auth 8], I [auth F], IA [auth 9], J [auth G], JA [auth 0], K [auth I], L [auth J], M [auth K], N, O, P, Q, R, S, T, U, V, W, X, Y, Z	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
AA [auth 1], B [auth L], BA [auth 2], C [auth M], CA [auth 3] AA [auth 1], B [auth L], BA [auth 2], 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 [auth D], GA [auth 7], H [auth E], HA [auth 8], I [auth F], IA [auth 9], J [auth G], JA [auth 0], K [auth I], L [auth J], M [auth K], N, O, P, Q, R, S, T, U, V, W, X, Y, Z	MemProtMD	Annotated as membrane protein by MemProtMD

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
KA [auth a], LA [auth b], MA [auth c], NA [auth d], OA [auth e], KA [auth a], LA [auth b], MA [auth c], NA [auth d], OA [auth e], PA [auth f], QA [auth g], RA [auth h], SA [auth i], TA [auth j], UA [auth k]	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
AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], AA [auth 1], CA [auth 3], E [auth A], EA [auth 5], G [auth D], GA [auth 7], I [auth F], IA [auth 9], K [auth I], M [auth K], O, Q, S, U, W, Y	FME	Parent Component: MET : AA0021 , AA0566 , 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 , 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