Annotations: 8IUG

Cryo-EM structure of the RC-LH core complex from roseiflexus castenholzii

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: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
V [auth L]	SCOP2B Superfamily	Bacterial photosystem II reaction centre, L and M subunits	8072655	3000736	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)
GA [auth W]	Ropporin_N	e8iugW1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
Y [auth O]	Ropporin_N	e8iugO1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
U [auth K]	Ropporin_N	e8iugK1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
S [auth I]	Ropporin_N	e8iugI1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
Q [auth G]	Ropporin_N	e8iugG1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
O [auth E]	Ropporin_N	e8iugE1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
L [auth B]	Ropporin_N	e8iugB1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
I [auth 8]	Ropporin_N	e8iug81	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
G [auth 6]	Ropporin_N	e8iug61	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
EA [auth U]	Ropporin_N	e8iugU1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
E [auth 4]	Ropporin_N	e8iug41	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
CA [auth S]	Ropporin_N	e8iugS1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
C [auth 2]	Ropporin_N	e8iug21	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
AA [auth Q]	Ropporin_N	e8iugQ1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
A [auth 0]	Ropporin_N	e8iug01	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)
DA [auth T]	V-set	e8iugT1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
Z [auth P]	V-set	e8iugP1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
X [auth N]	V-set	e8iugN1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
T [auth J]	V-set	e8iugJ1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
R [auth H]	V-set	e8iugH1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
P [auth F]	V-set	e8iugF1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
N [auth D]	V-set	e8iugD1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
K [auth A]	V-set	e8iugA1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
J [auth 9]	V-set	e8iug91	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
H [auth 7]	V-set	e8iug71	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
FA [auth V]	V-set	e8iugV1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
F [auth 5]	V-set	e8iug51	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
D [auth 3]	V-set	e8iug31	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
BA [auth R]	V-set	e8iugR1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
B [auth 1]	V-set	e8iug11	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
M [auth C]	V-set	e8iugC1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
W [auth M]	V-set	e8iugM1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
V [auth L]	Ropporin_N	e8iugL1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ropporin_N	ECOD (v295)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], EA [auth U], G [auth 6], GA [auth W], I [auth 8], L [auth B], O [auth E], Q [auth G], S [auth I], U [auth K], Y [auth O]	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
A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], EA [auth U], G [auth 6], GA [auth W], I [auth 8], L [auth B], O [auth E], Q [auth G], S [auth I], U [auth K], Y [auth O]	Antenna complex alpha/beta subunit	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
B [auth 1], BA [auth R], D [auth 3], DA [auth T], F [auth 5], B [auth 1], BA [auth R], D [auth 3], DA [auth T], F [auth 5], FA [auth V], H [auth 7], J [auth 9], K [auth A], N [auth D], P [auth F], R [auth H], T [auth J], X [auth N], Z [auth P]	Alpha subunit of light-harvesting 1	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
M [auth C]	Cytochrome subunit of photosynthetic reaction center	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
V [auth L], W [auth M]	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
HA [auth X]	TMx polypeptide	-	-	-
IA [auth Y]	reaction center small polypeptide	-	-	-
JA [auth Z]	reaction center unknown polypeptide	-	-	-
KA [auth h]	reaction center small polypeptide	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], EA [auth U], G [auth 6], GA [auth W], I [auth 8], L [auth B], O [auth E], Q [auth G], S [auth I], U [auth K], Y [auth O]	IPR000066	Antenna complex, alpha/beta subunit	Domain
A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], EA [auth U], G [auth 6], GA [auth W], I [auth 8], L [auth B], O [auth E], Q [auth G], S [auth I], U [auth K], Y [auth O]	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], EA [auth U], G [auth 6], GA [auth W], I [auth 8], L [auth B], O [auth E], Q [auth G], S [auth I], U [auth K], Y [auth O]	IPR035889	Light-harvesting complex	Homologous Superfamily
A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], A [auth 0], AA [auth Q], C [auth 2], CA [auth S], E [auth 4], EA [auth U], G [auth 6], GA [auth W], I [auth 8], L [auth B], O [auth E], Q [auth G], S [auth I], U [auth K], Y [auth O]	IPR002362	Light-harvesting protein B beta chain	Family
B [auth 1], BA [auth R], D [auth 3], DA [auth T], F [auth 5], B [auth 1], BA [auth R], D [auth 3], DA [auth T], F [auth 5], FA [auth V], H [auth 7], J [auth 9], K [auth A], N [auth D], P [auth F], R [auth H], T [auth J], X [auth N], Z [auth P]	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
B [auth 1], BA [auth R], D [auth 3], DA [auth T], F [auth 5], B [auth 1], BA [auth R], D [auth 3], DA [auth T], F [auth 5], FA [auth V], H [auth 7], J [auth 9], K [auth A], N [auth D], P [auth F], R [auth H], T [auth J], X [auth N], Z [auth P]	IPR035889	Light-harvesting complex	Homologous Superfamily
M [auth C]	IPR036280	Multiheme cytochrome superfamily	Homologous Superfamily
M [auth C]	IPR023119	Multihaem cytochrome, PRC subunit superfamily	Homologous Superfamily
M [auth C]	IPR003158	Photosynthetic reaction centre, cytochrome c subunit	Family
V [auth L], W [auth M]	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
V [auth L], W [auth M]	IPR000484	Photosynthetic reaction centre, L/M	Family
V [auth L], W [auth M]	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
V [auth L], W [auth M]	IPR005871	Photosynthetic reaction centre, L subunit	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth 0], AA [auth Q], B [auth 1], BA [auth R], C [auth 2] A [auth 0], AA [auth Q], B [auth 1], BA [auth R], C [auth 2], CA [auth S], D [auth 3], DA [auth T], E [auth 4], EA [auth U], F [auth 5], FA [auth V], G [auth 6], GA [auth W], H [auth 7], I [auth 8], J [auth 9], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth 0], AA [auth Q], B [auth 1], BA [auth R], C [auth 2] A [auth 0], AA [auth Q], B [auth 1], BA [auth R], C [auth 2], CA [auth S], D [auth 3], DA [auth T], E [auth 4], EA [auth U], F [auth 5], FA [auth V], G [auth 6], GA [auth W], H [auth 7], I [auth 8], J [auth 9], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	MemProtMD	Annotated as membrane protein by MemProtMD