Annotations: 8YDM

Cryo-EM structure of CaRC-LH complex from Chloroflexus aurantiacus

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
M	LRR_1, LRR_5, LRR_6, LRR_8	e8ydmM01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: LRR_1, LRR_5, LRR_6, LRR_8	ECOD (v295)
L	LRR_1, LRR_5, LRR_6, LRR_8	e8ydmL01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: LRR_1, LRR_5, LRR_6, LRR_8	ECOD (v295)
C	LRR_1, LRR_5, LRR_6, LRR_8	e8ydmC01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: LRR_1, LRR_5, LRR_6, LRR_8	ECOD (v295)
R	UCR_hinge	e8ydmR1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
P	UCR_hinge	e8ydmP1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
K	UCR_hinge	e8ydmK1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
I	UCR_hinge	e8ydmI1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
G	UCR_hinge	e8ydmG1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
E	UCR_hinge	e8ydmE1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
B	LRR_1, LRR_5, LRR_6, LRR_8	e8ydmB01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: LRR_1, LRR_5, LRR_6, LRR_8	ECOD (v295)
Q	UCR_hinge	e8ydmQ1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
O	UCR_hinge	e8ydmO1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
J	UCR_hinge	e8ydmJ1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
H	UCR_hinge	e8ydmH1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
F	UCR_hinge	e8ydmF1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
D	UCR_hinge	e8ydmD1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: UCR_hinge	ECOD (v295)
A	LRR_1, LRR_5, LRR_6, LRR_8	e8ydmA01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: LRR_1, LRR_5, LRR_6, LRR_8	ECOD (v295)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
M	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
L	PF00124	Photosynthetic reaction centre protein (Photo_RC)	Photosynthetic reaction centre protein	-	Family
C	PF02276	Photosynthetic reaction centre cytochrome C subunit (CytoC_RC)	Photosynthetic reaction centre cytochrome C subunit	-	Family
B, E, G, I, K B, E, G, I, K, P, R	PF00556	Antenna complex alpha/beta subunit (LHC)	Antenna complex alpha/beta subunit		Domain
A, D, F, H, J A, D, F, H, J, O, Q	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
N	hypothetical protein chain N	-	-	-
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	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid cell periphery protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid cell periphery plasma membrane membrane-bounded organelle plasma membrane light-harvesting complex intracellular vesicle plasma membrane-derived chromatophore light-harvesting complex intracellular membrane-bounded organelle cytoplasmic vesicle cytoplasm vesicle
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	protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid cell periphery protein-containing complex photosystem intracellular anatomical structure photosystem II membrane membrane protein complex intracellular membraneless organelle intracellular organelle cellular anatomical structure organelle membraneless organelle photosynthetic membrane thylakoid cell periphery plasma membrane membrane-bounded organelle plasma membrane light-harvesting complex intracellular vesicle plasma membrane-derived chromatophore light-harvesting complex intracellular membrane-bounded organelle cytoplasmic vesicle cytoplasm vesicle
C	Cytochrome c-554	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	cellular anatomical structure extracellular region periplasmic space 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 cellular anatomical structure extracellular region periplasmic space 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, E, G, I, K B, E, G, I, K, P, R	Light-harvesting protein B-808/866 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, D, F, H, J A, D, F, H, J, O, Q	Light-harvesting protein B-808/866 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
M	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
M	IPR005781	Photosynthetic reaction centre, M subunit	Family
M	IPR000484	Photosynthetic reaction centre, L/M	Family
M	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
L	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
L	IPR000484	Photosynthetic reaction centre, L/M	Family
L	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
L	IPR005871	Photosynthetic reaction centre, L subunit	Family
C	IPR036280	Multiheme cytochrome superfamily	Homologous Superfamily
C	IPR023119	Multihaem cytochrome, PRC subunit superfamily	Homologous Superfamily
C	IPR054997	Cytochrome c-554 Puf2C	Family
C	IPR003158	Photosynthetic reaction centre, cytochrome c subunit	Family
B, E, G, I, K B, E, G, I, K, P, R	IPR000066	Antenna complex, alpha/beta subunit	Domain
B, E, G, I, K B, E, G, I, K, P, R	IPR023624	Antenna complex, beta domain superfamily	Homologous Superfamily
B, E, G, I, K B, E, G, I, K, P, R	IPR035889	Light-harvesting complex	Homologous Superfamily
B, E, G, I, K B, E, G, I, K, P, R	IPR023623	Antenna complex, beta subunit, conserved site	Conserved Site
B, E, G, I, K B, E, G, I, K, P, R	IPR002362	Light-harvesting protein B beta chain	Family
A, D, F, H, J A, D, F, H, J, O, Q	IPR000066	Antenna complex, alpha/beta subunit	Domain
A, D, F, H, J A, D, F, H, J, O, Q	IPR018332	Antenna complex, alpha subunit	Family
A, D, F, H, J A, D, F, H, J, O, Q	IPR002361	Antenna complex, alpha subunit conserved site	Conserved Site
A, D, F, H, J A, D, F, H, J, O, Q	IPR035889	Light-harvesting complex	Homologous Superfamily

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, O, P, Q, R	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, O, P, Q, R	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Light-Harvesting+Reaction Center Complexes	RC-LH complex