5OJR | pdb_00005ojr

YCF48 bound to D1 peptide

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	GH74 xyloglucanase-like	8052059	3000502	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GH74 xyloglucanase-like	8052059	3000502	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GH74 xyloglucanase-like	8052059	3000502	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GH74 xyloglucanase-like	8052059	3000502	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)
A	PSII_BNR	e5ojrA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PSII_BNR	ECOD (1.6)
B	PSII_BNR	e5ojrB1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PSII_BNR	ECOD (1.6)
C	PSII_BNR	e5ojrC1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PSII_BNR	ECOD (1.6)
D	PSII_BNR	e5ojrD1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PSII_BNR	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF14870	Photosynthesis system II assembly factor YCF48 (PSII_BNR)	Photosynthesis system II assembly factor YCF48	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Ycf48-like protein	-	photosynthesis metabolic process cellular process	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 membrane-bounded organelle 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 membrane-bounded organelle membrane-enclosed lumen intracellular vesicle cytoplasmic vesicle lumen intracellular organelle lumen cell periphery cytoplasmic vesicle bacterial thylakoid vesicle vesicle lumen plasma membrane intracellular membrane-bounded organelle organelle lumen cytoplasm plasma membrane-derived thylakoid lumen thylakoid lumen
E, F	Photosystem II protein D1 3	oxidoreductase activity oxygen evolving activity catalytic activity chlorophyll binding binding tetrapyrrole binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor oxidoreductase activity, acting on diphenols and related substances as donors	response to stimulus response to chemical response to stress response to herbicide response to toxic substance 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 plasma membrane-derived chromatophore membrane 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 plasma membrane-derived chromatophore membrane plasma membrane plasma membrane-derived chromatophore thylakoid membrane cell periphery plasma membrane-derived thylakoid membrane plasma membrane region bacterial thylakoid cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR016705	Photosynthesis system II assembly factor Ycf48/Hcf136	Family
A, B, C, D	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A, B, C, D	IPR028203	Photosynthesis system II assembly factor Ycf48/Hcf136-like domain	Domain
E, F	IPR036854	Photosystem II protein D1/D2 superfamily	Homologous Superfamily
E, F	IPR005867	Photosystem II protein D1	Family
E, F	IPR000484	Photosynthetic reaction centre, L/M	Family
E, F	IPR055265	Photosynthetic reaction centre, L/M, conserved site	Conserved Site
E, F	IPR055266	Photosystem II protein D1/D2	Family

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.