6I6J | pdb_00006i6j

Crystal structure of the KDEL receptor bound to synthetic nanobody.

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth C]	V-set_8	e6i6jC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth C]	Heavy Chain	IGHV1	-	er lumen protein-retaining receptor 2	SAbDab (2025-04-11)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00810	ER lumen protein retaining receptor (ER_lumen_recept)	ER lumen protein retaining receptor	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	ER lumen protein-retaining receptor 2	signal sequence binding binding ER retention sequence binding peptide binding KDEL sequence binding	maintenance of protein location protein localization cellular localization maintenance of location maintenance of location in cell localization maintenance of protein localization in endoplasmic reticulum maintenance of protein location in cell cellular macromolecule localization macromolecule localization protein localization to organelle cellular process maintenance of protein localization in organelle protein localization to endoplasmic reticulum maintenance of protein location protein localization cellular localization maintenance of location maintenance of location in cell localization maintenance of protein localization in endoplasmic reticulum maintenance of protein location in cell cellular macromolecule localization macromolecule localization protein localization to organelle cellular process maintenance of protein localization in organelle protein localization to endoplasmic reticulum protein retention in ER lumen transport retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum establishment of localization Golgi vesicle transport vesicle-mediated transport establishment of protein localization nitrogen compound transport protein transport	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus cis-Golgi network organelle intracellular membrane-bounded organelle cytoplasm endomembrane system membrane intracellular vesicle COPI-coated vesicle COPI-coated vesicle membrane membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus cis-Golgi network organelle intracellular membrane-bounded organelle cytoplasm endomembrane system membrane intracellular vesicle COPI-coated vesicle COPI-coated vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle coated vesicle membrane vesicle membrane cytoplasmic vesicle Golgi-associated vesicle membrane coated vesicle Golgi-associated vesicle vesicle organelle membrane Golgi membrane endoplasmic reticulum organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane
B [auth C]	Sybody	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000133	ER lumen protein retaining receptor	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Alpha-helical polytopic	PQ-loop transporters	ER lumen protein retaining receptor

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A	MemProtMD	Annotated as membrane protein by MemProtMD

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.