Annotations: 6ZWA

CLIP peptide bound to chicken MHC class II molecule (BL-2) from B19 haplotype

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	NDUS4	e6zwaB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: NDUS4	ECOD (v294.1)
A	RNase_H	e6zwaA1	A: a/b three-layered sandwiches	X: CNF1/YfiH-like putative cysteine hydrolases	H: Bromodomain	T: Bromodomain	F: RNase_H	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF00969	Class II histocompatibility antigen, beta domain (MHC_II_beta)	Class II histocompatibility antigen, beta domain		Domain
B	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Invariant chain isoform p41,MHC class II beta chain 2	protein binding binding signaling receptor binding MHC class II protein binding MHC protein binding MHC class I protein binding macrophage migration inhibitory factor binding cytokine binding	antigen processing and presentation antigen processing and presentation of peptide or polysaccharide antigen via MHC class II immune system process response to stimulus immune response adaptive immune response cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell antigen processing and presentation antigen processing and presentation of peptide or polysaccharide antigen via MHC class II immune system process response to stimulus immune response adaptive immune response cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein trimerization protein complex oligomerization protein-containing complex assembly cellular component organization or biogenesis	MHC protein complex cell periphery MHC class II protein complex protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane membrane protein complex extracellular region cell surface intracellular anatomical structure cytoplasm membrane-bounded organelle MHC protein complex cell periphery MHC class II protein complex protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane membrane protein complex extracellular region cell surface intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle endoplasmic reticulum intracellular membrane-bounded organelle endomembrane system
A	MHC class II alpha chain	cation binding ion binding binding metal ion binding small molecule binding	antigen processing and presentation immune system process response to stimulus immune response	MHC protein complex cell periphery MHC class II protein complex protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane membrane protein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR003597	Immunoglobulin C1-set	Domain
B	IPR000353	MHC class II, beta chain, N-terminal	Domain
B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B	IPR011162	MHC classes I/II-like antigen recognition protein	Homologous Superfamily
B	IPR007110	Immunoglobulin-like domain	Domain
B	IPR050160	Major Histocompatibility Complex/Immunoglobulin	Family
B	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
B	IPR014745	MHC class II, alpha/beta chain, N-terminal	Homologous Superfamily
B	IPR052001	MHC Class II Gamma Chain/Thyroglobulin	Family
B	IPR043530	HLA class II histocompatibility antigen, gamma subunit	Family
B	IPR015386	MHC class II-associated invariant chain/CLIP, MHC II-interacting	Domain
B	IPR022339	MHC class II-associated invariant chain	Family
B	IPR036613	MHC class II-associated invariant chain, trimerisation domain superfamily	Homologous Superfamily
B	IPR036857	Thyroglobulin type-1 superfamily	Homologous Superfamily
B	IPR000716	Thyroglobulin type-1	Domain
B	IPR011988	MHC class II-associated invariant chain, trimerisation	Domain
A	IPR003597	Immunoglobulin C1-set	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR011162	MHC classes I/II-like antigen recognition protein	Homologous Superfamily
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR001003	MHC class II, alpha chain, N-terminal	Domain
A	IPR050160	Major Histocompatibility Complex/Immunoglobulin	Family
A	IPR014745	MHC class II, alpha/beta chain, N-terminal	Homologous Superfamily

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

6ZWA | pdb_00006zwa

CLIP peptide bound to chicken MHC class II molecule (BL-2) from B19 haplotype

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage