3LKO

Crystal Structure of HLA B*3501 in complex with influenza NP418 epitope from 1934 strain

Domain Annotation: SCOP Classification SCOP Database (version: 2.0) Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species
A	d3lkoa2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	Class I MHC, alpha-3 domain	human (Homo sapiens ) [TaxId: 9606 ]
A	d3lkoa1	Alpha and beta proteins (a+b)	MHC antigen-recognition domain	MHC antigen-recognition domain	MHC antigen-recognition domain	Class I MHC, alpha-1 and alpha-2 domains	human (Homo sapiens ) [TaxId: 9606 ]
B	d3lkob1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	beta2-microglobulin	human (Homo sapiens ) [TaxId: 9606 ]
B	d3lkob2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ]

Domain Annotation: CATH CATH Database (version 4.2.0) Homepage

Chain	Domain	Class	Architecture	Topology	Homology
A	3.30.500.10	Alpha Beta	2-Layer Sandwich	Murine Class I Major Histocompatibility Complex, H2-DB	Chain A, domain 1
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Identifier	Description	Comments	Source
A	PF00129	Class I Histocompatibility antigen, domains alpha 1 and 2 (MHC_I)	Class I Histocompatibility antigen, domains alpha 1 and 2	-	Domain
A	PF06623	MHC_I C-terminus (MHC_I_C)	MHC_I C-terminus	-	Family
A	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain	-	Domain
B	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain	-	Domain

Gene Product Annotation Gene Product Annotation

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	HLA class I histocompatibility antigen, B-35 alpha chain	binding protein binding chaperone binding antigen binding amide binding peptide binding peptide antigen binding signaling receptor binding TAP binding	detection of biotic stimulus response to external stimulus response to biotic stimulus response to bacterium detection of bacterium response to external biotic stimulus biological process involved in interspecies interaction between organisms response to stimulus detection of stimulus response to other organism detection of other organism detection of external biotic stimulus viral process biological process involved in symbiotic interaction	cell surface cellular anatomical entity intracellular anatomical structure cytoplasm endosome early endosome endosome membrane endomembrane system membrane organelle membrane cytoplasmic vesicle early endosome membrane vesicle organelle membrane-bounded organelle intracellular vesicle bounding membrane of organelle endoplasmic reticulum intracellular organelle intracellular membrane-bounded organelle vesicle membrane ER to Golgi transport vesicle membrane transport vesicle COPII-coated ER to Golgi transport vesicle coated vesicle transport vesicle membrane cytoplasmic vesicle membrane coated vesicle membrane extracellular region extracellular space extracellular organelle extracellular exosome extracellular vesicle Golgi apparatus endoplasmic reticulum membrane integral component of membrane integral component of endoplasmic reticulum membrane intrinsic component of membrane intrinsic component of endoplasmic reticulum membrane intrinsic component of organelle membrane integral component of organelle membrane organelle subcompartment nuclear outer membrane-endoplasmic reticulum membrane network integral component of lumenal side of endoplasmic reticulum membrane side of membrane lumenal side of endoplasmic reticulum membrane lumenal side of membrane endoplasmic reticulum subcompartment plasma membrane integral component of plasma membrane intrinsic component of plasma membrane cell periphery protein-containing complex MHC protein complex MHC class I protein complex membrane protein complex plasma membrane protein complex endocytic vesicle endocytic vesicle membrane phagocytic vesicle membrane phagocytic vesicle recycling endosome recycling endosome membrane secretory granule secretory granule membrane secretory vesicle
B	Beta-2-microglobulin	binding protein binding identical protein binding protein homodimerization activity protein dimerization activity	cellular process response to inorganic substance response to metal ion response to iron ion response to chemical response to stimulus cellular response to stimulus cellular response to chemical stimulus cellular response to inorganic substance cellular response to metal ion cellular response to iron ion response to iron(III) ion cellular response to iron(III) ion response to nicotine cellular response to nicotine homeostatic process chemical homeostasis ion homeostasis metal ion homeostasis iron ion homeostasis transition metal ion homeostasis cation homeostasis biological regulation regulation of biological quality inorganic ion homeostasis cell population proliferation negative regulation of cell population proliferation regulation of cell population proliferation negative regulation of biological process negative regulation of cellular process epithelial cell proliferation regulation of epithelial cell proliferation negative regulation of epithelial cell proliferation regulation of biological process regulation of cellular process negative regulation of protein binding regulation of protein binding negative regulation of molecular function regulation of binding negative regulation of binding regulation of molecular function regulation of receptor binding negative regulation of receptor binding positive regulation of molecular function positive regulation of binding regulation of ferrous iron binding positive regulation of ferrous iron binding positive regulation of protein binding positive regulation of receptor binding regulation of transferrin receptor binding positive regulation of transferrin receptor binding cellular component organization cellular component assembly protein-containing complex subunit organization cellular component biogenesis protein complex oligomerization protein homooligomerization protein tetramerization protein homotetramerization protein-containing complex assembly cellular component organization or biogenesis viral process biological process involved in symbiotic interaction biological process involved in interspecies interaction between organisms regulation of defense response to virus by virus response to cadmium ion response to drug	intracellular anatomical structure cytoplasm cytosol cellular anatomical entity endosome early endosome endomembrane system cytoplasmic vesicle endosome lumen early endosome lumen membrane-enclosed lumen vesicle organelle membrane-bounded organelle intracellular organelle organelle lumen intracellular organelle lumen intracellular vesicle endosome membrane membrane organelle membrane early endosome membrane bounding membrane of organelle endoplasmic reticulum endoplasmic reticulum lumen intracellular membrane-bounded organelle vesicle membrane ER to Golgi transport vesicle membrane transport vesicle COPII-coated ER to Golgi transport vesicle coated vesicle transport vesicle membrane cytoplasmic vesicle membrane coated vesicle membrane plasma membrane external side of plasma membrane cell surface cell periphery side of membrane extracellular region extracellular space extracellular organelle extracellular exosome extracellular vesicle focal adhesion cell junction cell-substrate junction anchoring junction Golgi apparatus protein-containing complex receptor complex membrane protein complex plasma membrane protein complex plasma membrane signaling receptor complex HFE-transferrin receptor complex endoplasmic reticulum membrane integral component of membrane integral component of endoplasmic reticulum membrane intrinsic component of membrane intrinsic component of endoplasmic reticulum membrane intrinsic component of organelle membrane integral component of organelle membrane organelle subcompartment nuclear outer membrane-endoplasmic reticulum membrane network MHC class I peptide loading complex endoplasmic reticulum subcompartment endoplasmic reticulum protein-containing complex MHC protein complex MHC class I protein complex endocytic vesicle endocytic vesicle membrane phagocytic vesicle membrane phagocytic vesicle recycling endosome recycling endosome membrane secretory granule vesicle lumen secretory granule lumen specific granule lumen specific granule cytoplasmic vesicle lumen secretory vesicle tertiary granule tertiary granule lumen
C	NP418 epitope from 1934 influenza strain	none	none	none

RCSB PDB is funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.