8Z08

The structure of HLA-A*2402 complex with peptide from SARS-CoV-2 S448-456 NYNYQYRLF(BA.2.12.1)

Functional Information from GO Data

Chain	GOid	namespace	contents
C	0000139	cellular_component	Golgi membrane
C	0002376	biological_process	immune system process
C	0002474	biological_process	antigen processing and presentation of peptide antigen via MHC class I
C	0005886	cellular_component	plasma membrane
C	0012507	cellular_component	ER to Golgi transport vesicle membrane
C	0016020	cellular_component	membrane
C	0030670	cellular_component	phagocytic vesicle membrane
C	0031901	cellular_component	early endosome membrane
C	0042612	cellular_component	MHC class I protein complex
C	0055038	cellular_component	recycling endosome membrane
C	0098553	cellular_component	lumenal side of endoplasmic reticulum membrane
D	0000139	cellular_component	Golgi membrane
D	0002376	biological_process	immune system process
D	0002474	biological_process	antigen processing and presentation of peptide antigen via MHC class I
D	0002477	biological_process	antigen processing and presentation of exogenous peptide antigen via MHC class Ib
D	0002502	biological_process	peptide antigen assembly with MHC class I protein complex
D	0002503	biological_process	peptide antigen assembly with MHC class II protein complex
D	0002715	biological_process	regulation of natural killer cell mediated immunity
D	0002726	biological_process	positive regulation of T cell cytokine production
D	0005198	molecular_function	structural molecule activity
D	0005515	molecular_function	protein binding
D	0005576	cellular_component	extracellular region
D	0005615	cellular_component	extracellular space
D	0005765	cellular_component	lysosomal membrane
D	0005783	cellular_component	endoplasmic reticulum
D	0005788	cellular_component	endoplasmic reticulum lumen
D	0005794	cellular_component	Golgi apparatus
D	0005886	cellular_component	plasma membrane
D	0005925	cellular_component	focal adhesion
D	0006879	biological_process	intracellular iron ion homeostasis
D	0006955	biological_process	immune response
D	0007608	biological_process	sensory perception of smell
D	0007611	biological_process	learning or memory
D	0009897	cellular_component	external side of plasma membrane
D	0009986	cellular_component	cell surface
D	0010038	biological_process	response to metal ion
D	0012507	cellular_component	ER to Golgi transport vesicle membrane
D	0016020	cellular_component	membrane
D	0019885	biological_process	antigen processing and presentation of endogenous peptide antigen via MHC class I
D	0019886	biological_process	antigen processing and presentation of exogenous peptide antigen via MHC class II
D	0023026	molecular_function	MHC class II protein complex binding
D	0030670	cellular_component	phagocytic vesicle membrane
D	0031901	cellular_component	early endosome membrane
D	0031902	cellular_component	late endosome membrane
D	0031905	cellular_component	early endosome lumen
D	0033572	biological_process	transferrin transport
D	0034756	biological_process	regulation of iron ion transport
D	0034757	biological_process	negative regulation of iron ion transport
D	0035580	cellular_component	specific granule lumen
D	0042605	molecular_function	peptide antigen binding
D	0042612	cellular_component	MHC class I protein complex
D	0042613	cellular_component	MHC class II protein complex
D	0042802	molecular_function	identical protein binding
D	0042803	molecular_function	protein homodimerization activity
D	0042824	cellular_component	MHC class I peptide loading complex
D	0048260	biological_process	positive regulation of receptor-mediated endocytosis
D	0048261	biological_process	negative regulation of receptor-mediated endocytosis
D	0050680	biological_process	negative regulation of epithelial cell proliferation
D	0050768	biological_process	negative regulation of neurogenesis
D	0050778	biological_process	positive regulation of immune response
D	0050870	biological_process	positive regulation of T cell activation
D	0051289	biological_process	protein homotetramerization
D	0055038	cellular_component	recycling endosome membrane
D	0070062	cellular_component	extracellular exosome
D	0071281	biological_process	cellular response to iron ion
D	0071316	biological_process	cellular response to nicotine
D	1904724	cellular_component	tertiary granule lumen
D	1990000	biological_process	amyloid fibril formation
D	1990712	cellular_component	HFE-transferrin receptor complex
D	2000774	biological_process	positive regulation of cellular senescence
D	2000978	biological_process	negative regulation of forebrain neuron differentiation

Functional Information from PROSITE/UniProt

site_id	PS00290
Number of Residues	7
Details	IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YTCHVQH

Chain	Residue	Details
C	TYR257-HIS263
D	TYR78-HIS84

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Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI2
Number of Residues	88
Details	Domain: {"description":"Ig-like C1-type"}

Chain

Residue

Details

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site_id	SWS_FT_FI3
Number of Residues	1
Details	Modified residue: {"description":"Pyrrolidone carboxylic acid; in form pI 5.3","evidences":[{"source":"PubMed","id":"7554280","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI4
Number of Residues	1
Details	Glycosylation: {"description":"N-linked (Glc) (glycation) isoleucine; in hemodialysis-associated amyloidosis","evidences":[{"source":"PubMed","id":"7918443","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI5
Number of Residues	6
Details	Glycosylation: {"description":"N-linked (Glc) (glycation) lysine; in vitro","evidences":[{"source":"PubMed","id":"7918443","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI6
Number of Residues	8
Details	Region: {"description":"Immunodominant HLA epitope recognized by the CD8+; called NF9 peptide","evidences":[{"source":"PubMed","id":"34171266","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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