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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

9J4S

Structural basis for recognition of SARS-CoV-2 conserved nucleocapside epitopes by dominant T cell receptors

Functional Information from GO Data
ChainGOidnamespacecontents
D0000139cellular_componentGolgi membrane
D0002376biological_processimmune system process
D0002474biological_processantigen processing and presentation of peptide antigen via MHC class I
D0002477biological_processantigen processing and presentation of exogenous peptide antigen via MHC class Ib
D0002502biological_processpeptide antigen assembly with MHC class I protein complex
D0002503biological_processpeptide antigen assembly with MHC class II protein complex
D0002715biological_processregulation of natural killer cell mediated immunity
D0002726biological_processpositive regulation of T cell cytokine production
D0005198molecular_functionstructural molecule activity
D0005515molecular_functionprotein binding
D0005576cellular_componentextracellular region
D0005615cellular_componentextracellular space
D0005765cellular_componentlysosomal membrane
D0005783cellular_componentendoplasmic reticulum
D0005788cellular_componentendoplasmic reticulum lumen
D0005794cellular_componentGolgi apparatus
D0005886cellular_componentplasma membrane
D0005925cellular_componentfocal adhesion
D0006879biological_processintracellular iron ion homeostasis
D0007608biological_processsensory perception of smell
D0007611biological_processlearning or memory
D0009897cellular_componentexternal side of plasma membrane
D0009986cellular_componentcell surface
D0010038biological_processresponse to metal ion
D0012507cellular_componentER to Golgi transport vesicle membrane
D0016020cellular_componentmembrane
D0019885biological_processantigen processing and presentation of endogenous peptide antigen via MHC class I
D0019886biological_processantigen processing and presentation of exogenous peptide antigen via MHC class II
D0023026molecular_functionMHC class II protein complex binding
D0030670cellular_componentphagocytic vesicle membrane
D0031901cellular_componentearly endosome membrane
D0031902cellular_componentlate endosome membrane
D0031905cellular_componentearly endosome lumen
D0033572biological_processtransferrin transport
D0034756biological_processregulation of iron ion transport
D0034757biological_processnegative regulation of iron ion transport
D0035580cellular_componentspecific granule lumen
D0042605molecular_functionpeptide antigen binding
D0042612cellular_componentMHC class I protein complex
D0042613cellular_componentMHC class II protein complex
D0042802molecular_functionidentical protein binding
D0042803molecular_functionprotein homodimerization activity
D0042824cellular_componentMHC class I peptide loading complex
D0048260biological_processpositive regulation of receptor-mediated endocytosis
D0048261biological_processnegative regulation of receptor-mediated endocytosis
D0050680biological_processnegative regulation of epithelial cell proliferation
D0050768biological_processnegative regulation of neurogenesis
D0050778biological_processpositive regulation of immune response
D0050870biological_processpositive regulation of T cell activation
D0051289biological_processprotein homotetramerization
D0055038cellular_componentrecycling endosome membrane
D0070062cellular_componentextracellular exosome
D0071281biological_processcellular response to iron ion
D0071316biological_processcellular response to nicotine
D1904724cellular_componenttertiary granule lumen
D1990000biological_processamyloid fibril formation
D1990712cellular_componentHFE-transferrin receptor complex
D2000774biological_processpositive regulation of cellular senescence
D2000978biological_processnegative regulation of forebrain neuron differentiation
H0000139cellular_componentGolgi membrane
H0002376biological_processimmune system process
H0002474biological_processantigen processing and presentation of peptide antigen via MHC class I
H0002477biological_processantigen processing and presentation of exogenous peptide antigen via MHC class Ib
H0002502biological_processpeptide antigen assembly with MHC class I protein complex
H0002503biological_processpeptide antigen assembly with MHC class II protein complex
H0002715biological_processregulation of natural killer cell mediated immunity
H0002726biological_processpositive regulation of T cell cytokine production
H0005198molecular_functionstructural molecule activity
H0005515molecular_functionprotein binding
H0005576cellular_componentextracellular region
H0005615cellular_componentextracellular space
H0005765cellular_componentlysosomal membrane
H0005783cellular_componentendoplasmic reticulum
H0005788cellular_componentendoplasmic reticulum lumen
H0005794cellular_componentGolgi apparatus
H0005886cellular_componentplasma membrane
H0005925cellular_componentfocal adhesion
H0006879biological_processintracellular iron ion homeostasis
H0007608biological_processsensory perception of smell
H0007611biological_processlearning or memory
H0009897cellular_componentexternal side of plasma membrane
H0009986cellular_componentcell surface
H0010038biological_processresponse to metal ion
H0012507cellular_componentER to Golgi transport vesicle membrane
H0016020cellular_componentmembrane
H0019885biological_processantigen processing and presentation of endogenous peptide antigen via MHC class I
H0019886biological_processantigen processing and presentation of exogenous peptide antigen via MHC class II
H0023026molecular_functionMHC class II protein complex binding
H0030670cellular_componentphagocytic vesicle membrane
H0031901cellular_componentearly endosome membrane
H0031902cellular_componentlate endosome membrane
H0031905cellular_componentearly endosome lumen
H0033572biological_processtransferrin transport
H0034756biological_processregulation of iron ion transport
H0034757biological_processnegative regulation of iron ion transport
H0035580cellular_componentspecific granule lumen
H0042605molecular_functionpeptide antigen binding
H0042612cellular_componentMHC class I protein complex
H0042613cellular_componentMHC class II protein complex
H0042802molecular_functionidentical protein binding
H0042803molecular_functionprotein homodimerization activity
H0042824cellular_componentMHC class I peptide loading complex
H0048260biological_processpositive regulation of receptor-mediated endocytosis
H0048261biological_processnegative regulation of receptor-mediated endocytosis
H0050680biological_processnegative regulation of epithelial cell proliferation
H0050768biological_processnegative regulation of neurogenesis
H0050778biological_processpositive regulation of immune response
H0050870biological_processpositive regulation of T cell activation
H0051289biological_processprotein homotetramerization
H0055038cellular_componentrecycling endosome membrane
H0070062cellular_componentextracellular exosome
H0071281biological_processcellular response to iron ion
H0071316biological_processcellular response to nicotine
H1904724cellular_componenttertiary granule lumen
H1990000biological_processamyloid fibril formation
H1990712cellular_componentHFE-transferrin receptor complex
H2000774biological_processpositive regulation of cellular senescence
H2000978biological_processnegative regulation of forebrain neuron differentiation
Functional Information from PROSITE/UniProt
site_idPS00290
Number of Residues7
DetailsIG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YTCHVQH
ChainResidueDetails
CTYR257-HIS263
DTYR79-HIS85
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues348
DetailsDomain: {"description":"Ig-like C1-type"}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues182
DetailsRegion: {"description":"Alpha-2","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues182
DetailsRegion: {"description":"Alpha-3","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues12
DetailsMotif: {"description":"Bw6 motif","evidences":[{"source":"PubMed","id":"25480565","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues14
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"25808313","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues2
DetailsGlycosylation: {"description":"N-linked (GlcNAc...) asparagine","evidences":[{"source":"PubMed","id":"19159218","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues2
DetailsModified residue: {"description":"Pyrrolidone carboxylic acid; in form pI 5.3","evidences":[{"source":"PubMed","id":"7554280","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues2
DetailsGlycosylation: {"description":"N-linked (Glc) (glycation) isoleucine; in hemodialysis-associated amyloidosis","evidences":[{"source":"PubMed","id":"7918443","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues12
DetailsGlycosylation: {"description":"N-linked (Glc) (glycation) lysine; in vitro","evidences":[{"source":"PubMed","id":"7918443","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues2
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"33264373","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"7ACS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7ACT","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

246333

PDB entries from 2025-12-17

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