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Yorodumi- PDB-2ak4: Crystal Structure of SB27 TCR in complex with HLA-B*3508-13mer peptide -
+Open data
-Basic information
Entry | Database: PDB / ID: 2ak4 | ||||||
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Title | Crystal Structure of SB27 TCR in complex with HLA-B*3508-13mer peptide | ||||||
Components |
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Keywords | IMMUNE SYSTEM / T cell receptor / bulged epitopes / pMHC-TCR complex | ||||||
Function / homology | Function and homology information symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint / release from viral latency / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF7 activity / alpha-beta T cell receptor complex / regulation of interleukin-12 production / regulation of dendritic cell differentiation / regulation of T cell anergy / regulation of interleukin-6 production / Translocation of ZAP-70 to Immunological synapse / Phosphorylation of CD3 and TCR zeta chains ...symbiont-mediated perturbation of host cell cycle G0/G1 transition checkpoint / release from viral latency / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF7 activity / alpha-beta T cell receptor complex / regulation of interleukin-12 production / regulation of dendritic cell differentiation / regulation of T cell anergy / regulation of interleukin-6 production / Translocation of ZAP-70 to Immunological synapse / Phosphorylation of CD3 and TCR zeta chains / symbiont-mediated perturbation of host cell cycle G1/S transition checkpoint / alpha-beta T cell activation / Generation of second messenger molecules / TAP binding / PD-1 signaling / protection from natural killer cell mediated cytotoxicity / immunoglobulin complex, circulating / immunoglobulin receptor binding / detection of bacterium / complement activation, classical pathway / antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent / antigen processing and presentation of endogenous peptide antigen via MHC class Ib / secretory granule membrane / positive regulation of ferrous iron binding / positive regulation of transferrin receptor binding / positive regulation of receptor binding / early endosome lumen / Nef mediated downregulation of MHC class I complex cell surface expression / DAP12 interactions / negative regulation of receptor binding / antigen binding / lumenal side of endoplasmic reticulum membrane / Endosomal/Vacuolar pathway / Antigen Presentation: Folding, assembly and peptide loading of class I MHC / response to bacterium / cellular response to iron(III) ion / antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent / negative regulation of forebrain neuron differentiation / ER to Golgi transport vesicle membrane / regulation of erythrocyte differentiation / peptide antigen assembly with MHC class I protein complex / response to molecule of bacterial origin / regulation of iron ion transport / MHC class I peptide loading complex / HFE-transferrin receptor complex / T cell mediated cytotoxicity / cellular response to iron ion / antigen processing and presentation of endogenous peptide antigen via MHC class I / positive regulation of T cell cytokine production / defense response / MHC class I protein complex / multicellular organismal-level iron ion homeostasis / negative regulation of neurogenesis / peptide antigen assembly with MHC class II protein complex / positive regulation of receptor-mediated endocytosis / MHC class II protein complex / cellular response to nicotine / positive regulation of T cell mediated cytotoxicity / recycling endosome membrane / specific granule lumen / phagocytic vesicle membrane / peptide antigen binding / positive regulation of cellular senescence / antigen processing and presentation of exogenous peptide antigen via MHC class II / negative regulation of epithelial cell proliferation / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / Interferon gamma signaling / positive regulation of immune response / Modulation by Mtb of host immune system / Interferon alpha/beta signaling / sensory perception of smell / positive regulation of T cell activation / Downstream TCR signaling / positive regulation of protein binding / tertiary granule lumen / DAP12 signaling / negative regulation of neuron projection development / MHC class II protein complex binding / late endosome membrane / T cell differentiation in thymus / T cell receptor signaling pathway / ER-Phagosome pathway / iron ion transport / protein-folding chaperone binding / early endosome membrane / protein refolding / antibacterial humoral response / protein homotetramerization / intracellular iron ion homeostasis / adaptive immune response / sequence-specific DNA binding / amyloid fibril formation / blood microparticle / learning or memory / protein dimerization activity / immune response / Amyloid fiber formation / DNA-binding transcription factor activity / lysosomal membrane / external side of plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.5 Å | ||||||
Authors | Tynan, F.E. / Burrows, S.R. / Buckle, A.M. / Clements, C.S. / Borg, N.A. / Miles, J.J. / Beddoe, T. / Whisstock, J.C. / Wilce, M.C. / Silins, S.L. ...Tynan, F.E. / Burrows, S.R. / Buckle, A.M. / Clements, C.S. / Borg, N.A. / Miles, J.J. / Beddoe, T. / Whisstock, J.C. / Wilce, M.C. / Silins, S.L. / Burrows, J.M. / Kjer-Nielsen, L. / Konstenko, L. / Purcell, A.W. / McCluskey, J. / Rossjohn, J. | ||||||
Citation | Journal: Nat.Immunol. / Year: 2005 Title: T cell receptor recognition of a 'super-bulged' major histocompatibility complex class I-bound peptide Authors: Tynan, F.E. / Burrows, S.R. / Buckle, A.M. / Clements, C.S. / Borg, N.A. / Miles, J.J. / Beddoe, T. / Whisstock, J.C. / Wilce, M.C. / Silins, S.L. / Burrows, J.M. / Kjer-Nielsen, L. / ...Authors: Tynan, F.E. / Burrows, S.R. / Buckle, A.M. / Clements, C.S. / Borg, N.A. / Miles, J.J. / Beddoe, T. / Whisstock, J.C. / Wilce, M.C. / Silins, S.L. / Burrows, J.M. / Kjer-Nielsen, L. / Kostenko, L. / Purcell, A.W. / McCluskey, J. / Rossjohn, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ak4.cif.gz | 650.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ak4.ent.gz | 539.3 KB | Display | PDB format |
PDBx/mmJSON format | 2ak4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ak/2ak4 ftp://data.pdbj.org/pub/pdb/validation_reports/ak/2ak4 | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
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