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Yorodumi- PDB-3ciq: A regulatable switch mediates self-association in an immunoglobul... -
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Open data
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Basic information
| Entry | Database: PDB / ID: 3ciq | ||||||
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| Title | A regulatable switch mediates self-association in an immunoglobulin fold | ||||||
Components | Beta-2-microglobulin | ||||||
Keywords | IMMUNE SYSTEM / class-1 MHC / amyloid / protein folding / dialysis-related amyloidosis / beta-2 microglobulin / Disease mutation / Glycation / Glycoprotein / Immune response / Immunoglobulin domain / MHC I / Pyrrolidone carboxylic acid / Secreted | ||||||
| Function / homology | Function and homology informationnegative regulation of receptor binding / early endosome lumen / Nef mediated downregulation of MHC class I complex cell surface expression / DAP12 interactions / transferrin transport / cellular response to iron ion / Endosomal/Vacuolar pathway / Antigen Presentation: Folding, assembly and peptide loading of class I MHC / peptide antigen assembly with MHC class II protein complex / cellular response to iron(III) ion ...negative regulation of receptor binding / early endosome lumen / Nef mediated downregulation of MHC class I complex cell surface expression / DAP12 interactions / transferrin transport / cellular response to iron ion / Endosomal/Vacuolar pathway / Antigen Presentation: Folding, assembly and peptide loading of class I MHC / peptide antigen assembly with MHC class II protein complex / cellular response to iron(III) ion / MHC class II protein complex / negative regulation of forebrain neuron differentiation / antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent / ER to Golgi transport vesicle membrane / peptide antigen assembly with MHC class I protein complex / regulation of iron ion transport / regulation of erythrocyte differentiation / HFE-transferrin receptor complex / response to molecule of bacterial origin / MHC class I peptide loading complex / T cell mediated cytotoxicity / positive regulation of T cell cytokine production / antigen processing and presentation of endogenous peptide antigen via MHC class I / antigen processing and presentation of exogenous peptide antigen via MHC class II / positive regulation of immune response / MHC class I protein complex / positive regulation of T cell activation / peptide antigen binding / positive regulation of receptor-mediated endocytosis / negative regulation of neurogenesis / cellular response to nicotine / positive regulation of T cell mediated cytotoxicity / multicellular organismal-level iron ion homeostasis / specific granule lumen / phagocytic vesicle membrane / recycling endosome membrane / Interferon gamma signaling / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / negative regulation of epithelial cell proliferation / MHC class II protein complex binding / Modulation by Mtb of host immune system / late endosome membrane / sensory perception of smell / positive regulation of cellular senescence / tertiary granule lumen / DAP12 signaling / T cell differentiation in thymus / negative regulation of neuron projection development / ER-Phagosome pathway / protein refolding / early endosome membrane / protein homotetramerization / amyloid fibril formation / intracellular iron ion homeostasis / learning or memory / endoplasmic reticulum lumen / Amyloid fiber formation / Golgi membrane / lysosomal membrane / external side of plasma membrane / focal adhesion / Neutrophil degranulation / SARS-CoV-2 activates/modulates innate and adaptive immune responses / structural molecule activity / endoplasmic reticulum / Golgi apparatus / protein homodimerization activity / extracellular space / extracellular exosome / extracellular region / identical protein binding / membrane / plasma membrane / cytosol Similarity search - Function | ||||||
| Biological species | Homo sapiens (human) | ||||||
| Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.9 Å | ||||||
Authors | Calabrese, M.F. / Eakin, C.M. / Wang, J.M. / Miranker, A.D. | ||||||
Citation | Journal: Nat.Struct.Mol.Biol. / Year: 2008Title: A regulatable switch mediates self-association in an immunoglobulin fold. Authors: Calabrese, M.F. / Eakin, C.M. / Wang, J.M. / Miranker, A.D. #1: Journal: Nat.Struct.Mol.Biol. / Year: 2006Title: A native to amyloidogenic transition regulated by a backbone trigger Authors: Eakin, C.M. / Berman, A.J. / Miranker, A.D. #2: Journal: J.Mol.Biol. / Year: 2007Title: Formation of a stable oligomer of beta-2 microglobulin requires only transient encounter with Cu(II) Authors: Calabrese, M.F. / Miranker, A.D. | ||||||
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Structure visualization
| Structure viewer | Molecule: Molmil Jmol/JSmol |
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Downloads & links
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Download
| PDBx/mmCIF format | 3ciq.cif.gz | 253.5 KB | Display | PDBx/mmCIF format |
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| PDB format | pdb3ciq.ent.gz | 206.4 KB | Display | PDB format |
| PDBx/mmJSON format | 3ciq.json.gz | Tree view | PDBx/mmJSON format | |
| Others | Other downloads |
-Validation report
| Summary document | 3ciq_validation.pdf.gz | 515 KB | Display | wwPDB validaton report |
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| Full document | 3ciq_full_validation.pdf.gz | 525.8 KB | Display | |
| Data in XML | 3ciq_validation.xml.gz | 38.2 KB | Display | |
| Data in CIF | 3ciq_validation.cif.gz | 55.4 KB | Display | |
| Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ci/3ciq ftp://data.pdbj.org/pub/pdb/validation_reports/ci/3ciq | HTTPS FTP |
-Related structure data
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| Similar structure data |
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Assembly
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| Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments: Ens-ID: 1
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Homo sapiens (human)
X-RAY DIFFRACTION
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