- PDB-4u1s: HLA class I micropolymorphisms determine peptide-HLA landscape an... -
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基本情報
登録情報
データベース: PDB / ID: 4u1s
タイトル
HLA class I micropolymorphisms determine peptide-HLA landscape and dictate differential HIV-1 escape through identical epitopes
要素
Beta-2-microglobulin
HLA class I histocompatibility antigen, B-81 alpha chain
Vpr protein
キーワード
IMMUNE SYSTEM / Immunoglobulin / HLA / HIV
機能・相同性
機能・相同性情報
Vpr-mediated induction of apoptosis by mitochondrial outer membrane permeabilization / symbiont-mediated arrest of host cell cycle during G2/M transition / symbiont-mediated perturbation of host cell cycle progression / biological process involved in interaction with host / regulation of interleukin-12 production / regulation of dendritic cell differentiation / regulation of T cell anergy / negative regulation of DNA repair / regulation of interleukin-6 production / Integration of viral DNA into host genomic DNA ...Vpr-mediated induction of apoptosis by mitochondrial outer membrane permeabilization / symbiont-mediated arrest of host cell cycle during G2/M transition / symbiont-mediated perturbation of host cell cycle progression / biological process involved in interaction with host / regulation of interleukin-12 production / regulation of dendritic cell differentiation / regulation of T cell anergy / negative regulation of DNA repair / regulation of interleukin-6 production / Integration of viral DNA into host genomic DNA / Autointegration results in viral DNA circles / Minus-strand DNA synthesis / Plus-strand DNA synthesis / 2-LTR circle formation / Uncoating of the HIV Virion / Vpr-mediated nuclear import of PICs / Early Phase of HIV Life Cycle / Integration of provirus / APOBEC3G mediated resistance to HIV-1 infection / TAP binding / protection from natural killer cell mediated cytotoxicity / 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 / Binding and entry of HIV virion / detection of bacterium / viral life cycle / negative regulation of receptor binding / secretory granule membrane / early endosome lumen / Nef mediated downregulation of MHC class I complex cell surface expression / DAP12 interactions / transferrin transport / Assembly Of The HIV Virion / cellular response to iron ion / lumenal side of endoplasmic reticulum membrane / Endosomal/Vacuolar pathway / Budding and maturation of HIV virion / Antigen Presentation: Folding, assembly and peptide loading of class I MHC / peptide antigen assembly with MHC class II protein complex / symbiont-mediated activation of host apoptosis / antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent / cellular response to iron(III) ion / MHC class II protein complex / negative regulation of forebrain neuron differentiation / ER to Golgi transport vesicle membrane / peptide antigen assembly with MHC class I protein complex / regulation of erythrocyte differentiation / regulation of iron ion transport / response to molecule of bacterial origin / MHC class I peptide loading complex / HFE-transferrin receptor complex / defense response / T cell mediated cytotoxicity / antigen processing and presentation of endogenous peptide antigen via MHC class I / positive regulation of T cell cytokine production / protein homooligomerization / 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 / positive regulation of T cell mediated cytotoxicity / cellular response to nicotine / multicellular organismal-level iron ion homeostasis / virion component / Interferon alpha/beta signaling / viral penetration into host nucleus / Modulation by Mtb of host immune system / specific granule lumen / phagocytic vesicle membrane / recycling endosome membrane / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / Interferon gamma signaling / negative regulation of epithelial cell proliferation / MHC class II protein complex binding / late endosome membrane / sensory perception of smell / positive regulation of cellular senescence / tertiary granule lumen / DAP12 signaling / T cell differentiation in thymus / ER-Phagosome pathway / host cell / protein-folding chaperone binding / negative regulation of neuron projection development / protein refolding / early endosome membrane / monoatomic ion transmembrane transport / protein homotetramerization / molecular adaptor activity / adaptive immune response / host extracellular space / amyloid fibril formation / intracellular iron ion homeostasis / learning or memory / immune response / Amyloid fiber formation / endoplasmic reticulum lumen 類似検索 - 分子機能
Retroviral VpR/VpX protein / VPR/VPX protein / MHC class I, alpha chain, C-terminal / MHC_I C-terminus / MHC class I-like antigen recognition-like / Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 / MHC class I alpha chain, alpha1 alpha2 domains / Class I Histocompatibility antigen, domains alpha 1 and 2 / Beta-2-Microglobulin / : ...Retroviral VpR/VpX protein / VPR/VPX protein / MHC class I, alpha chain, C-terminal / MHC_I C-terminus / MHC class I-like antigen recognition-like / Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 / MHC class I alpha chain, alpha1 alpha2 domains / Class I Histocompatibility antigen, domains alpha 1 and 2 / Beta-2-Microglobulin / : / MHC class I-like antigen recognition-like / MHC class I-like antigen recognition-like superfamily / MHC classes I/II-like antigen recognition protein / : / Immunoglobulin/major histocompatibility complex, conserved site / Immunoglobulins and major histocompatibility complex proteins signature. / Immunoglobulin C-Type / Immunoglobulin C1-set / Immunoglobulin C1-set domain / Ig-like domain profile. / Immunoglobulin-like domain / Immunoglobulin-like domain superfamily / Immunoglobulin-like fold / Immunoglobulins / Immunoglobulin-like / Sandwich / 2-Layer Sandwich / Mainly Beta / Alpha Beta 類似検索 - ドメイン・相同性
HLA class I histocompatibility antigen, B alpha chain / Beta-2-microglobulin / Protein Vpr / HLA class I histocompatibility antigen, B alpha chain / Vpr protein 類似検索 - 構成要素
生物種
Homo sapiens (ヒト) Human immunodeficiency virus 1 (ヒト免疫不全ウイルス)
解像度: 1.76→40.62 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.946 / WRfactor Rfree: 0.2032 / WRfactor Rwork: 0.1716 / FOM work R set: 0.8755 / SU B: 4.547 / SU ML: 0.073 / SU R Cruickshank DPI: 0.107 / SU Rfree: 0.1044 / 交差検証法: THROUGHOUT / σ(F): 0 / ESU R: 0.107 / ESU R Free: 0.104 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED
Rfactor
反射数
%反射
Selection details
Rfree
0.2067
2350
5 %
RANDOM
Rwork
0.175
44192
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obs
0.1766
46542
99.94 %
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溶媒の処理
イオンプローブ半径: 0.8 Å / 減衰半径: 0.8 Å / VDWプローブ半径: 1.2 Å / 溶媒モデル: MASK