6E5P

Backbone model based on cryo-EM map at 8.5 A of domain-swapped, glycan-reactive, neutralizing antibody 2G12 bound to HIV-1 Env BG505 DS-SOSIP, which was also bound to CD4-binding site antibody VRC03

6E5P の概要

• エントリーDOI: 10.2210/pdb6e5p/pdb
• EMDBエントリー: 8981
• 関連するBIRD辞書のPRD_ID: PRD_900111
• 分子名称: 2G12 Light chain, alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2G12 heavy chain, ... (10 entities in total)
• 機能のキーワード: hiv-1 env, complex, neutralizing, viral protein, domain-swapped antibody
• 由来する生物種: Homo sapiens; 詳細
• タンパク質・核酸の鎖数: 24
• 化学式量合計: 658135.30

構造登録者

Acharya, P.,Kwong, P.D. (登録日: 2018-07-21, 公開日: 2019-02-13, 最終更新日: 2024-03-13)

主引用文献

Chuang, G.Y.,Zhou, J.,Acharya, P.,Rawi, R.,Shen, C.H.,Sheng, Z.,Zhang, B.,Zhou, T.,Bailer, R.T.,Dandey, V.P.,Doria-Rose, N.A.,Louder, M.K.,McKee, K.,Mascola, J.R.,Shapiro, L.,Kwong, P.D.
Structural Survey of Broadly Neutralizing Antibodies Targeting the HIV-1 Env Trimer Delineates Epitope Categories and Characteristics of Recognition.
Structure, 27:196-206.e6, 2019

PubMed Abstract: Over the past decade, structures have been determined for broadly neutralizing antibodies that recognize all major exposed surfaces of the prefusion-closed HIV-1-envelope (Env) trimer. To understand this recognition and its implications, we analyzed 206 antibody-HIV-1 Env structures from the Protein Data Bank with resolution suitable to define interaction chemistries and measured antibody neutralization on a 208-strain panel. Those with >25% breadth segregated into almost two dozen classes based on ontogeny and recognition and into six epitope categories based on recognized Env residues. For paratope, the number of protruding loops and level of somatic hypermutation were significantly higher for broad HIV-1 neutralizing antibodies than for a comparison set of non-HIV-1 antibodies (p < 0.0001). For epitope, the number of independent sequence segments was higher (p < 0.0001), as well as the glycan component surface area (p = 0.0005). The unusual characteristics of epitope and paratope delineated here are likely to reflect respectively virus-immune evasion and antibody-recognition solutions that allow effective neutralization of HIV-1.

PubMed: 30471922
DOI: 10.1016/j.str.2018.10.007

実験手法

ELECTRON MICROSCOPY (8.8 Å)