Citations in PubMed

Primary Citation PubMed: 19965434 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 6

Citations in PubMed

This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.

PDB ID Mentions in PubMed Central

Data mentions are occurrences of PDB IDs in the full text articles from the PubMedCentral Open Access Subset of currently about 1 million articles. For each article, the sentences containing the PDB ID are listed. Article titles can be filtered by keywords and sorted by year.

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Crystal structure of the neutralizing Llama V(HH) D7 and its mode of HIV-1 gp120 interaction.

(2010) PLoS One 5

PubMed: 20463957 | PubMedCentral: PMC2864739 | DOI: 10.1371/journal.pone.0010482

The Cα atoms of the heavy chain variable domains (b12 pdb code 2NY7; F105 pdb code 3HI1; b13 pdb code 3IDX; m18 pdb code 2AJ3) were superimposed and the CDR H2 and H3 are represented in the sa... e orientation.

Publication Year: 2010


CD4 binding determinant mimicry for HIV vaccine design.

(2012) Front Immunol 3

PubMed: 23251137 | PubMedCentral: PMC3523313 | DOI: 10.3389/fimmu.2012.00383

, CD4 liganded 1GC1, 1G9M, 1G9N, 1RZJ, 1RZK, 3JWD, 3JWO, 2NXY, 2NXZ, 2NY5, 2B4C, 2QAD; unliganded 2BF1, 3TGQ, 3TGR, 3TGT, 3TIH; CD4BD OD antibody liganded 3NGB, 3SE8, 3SE9, 3U7Y, 2NY7, 3HI1, 3IDX; low... molecular-weight CD4 mimetic liganded 1YYL, 1YYM, 2I5Y, 2I60, 3TGS).

Publication Year: 2012


Structural plasticity and conformational transitions of HIV envelope glycoprotein gp120.

(2012) PLoS One 7

PubMed: 23300605 | PubMedCentral: PMC3531394 | DOI: 10.1371/journal.pone.0052170

The gp120 structure from YU2 in the F105-bound state (PDB ID: 3HI1) was used in VAMM calculations.

( A–C ) Comparisons of gp120 structures in ( A ) the CD4-bound state (PDB ID: 1G9N) [10] , ( B ) the b12 antibody-bound state (PDB ID: 2NY7) [17] , and ( C ) the F105 antibody-bound state (PDB ID: 3HI1) [20] .

Publication Year: 2012


HIV-1 receptor binding site-directed antibodies using a VH1-2 gene segment orthologue are activated by Env trimer immunization.

(2014) PLoS Pathog 10

PubMed: 25166308 | PubMedCentral: PMC4148451 | DOI: 10.1371/journal.ppat.1004337

Modeling of NHP antibody structure in complex with gp120 core The ClusPro server 2.0 [51] – [54] was used in the antibody mode [55] to produce structural models of the NHP antibody GE356 in co... plex with the previously determined crystal structure of the gp120 core in complex with the human antibodies b13 (PDB ID: 3IDX) and F105 (PDB ID: 3HI1).

Publication Year: 2014


PubMed ID is not available.

Published in 2014

PubMedCentral: PMC4348022

Prefusion mature closed state Prefusion partially open intermediate Prefusion receptor-bound open intermediate Postfusion gp120 Crystal structure (4TVP) Crystal structure (4TVP) Crystal structure of c... re (3JWD) with modeled V3 (3HI1) and V1V2 (3U4E) Crystal structure of core (3JWD) with modeled V3 (3HI1) and V1V2 (3U4E) V1V2 Native Rotated 6° Rotated to align with bridging sheet Rotated to align with bridging sheet V3 Native Rotated 6° Protruding towards target cell Protruding towards target cell Core Native Rotated 6° Rotated 50° Rotated 50° N+C-term Native Native Unknown Rotated 45° gp41 Crystal structure (4TVP) Crystal structure (4TVP) with modeled α7 Crystal structure (4TVP) with modeled α7 and α6 removed Crystal structure (chimera of 2X7R and 2EZO) α6 Native Disassembling to α7 Disassembled Extended to postfusion HR1 α7 Native Extending Extended with fusion peptide Extended to postfusion HR1 α8 Native Native Native Extended to postfusion HR2 α9 Native Native Native Extended to postfusion HR2 Supplementary Material 1 Acknowledgments We thank colleagues that contributed reagents, carried out clinical protocols, and provided discussions and comments on the manuscript, as detailed in supplementary information.

PDB IDs are referenced throughout except for 2HMG 82 , 1QU1 83 , 4MMU 47 , 3RRT 37 , 3CSY 39 and 2EBO 84 in Figure 4 ; 2YP7 85 and 4JHW 31 in Figures 5 and 6 and PDB ID: 3HI1 86 in Extended Data Table 2 .

Publication Year: 2014


PubMed ID is not available.

Published in 2015

PubMedCentral: PMC4522616

The majority of the gp120 structures, including the unbound core structures, belong to this group), (ii) the mAb b12-bound (PDB ID 2NY7), (iii) the mAb F105-bound (PDB ID 3HI1), and (iv) the mAb b13-b... und conformations (PDB ID 3IDX).

Publication Year: 2015