Roles of glycans in interactions between gp120 and HIV broadly neutralizing antibodies

GS-align for glycan structure alignment and similarity measurement

(2015) Hui Sun Lee et al.   BIOINFORMATICS

Preferred conformations ofN-glycan core pentasaccharide in solution and in glycoproteins

(2015) Sunhwan Jo et al.   GLYCOBIOLOGY

Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env

(2015) Young Do Kwon et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Crystal structure of a fully glycosylated HIV-1 gp120 core reveals a stabilizing role for the glycan at Asn262

(2015) Leopold Kong et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env

(2015) Young Do Kwon et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Effects of N-glycosylation on protein conformation and dynamics: Protein Data Bank analysis and molecular dynamics simulation study

(2015) Hui Sun Lee et al.   Scientific Reports

Structural Constraints Determine the Glycosylation of HIV-1 Envelope Trimers

(2015) Laura K. Pritchard et al.   Cell Reports

Targeting host-derived glycans on enveloped viruses for antibody-based vaccine design

(2015) Max Crispin et al.   Current Opinion in Virology

Structural Evolution of Glycan Recognition by a Family of Potent HIV Antibodies

(2014) Fernando Garces et al.   CELL

ST-analyzer: A web-based user interface for simulation trajectory analysis

(2014) Jong Cheol Jeong et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Conformational Properties of α- or β-(1→6)-Linked Oligosaccharides: Hamiltonian Replica Exchange MD Simulations and NMR Experiments

(2014) Dhilon S. Patel et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Broad and potent HIV-1 neutralization by a human antibody that binds the gp41–gp120 interface

(2014) Jinghe Huang et al.   NATURE

Recent strategies targeting HIV glycans in vaccine design

(2014) Satoru Horiya et al.   Nature Chemical Biology

Quantification of Drive-Response Relationships Between Residues During Protein Folding

(2013) Yifei Qi et al.   Journal of Chemical Theory and Computation

CHARMM36 all-atom additive protein force field: Validation based on comparison to NMR data

(2013) Jing Huang et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Structural basis for diverse N-glycan recognition by HIV-1–neutralizing V1–V2–directed antibody PG16

(2013) Marie Pancera et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Supersite of immune vulnerability on the glycosylated face of HIV-1 envelope glycoprotein gp120

(2013) Leopold Kong et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

bNAber: database of broadly neutralizing HIV antibodies

(2013) Alexey M. Eroshkin et al.   NUCLEIC ACIDS RESEARCH

The Influence of N-Linked Glycans on the Molecular Dynamics of the HIV-1 gp120 V3 Loop

(2013) Natasha T. Wood et al.   PLoS One

Crystal Structure of a Soluble Cleaved HIV-1 Envelope Trimer

(2013) J.-P. Julien et al.   SCIENCE

Cryo-EM Structure of a Fully Glycosylated Soluble Cleaved HIV-1 Envelope Trimer

(2013) D. Lyumkis et al.   SCIENCE

HIV vaccine design: the neutralizing antibody conundrum

(2012) Leonidas Stamatatos   CURRENT OPINION IN IMMUNOLOGY

Glycan fragment database: a database of PDB-based glycan 3D structures

(2012) Sunhwan Jo et al.   NUCLEIC ACIDS RESEARCH

Carbohydrates and Immunology: Synthetic Oligosaccharide Antigens for Vaccine Formulation

(2011) Laura Morelli et al.   EUROPEAN JOURNAL OF ORGANIC CHEMISTRY

Glycan reader: Automated sugar identification and simulation preparation for carbohydrates and glycoproteins

(2011) Sunhwan Jo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Analysis of a Clonal Lineage of HIV-1 Envelope V2/V3 Conformational Epitope-Specific Broadly Neutralizing Antibodies and Their Inferred Unmutated Common Ancestors

(2011) M. Bonsignori et al.   JOURNAL OF VIROLOGY

Structure of HIV-1 gp120 V1/V2 domain with broadly neutralizing antibody PG9

(2011) Jason S. McLellan et al.   NATURE

Broad neutralization coverage of HIV by multiple highly potent antibodies

(2011) Laura M. Walker et al.   NATURE

A Potent and Broad Neutralizing Antibody Recognizes and Penetrates the HIV Glycan Shield

(2011) R. Pejchal et al.   SCIENCE

Carbohydrate vaccines: developing sweet solutions to sticky situations?

(2010) Rena D. Astronomo et al.   NATURE REVIEWS DRUG DISCOVERY

Rational Design of Envelope Identifies Broadly Neutralizing Human Monoclonal Antibodies to HIV-1

(2010) X. Wu et al.   SCIENCE

CHARMM: The biomolecular simulation program

(2009) B. R. Brooks et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Broad and Potent Neutralizing Antibodies from an African Donor Reveal a New HIV-1 Vaccine Target

(2009) L. M. Walker et al.   SCIENCE

Anton, a special-purpose machine for molecular dynamics simulation

(2008) David E. Shaw et al.   COMMUNICATIONS OF THE ACM

CHARMM-GUI: A web-based graphical user interface for CHARMM

(2008) Sunhwan Jo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY