(Q33342783)

26 July 2017

title

Model for the peptide-free conformation of class II MHC proteins (English)

1 reference

26 July 2017

Zarixia Zavala-Ruiz

5

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author name string

Corrie A Painter

1

1 reference

26 July 2017

Anthony Cruz

2

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26 July 2017

Gustavo E López

3

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26 July 2017

Lawrence J Stern

4

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26 July 2017

language of work or name

English

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publication date

11 June 2008

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26 July 2017

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26 July 2017

volume

3

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26 July 2017

issue

6

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26 July 2017

page(s)

e2403

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Creative Commons Attribution 4.0 International

26 July 2017

copyright license

start time

11 June 2008

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Anchor side chains of short peptide fragments trigger ligand-exchange of class II MHC molecules

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Molecular dynamics simulations of hemoglobin A in different states and bound to DPG: effector-linked perturbation of tertiary conformations and HbA concerted dynamics

14 July 2018

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TCR recognition of peptide/MHC class II complexes and superantigens

14 July 2018

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Allosteric transitions in the chaperonin GroEL are captured by a dominant normal mode that is most robust to sequence variations.

14 July 2018

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Molecular dynamics simulations of the native and partially folded states of ubiquitin: influence of methanol cosolvent, pH, and temperature on the protein structure and dynamics.

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Empty class II major histocompatibility complex created by peptide photolysis establishes the role of DM in peptide association

14 July 2018

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Comparative molecular dynamics analysis of tapasin-dependent and -independent MHC class I alleles

14 July 2018

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HLA-DM targets the hydrogen bond between the histidine at position beta81 and peptide to dissociate HLA-DR-peptide complexes.

14 July 2018

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Probing the ligand-induced conformational change in HLA-DR1 by selective chemical modification and mass spectrometric mapping.

14 July 2018

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Conformational isomers of a peptide-class II major histocompatibility complex

14 July 2018

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Recognition of open conformers of classical MHC by chaperones and monoclonal antibodies

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Structural dynamics of the lac repressor-DNA complex revealed by a multiscale simulation

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Cell biology of antigen processing in vitro and in vivo

14 July 2018

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Conformational flexibility of the MHC class I alpha1-alpha2 domain in peptide bound and free states: a molecular dynamics simulation study

14 July 2018

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A hairpin turn in a class II MHC-bound peptide orients residues outside the binding groove for T cell recognition

14 July 2018

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Structural, energetic, and functional analysis of a protein-protein interface at distinct stages of affinity maturation

14 July 2018

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Formation of two peptide/MHC II isomers is catalyzed differentially by HLA-DM.

14 July 2018

1 reference

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Binding interactions between peptides and proteins of the class II major histocompatibility complex

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

The kinetic basis of peptide exchange catalysis by HLA-DM

14 July 2018

1 reference

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HLA-DM recognizes the flexible conformation of major histocompatibility complex class II.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Determination of the HLA-DM interaction site on HLA-DR molecules

14 July 2018

1 reference

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Peptide and peptide mimetic inhibitors of antigen presentation by HLA-DR class II MHC molecules. Design, structure-activity relationships, and X-ray crystal structures

14 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Objective comparison of protein structures: error-scaled difference distance matrices

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Kinetics of peptide binding to the class II MHC protein I-Ek

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Determinants of the peptide-induced conformational change in the human class II major histocompatibility complex protein HLA-DR1.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Experimental assessment of differences between related protein crystal structures

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Role of the T cell receptor alpha chain in stabilizing TCR-superantigen-MHC class II complexes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Sodium dodecyl sulfate stability of HLA-DR1 complexes correlates with burial of hydrophobic residues in pocket 1.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Conformational isomers of a class II MHC-peptide complex in solution

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Stability of empty and peptide-loaded class II major histocompatibility complex molecules at neutral and endosomal pH: comparison to class I proteins

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

HLA-DM acts as a molecular chaperone and rescues empty HLA-DR molecules at lysosomal pH

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

HLA-DM interactions with intermediates in HLA-DR maturation and a role for HLA-DM in stabilizing empty HLA-DR molecules

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

VMD: visual molecular dynamics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

A structural transition in class II major histocompatibility complex proteins at mildly acidic pH.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Evidence for a conformational change in a class II major histocompatibility complex molecule occurring in the same pH range where antigen binding is enhanced

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Three-dimensional structure of the human class II histocompatibility antigen HLA-DR1.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Crystal structure of the human class II MHC protein HLA-DR1 complexed with an influenza virus peptide

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

MHC class II function preserved by low-affinity peptide interactions preceding stable binding

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Characterization of the specificity of peptide binding to four DR haplotypes

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Identification of a motif for HLA-DR1 binding peptides using M13 display libraries

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

The human class II MHC protein HLA-DR1 assembles as empty alpha beta heterodimers in the absence of antigenic peptide

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Thermal stability comparison of purified empty and peptide-filled forms of a class I MHC molecule

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2408972

Formation of a highly peptide-receptive state of class II MHC.

14 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002403

Monoclonal antibodies specific for the empty conformation of HLA-DR1 reveal aspects of the conformational change associated with peptide binding

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002403

Empty and peptide-loaded class II major histocompatibility complex proteins produced by expression in Escherichia coli and folding in vitro.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002403

GROMACS: A message-passing parallel molecular dynamics implementation

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002403

The crystal structure of H-2D(b) complexed with a partial peptide epitope suggests a major histocompatibility complex class I assembly intermediate.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002403

Molecular dynamics with coupling to an external bath

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002403

A three-step kinetic mechanism for peptide binding to MHC class II proteins

21 January 2018

1 reference

12 December 2020

A diverse set of oligomeric class II MHC-peptide complexes for probing T-cell receptor interactions

1 reference

12 December 2020

Dynamic flexibility of a peptide-binding groove of human HLA-DR1 class II MHC molecules: normal mode analysis of the antigen peptide-class II MHC complex

1 reference

12 December 2020

A polymorphic pocket at the P10 position contributes to peptide binding specificity in class II MHC proteins

1 reference

12 December 2020

HLA-DRα chain residues located on the outer loops are involved in nonpolymorphic and polymorphic antibody-binding epitopes

1 reference

12 December 2020

Structural characterization of a soluble and partially folded class I major histocompatibility heavy chain/beta 2m heterodimer

1 reference

12 December 2020

Stable peptide binding to MHC class II molecule is rapid and is determined by a receptive conformation shaped by prior association with low affinity peptides

1 reference

12 December 2020

A conformational change in the human major histocompatibility complex protein HLA-DR1 induced by peptide binding

1 reference

12 December 2020

10.1371/JOURNAL.PONE.0002403

Identifiers

DOI

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26 July 2017

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26 July 2017

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