Modeling the bound conformation of Pemphigus vulgaris-associated peptides to MHC Class II DR and DQ alleles (Q25257435)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16426456%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

title

Modeling the bound conformation of Pemphigus vulgaris-associated peptides to MHC Class II DR and DQ alleles (English)

1 reference

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15 January 2020

0 references

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Pemphigus vulgaris

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3

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15 January 2020

Shoba Ranganathan

6

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15 January 2020

author name string

Joo Chuan Tong

1

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15 January 2020

Jeff Bramson

2

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15 January 2020

Selwyn Chow

4

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15 January 2020

Animesh A Sinha

5

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15 January 2020

language of work or name

English

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publication date

21 January 2006

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15 January 2020

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15 January 2020

volume

2

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15 January 2020

issue

1

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page(s)

1

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https://scigraph.springernature.com/pub.10.1186/1745-7580-2-1

15 January 2020

exact match

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cites work

IMGT/HLA and IMGT/MHC: sequence databases for the study of the major histocompatibility complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

7 April 2017

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Basic local alignment search tool

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Crystal structures of two I-Ad-peptide complexes reveal that high affinity can be achieved without large anchor residues

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

The class II MHC protein HLA-DR1 in complex with an endogenous peptide: implications for the structural basis of the specificity of peptide binding

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

All-atom empirical potential for molecular modeling and dynamics studies of proteins

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Comparative protein modelling by satisfaction of spatial restraints

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Modeling the structure of bound peptide ligands to major histocompatibility complex

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Identifiying human MHC supertypes using bioinformatic methods.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Structure-based identification of binding sites, native ligands and potential inhibitors for G-protein coupled receptors.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Quantifying the accessible surface area of protein residues in their local environment.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

HLA class II peptide-binding and autoimmunity

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Combining computer algorithms with experimental approaches permits the rapid and accurate identification of T cell epitopes from defined antigens

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

A rapid test for identification of autonomous folding units in proteins.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Heterogeneous MHC II restriction pattern of autoreactive desmoglein 3 specific T cell responses in pemphigus vulgaris patients and normals

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Several common HLA-DR types share largely overlapping peptide binding repertoires

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Handling context-sensitivity in protein structures using graph theory: bona fide prediction

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Structural basis for major histocompatibility complex (MHC)-linked susceptibility to autoimmunity: charged residues of a single MHC binding pocket confer selective presentation of self-peptides in pemphigus vulgaris

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Specificity and promiscuity among naturally processed peptides bound to HLA-DR alleles

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

MHC ligands and peptide motifs: first listing

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Autoantibodies against cell adhesion molecules in pemphigus

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Ranking potential binding peptides to MHC molecules by a computational threading approach

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Specific HLA-DQB and HLA-DRB1 alleles confer susceptibility to pemphigus vulgaris

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Major histocompatibility complex haplotype studies in Ashkenazi Jewish patients with pemphigus vulgaris

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Major histocompatibility complex haplotypes and class II genes in non-Jewish patients with pemphigus vulgaris

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Selection of peptides that bind to the HLA-A2.1 molecule by molecular modelling

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Precise prediction of major histocompatibility complex class II-peptide interaction based on peptide side chain scanning

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Class II MHC quantitative binding motifs derived from a large molecular database with a versatile iterative stepwise discriminant analysis meta-algorithm

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

A newly characterized HLA DQ beta allele associated with pemphigus vulgaris.

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Hidden Markov model-based prediction of antigenic peptides that interact with MHC class II molecules.

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Fuzzy neural network-based prediction of the motif for MHC class II binding peptides.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Prediction of MHC class II binders using the ant colony search strategy.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

T cell recognition of desmoglein 3 peptides in patients with pemphigus vulgaris and healthy individuals.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Improved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Towards the in silico identification of class II restricted T-cell epitopes: a partial least squares iterative self-consistent algorithm for affinity prediction.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Binding free energy differences in a TCR-peptide-MHC complex induced by a peptide mutation: a simulation analysis.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Predicting class II MHC/peptide multi-level binding with an iterative stepwise discriminant analysis meta-algorithm

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Prediction of MHC class II-binding peptides using an evolutionary algorithm and artificial neural network.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1395305

Polymorphisms of HLA class II genes in Japanese patients with pemphigus vulgaris

28 November 2018

1 reference

12 December 2020

Modeling of the TCR-MHC-peptide complex

1 reference

12 December 2020

Antigenic peptide binding by class I and class II histocompatibility proteins

1 reference

12 December 2020

A Molecular Basis for MHC Class II—Associated Autoimmunity

1 reference

12 December 2020

A study of desmoglein 1 autoantibodies in pemphigus vulgaris: racial differences in frequency and the association with a more severe phenotype

1 reference

12 December 2020

Recovery of known T-cell epitopes by computational scanning of a viral genome

1 reference

12 December 2020

In Silico Identification of Supertypes for Class II MHCs

1 reference

12 December 2020

Autoimmune diseases: the failure of self tolerance

1 reference

12 December 2020

Identifiers

DOI

10.1186/1745-7580-2-1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16426456%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

15 January 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16426456%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

1 reference