Predicting sequences and structures of MHC-binding peptides: a computational combinatorial approach (Q74336775)

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10 November 2019

title

Predicting sequences and structures of MHC-binding peptides: a computational combinatorial approach (English)

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10 November 2019

author name string

J Zen

series ordinal

1

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10 November 2019

H R Treutlein

series ordinal

2

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:11495228%20AND%20SRC:MED&resulttype=core&format=json

10 November 2019

G B Rudy

series ordinal

3

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10 November 2019

publication date

1 June 2001

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Journal of Computer - Aided Molecular Design

10 November 2019

published in

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:11495228%20AND%20SRC:MED&resulttype=core&format=json

10 November 2019

volume

15

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10 November 2019

issue

6

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10 November 2019

page(s)

573-586

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Different length peptides bind to HLA-Aw68 similarly at their ends but bulge out in the middle

10 November 2019

cites work

1 reference

12 December 2020

Bound water structure and polymorphic amino acids act together to allow the binding of different peptides to MHC class I HLA-B53

1 reference

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Prediction of peptide affinity to HLA DRB1*0401

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An empirical method for the prediction of T-cell epitopes

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Using a neural network to identify potential HLA-DR1 binding sites within proteins.

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A Roadmap for HLA-DR Peptide Binding Specificities

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Structural basis of 2C TCR allorecognition of H-2Ld peptide complexes

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CONCERTS: dynamic connection of fragments as an approach to de novo ligand design

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12 December 2020

MHCPEP, a database of MHC-binding peptides: update 1997

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12 December 2020

Multiple regression analysis suggests motifs for class II MHC binding

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12 December 2020

Pocket mutations of HLA-B27 show that anchor residues act cumulatively to stabilize peptide binding.

1 reference

12 December 2020

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

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12 December 2020

Predicting binding affinities of protein ligands from three-dimensional models: application to peptide binding to class I major histocompatibility proteins.

1 reference

12 December 2020

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

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The HLA-A*6601 peptide motif: prediction by pocket structure and verification by peptide analysis

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12 December 2020

Three-dimensional structure of a peptide extending from one end of a class I MHC binding site

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12 December 2020

IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices

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12 December 2020

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

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12 December 2020

A Structure-Based Algorithm to Predict Potential Binding Peptides to MHC Molecules with Hydrophobic Binding Pockets

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12 December 2020

The crystal structure of H-2Dd MHC class I complexed with the HIV-1-derived peptide P18-I10 at 2.4 A resolution: implications for T cell and NK cell recognition

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12 December 2020

Computational combinatorial ligand design: application to human alpha-thrombin.

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The Protein Data Bank: a computer-based archival file for macromolecular structures

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12 December 2020

Crystal structures of two viral peptides in complex with murine MHC class I H-2Kb

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Position-based sequence weights

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12 December 2020

Interactions between immunogenic peptides and MHC proteins

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12 December 2020

Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains.

1 reference

12 December 2020

Structural principles that govern the peptide-binding motifs of class I MHC molecules

1 reference

12 December 2020

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

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12 December 2020

Knowledge-based structure prediction of MHC class I bound peptides: a study of 23 complexes

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12 December 2020

On the calculation of binding free energies using continuum methods: application to MHC class I protein-peptide interactions

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12 December 2020

Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matrices

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Prediction of binding to MHC class I molecules.

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Multiple copy simultaneous search and construction of ligands in binding sites: application to inhibitors of HIV-1 aspartic proteinase

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Free energy mapping of class I MHC molecules and structural determination of bound peptides

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The three-dimensional structure of peptide-MHC complexes

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12 December 2020

The antigenic identity of peptide-MHC complexes: A comparison of the conformations of five viral peptides presented by HLA-A2

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12 December 2020

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

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12 December 2020

Two complementary methods for predicting peptides binding major histocompatibility complex molecules.

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12 December 2020

The three-dimensional structure of H-2Db at 2.4 A resolution: implications for antigen-determinant selection

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12 December 2020

Atomic structure of a human MHC molecule presenting an influenza virus peptide

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12 December 2020

An altered position of the alpha 2 helix of MHC class I is revealed by the crystal structure of HLA-B*3501

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12 December 2020

Thermodynamics of protein-peptide interactions in the ribonuclease-S system studied by molecular dynamics and free energy calculations

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12 December 2020

A method for computational combinatorial peptide design of inhibitors of Ras protein

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12 December 2020

The three-dimensional structure of a class I major histocompatibility complex molecule missing the alpha 3 domain of the heavy chain

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12 December 2020

Application of an artificial neural network to predict specific class I MHC binding peptide sequences

1 reference

12 December 2020

Improved sensitivity of profile searches through the use of sequence weights and gap excision.

1 reference

12 December 2020

Identifiers

DOI

10.1023/A:1011145123635

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:11495228%20AND%20SRC:MED&resulttype=core&format=json

10 November 2019

DBLP publication ID

journals/jcamd/ZengTR01

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

1031117432

0 references

1 reference