(Q34486621)

2 August 2017

title

Local functional descriptors for surface comparison based binding prediction (English)

1 reference

2 August 2017

George N Phillips

1 reference

2 August 2017

Gregory M Cipriano

1 reference

2 August 2017

Michael Gleicher

series ordinal

1 reference

2 August 2017

publication date

24 November 2012

1 reference

2 August 2017

1 reference

2 August 2017

1 reference

2 August 2017

page(s)

314

1 reference

Creative Commons Attribution 2.0 Generic

2 August 2017

start time

24 November 2012

1 reference

April 2022 Public Data File from Crossref

copyrighted

1 reference

April 2022 Public Data File from Crossref

cites work

Binding ligand prediction for proteins using partial matching of local surface patches

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Superpose3D: a local structural comparison program that allows for user-defined structure representations

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Real-time ligand binding pocket database search using local surface descriptors

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

On the diversity of physicochemical environments experienced by identical ligands in binding pockets of unrelated proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Multi-scale surface descriptors

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Predicting protein-protein binding sites in membrane proteins.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Improving structure-based function prediction using molecular dynamics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Prediction of sub-cavity binding preferences using an adaptive physicochemical structure representation

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

IDSS: deformation invariant signatures for molecular shape comparison

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Prediction of protein-glucose binding sites using support vector machines

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Protein functional surfaces: global shape matching and local spatial alignments of ligand binding sites

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Moment invariants as shape recognition technique for comparing protein binding sites.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Characterization of local geometry of protein surfaces with the visibility criterion.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Shape variation in protein binding pockets and their ligands

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Scoring functions for protein-ligand docking

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Choosing negative examples for the prediction of protein-protein interactions

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

On the nature of cavities on protein surfaces: application to the identification of drug-binding sites

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Protein surface analysis for function annotation in high-throughput structural genomics pipeline

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Structural characterization of proteins using residue environments

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

A performance evaluation of local descriptors

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Pocketome via comprehensive identification and classification of ligand binding envelopes.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Real spherical harmonic expansion coefficients as 3D shape descriptors for protein binding pocket and ligand comparisons.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Recognition of functional sites in protein structures.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Identification of protein biochemical functions by similarity search using the molecular surface database eF-site

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Distilling the essential features of a protein surface for improving protein-ligand docking, scoring, and virtual screening.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Surflex: fully automatic flexible molecular docking using a molecular similarity-based search engine

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Electrostatics of nanosystems: application to microtubules and the ribosome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Electrostatic aspects of protein-protein interactions.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Recognizing protein binding sites using statistical descriptions of their 3D environments

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Molecular surface representations by sparse critical points

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Characterizing the microenvironment surrounding protein sites

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

A simple method for displaying the hydropathic character of a protein

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

Identification of the ligand binding sites on the molecular surface of proteins

6 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-314

SURFCOMP: a novel graph-based approach to molecular surface comparison.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-314

Molecular surface complementarity at protein-protein interfaces: the critical role played by surface normals at well placed, sparse, points in docking

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-314

Hammerhead: fast, fully automated docking of flexible ligands to protein binding sites.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-314

Travel depth, a new shape descriptor for macromolecules: application to ligand binding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-314

Fast Surface-Based Travel Depth Estimation Algorithm for Macromolecule Surface Shape Description

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3585919

27 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23176080

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-13-314

1 reference

journals/bmcbi/CiprianoPG12

2 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

2 August 2017

1 reference