Predicting gene ontology functions from protein's regional surface structures (Q33309502)

25 July 2017

title

Predicting gene ontology functions from protein's regional surface structures (English)

1 reference

protein function prediction

25 July 2017

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0 references

1 reference

Zhi-Ping Liu

1

1 reference

25 July 2017

Ling-Yun Wu

2

1 reference

25 July 2017

Yong Wang

3

1 reference

25 July 2017

Luonan Chen

4

1 reference

25 July 2017

Xiang-Sun Zhang

5

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25 July 2017

publication date

11 December 2007

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25 July 2017

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25 July 2017

volume

8

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25 July 2017

page(s)

475

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Revealing divergent evolution, identifying circular permutations and detecting active-sites by protein structure comparison.

25 July 2017

cites work

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A new measure for functional similarity of gene products based on Gene Ontology

21 June 2018

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Protein classification using probabilistic chain graphs and the Gene Ontology structure

21 June 2018

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

21 June 2018

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

21 June 2018

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Functional annotation by identification of local surface similarities: a novel tool for structural genomics

21 June 2018

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Predicting protein function from sequence and structural data.

21 June 2018

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Automated prediction of protein function and detection of functional sites from structure

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

pvSOAR: detecting similar surface patterns of pocket and void surfaces of amino acid residues on proteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Prediction of protein function from protein sequence and structure

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology

21 June 2018

1 reference

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SURFACE: a database of protein surface regions for functional annotation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Structural genomics: computational methods for structure analysis

21 June 2018

1 reference

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Investigating semantic similarity measures across the Gene Ontology: the relationship between sequence and annotation

21 June 2018

1 reference

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CASTp: Computed Atlas of Surface Topography of proteins

21 June 2018

1 reference

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A model for statistical significance of local similarities in structure.

21 June 2018

1 reference

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Overview of structural genomics: from structure to function

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Predicting gene ontology functions from ProDom and CDD protein domains

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Evolution of function in protein superfamilies, from a structural perspective.

21 June 2018

1 reference

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From structure to function: approaches and limitations

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Protein function in the post-genomic era.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Gene ontology: tool for the unification of biology

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

21 June 2018

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1 reference

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Protein structure alignment by incremental combinatorial extension (CE) of the optimal path

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Anatomy of protein pockets and cavities: Measurement of binding site geometry and implications for ligand design

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Analytical shape computation of macromolecules: II. Inaccessible cavities in proteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Analysis of protein-protein interaction sites using surface patches

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Protein clefts in molecular recognition and function

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Mapping the protein universe

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

SURFNET: a program for visualizing molecular surfaces, cavities, and intermolecular interactions

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Dali: a network tool for protein structure comparison

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Surface motifs by a computer vision technique: searches, detection, and implications for protein-ligand recognition

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Protein structure comparison by alignment of distance matrices

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Selection of representative protein data sets

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Q-SiteFinder: an energy-based method for the prediction of protein-ligand binding sites

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Inferring functional relationships of proteins from local sequence and spatial surface patterns

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Identification of protein functions from a molecular surface database, eF-site

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

A new method to detect related function among proteins independent of sequence and fold homology

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

LIGSITE: automatic and efficient detection of potential small molecule-binding sites in proteins

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2233648

Practical limits of function prediction

31 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18070366

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-8-475

1 reference

25 July 2017

DBLP publication ID

journals/bmcbi/LiuWWCZ07

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

25 July 2017

1 reference