Literature DB >> 10526360

Predicting protein structure using only sequence information.

K Karplus1, C Barrett, M Cline, M Diekhans, L Grate, R Hughey.   

Abstract

This paper presents results of blind predictions submitted to the CASP3 protein structure prediction experiment. We made predictions using the SAM-T98 method, an iterative hidden Markov model-based method for constructing protein family profiles. The method is purely sequence-based, using no structural information, and yet was able to predict structures as well as all but five of the structure-based methods in CASP3.

Entities:  

Mesh：

Substances：

Year:  1999        PMID： 10526360     DOI： 10.1002/(sici)1097-0134(1999)37:3+<121::aid-prot16>3.3.co;2-h

Source DB:  PubMed          Journal:  Proteins        ISSN： 0887-3585


  34 in total

1.  LiveBench-1: continuous benchmarking of protein structure prediction servers.

Authors:  J M Bujnicki; A Elofsson; D Fischer; L Rychlewski
Journal:  Protein Sci       Date:  2001-02       Impact factor: 6.725

2.  ParAlign: a parallel sequence alignment algorithm for rapid and sensitive database searches.

Authors:  T Rognes
Journal:  Nucleic Acids Res       Date:  2001-04-01       Impact factor: 16.971

3.  Fold recognition without folds.

Authors:  Kristin K Koretke; Robert B Russell; Andrei N Lupas
Journal:  Protein Sci       Date:  2002-06       Impact factor: 6.725

4.  Improving the quality of twilight-zone alignments.

Authors:  L Jaroszewski; L Rychlewski; A Godzik
Journal:  Protein Sci       Date:  2000-08       Impact factor: 6.725

5.  The directional atomic solvation energy: an atom-based potential for the assignment of protein sequences to known folds.

Authors:  Parag Mallick; Robert Weiss; David Eisenberg
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-02       Impact factor: 11.205

6.  HYPROSP: a hybrid protein secondary structure prediction algorithm--a knowledge-based approach.

Authors:  Kuen-Pin Wu; Hsin-Nan Lin; Jia-Ming Chang; Ting-Yi Sung; Wen-Lian Hsu
Journal:  Nucleic Acids Res       Date:  2004-09-24       Impact factor: 16.971

7.  PREDICT-2ND: a tool for generalized protein local structure prediction.

Authors:  Sol Katzman; Christian Barrett; Grant Thiltgen; Rachel Karchin; Kevin Karplus
Journal:  Bioinformatics       Date:  2008-08-30       Impact factor: 6.937

8.  Computational protein design: validation and possible relevance as a tool for homology searching and fold recognition.

Authors:  Marcel Schmidt Am Busch; Audrey Sedano; Thomas Simonson
Journal:  PLoS One       Date:  2010-05-05       Impact factor: 3.240

9.  SAM-T08, HMM-based protein structure prediction.

Authors:  Kevin Karplus
Journal:  Nucleic Acids Res       Date:  2009-05-29       Impact factor: 16.971

10.  PCI-SS: MISO dynamic nonlinear protein secondary structure prediction.

Authors:  James R Green; Michael J Korenberg; Mohammed O Aboul-Magd
Journal:  BMC Bioinformatics       Date:  2009-07-17       Impact factor: 3.169
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.