Predicting protein structure using only sequence information

K Karplus; C Barrett; M Cline; M Diekhans; L Grate; R Hughey

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

Predicting protein structure using only sequence information

Proteins. 1999:Suppl 3:121-5. doi: 10.1002/(sici)1097-0134(1999)37:3+<121::aid-prot16>3.3.co;2-h.

Authors

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

Affiliation

¹ John Baskin School of Engineering, University of California, Santa Cruz 95064, USA. karplus@cse.ucsc.edu

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

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.

Publication types

Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Algorithms
Amino Acid Sequence
Markov Chains
Molecular Sequence Data
Protein Structure, Secondary
Proteins / chemistry*
Sequence Alignment

Substances

Proteins