Membrane protein structure: Prediction versus reality

被引:178
作者
Elofsson, Arne [1 ]
von Heijne, Gunnar [1 ]
机构
[1] Stockholm Univ, Dept Biochem & Biophys, Cte Biomembrane Res, Stockholm Bioinformat Ctr, SE-10691 Stockholm, Sweden
关键词
bioinformatics; membrane protein structure prediction; topology;
D O I
10.1146/annurev.biochem.76.052705.163539
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Since high-resolution structural data are still scarce, different kinds of theoretical structure prediction algorithms are of major importance in membrane protein biochemistry. But how well do the current prediction methods perform? Which structural features can be predicted and which cannot? And what can we expect in the next few years?.
引用
收藏
页码:125 / 140
页数:16
相关论文
共 112 条
[71]   Identification and evolution of dual-topology membrane proteins [J].
Rapp, M ;
Granseth, E ;
Seppälä, S ;
von Heijne, G .
NATURE STRUCTURAL & MOLECULAR BIOLOGY, 2006, 13 (02) :112-116
[72]   Advances in understanding bacterial outer-membrane biogenesis [J].
Ruiz, N ;
Kahne, D ;
Silhavy, TJ .
NATURE REVIEWS MICROBIOLOGY, 2006, 4 (01) :57-66
[73]   ON THE DISTRIBUTION OF AMINO-ACID-RESIDUES IN TRANSMEMBRANE ALPHA-HELIX BUNDLES [J].
SAMATEY, FA ;
XU, CB ;
POPOT, JL .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1995, 92 (10) :4577-4581
[74]   β-Barrel membrane proteins [J].
Schulz, GE .
CURRENT OPINION IN STRUCTURAL BIOLOGY, 2000, 10 (04) :443-447
[75]   Statistical analysis of amino acid patterns in transmembrane helices:: The GxxxG motif occurs frequently and in association with β-branched residues at neighboring positions [J].
Senes, A ;
Gerstein, M ;
Engelman, DM .
JOURNAL OF MOLECULAR BIOLOGY, 2000, 296 (03) :921-936
[76]   The Cα-H•••O hydrogen bond:: A determinant of stability and specificity in transmembrane helix interactions [J].
Senes, A ;
Ubarretxena-Belandia, I ;
Engelman, DM .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (16) :9056-9061
[77]   Architecture of β-barrel membrane proteins:: Analysis of trimeric porins [J].
Seshadri, K ;
Garemyr, R ;
Wallin, E ;
Von Heijne, G ;
Elofsson, A .
PROTEIN SCIENCE, 1998, 7 (09) :2026-2032
[78]   Internal gene duplication in the evolution of prokaryotic transmembrane proteins [J].
Shimizu, T ;
Mitsuke, H ;
Noto, K ;
Arai, M .
JOURNAL OF MOLECULAR BIOLOGY, 2004, 339 (01) :1-15
[79]  
Simon AD, 1999, PERSPECT ANTISEN SCI, V3, P1
[80]  
Sonnhammer E L, 1998, Proc Int Conf Intell Syst Mol Biol, V6, P175