DOMAC: an accurate, hybrid protein domain prediction server

被引:31
作者
Cheng, Jianlin [1 ]
机构
[1] Univ Cent Florida, Sch Elect Engn & Comp Sci, Orlando, FL 32816 USA
关键词
D O I
10.1093/nar/gkm390
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
Protein domain prediction is important for protein structure prediction, structure determination, function annotation, mutagenesis analysis and protein engineering. Here we describe an accurate protein domain prediction server (DOMAC) combining both template-based and ab initio methods. The preliminary version of the server was ranked among the top domain prediction servers in the seventh edition of Critical Assessment of Techniques for Protein Structure Prediction (CASP7), 2006. DOMAC server and datasets are available at: http://www.bioinfotool.org/domac.html.
引用
收藏
页码:W354 / W356
页数:3
相关论文
共 39 条
[21]   Automated prediction of domain boundaries in CASP6 targets using Ginzu and RosettaDOM [J].
Kim, DE ;
Chivian, D ;
Malmström, L ;
Baker, D .
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2005, 61 :193-200
[22]   GlobPlot: exploring protein sequences for globularity and disorder [J].
Linding, R ;
Russell, RB ;
Neduva, V ;
Gibson, TJ .
NUCLEIC ACIDS RESEARCH, 2003, 31 (13) :3701-3708
[23]   Sequence-based prediction of protein domains [J].
Liu, JF ;
Rost, B .
NUCLEIC ACIDS RESEARCH, 2004, 32 (12) :3522-3530
[24]   Rapid protein domain assignment from amino acid sequence using predicted secondary structure [J].
Marsden, RL ;
McGuffin, LJ ;
Jones, DT .
PROTEIN SCIENCE, 2002, 11 (12) :2814-2824
[25]   Critical assessment of methods of protein structure prediction (CASP) - Round 6 [J].
Moult, J ;
Fidelis, K ;
Rost, B ;
Hubbard, T ;
Tramontano, A .
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2005, 61 :3-7
[26]   Critical assessment of methods of protein structure prediction (CASP)-round V [J].
Moult, J ;
Fidelis, K ;
Zemla, A ;
Hubbard, T .
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2003, 53 :334-339
[27]   Automatic prediction of protein domains from sequence information using a hybrid learning system [J].
Nagarajan, N ;
Yona, G .
BIOINFORMATICS, 2004, 20 (09) :1335-1360
[28]   Identification of cell-binding sites on the laminin α5 N-terminal domain by site-directed mutagenesis [J].
Nielsen, PK ;
Yamada, Y .
JOURNAL OF BIOLOGICAL CHEMISTRY, 2001, 276 (14) :10906-10912
[29]   DIVCLUS: an automatic method in the GEANFAMMER package that finds homologous domains in single- and multi-domain proteins [J].
Park, J ;
Teichmann, SA .
BIOINFORMATICS, 1998, 14 (02) :144-150
[30]   Prediction of coordination number and relative solvent accessibility in proteins [J].
Pollastri, G ;
Baldi, P ;
Fariselli, P ;
Casadio, R .
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2002, 47 (02) :142-153