49 20 : 49 53 2006 Analysis of Protein Structure in Silico Michihiro OGAWA* *Department of Microbiology, Kyoto Pharmaceutical University N 20 N 20 N 3 http://sosui.proteome.bio.tuat.ac.jp/ sosuiframe0.html SOSUI Exec 1 FASTA 10 99% 20 α β SOSUI 5 2005 11 8 607 8414 5 5 Misasaginakauchi-cho, Yamashina-ku, Kyoto 607 8414, Japan Fig. 1. Screenshot of SOSUI server of Tokyo University of Agriculture and technology.
50 20 1 2006 90 SCOP 9 2 http://scop.mrc-lmb.cam.ac.uk/scop/ CATH 11 3 http://cathwww.biochem.ucl.ac.uk/ Fig. 2. Screenshot of SCOP (Strucutre Classification of Proteins) database. Medical Research Council. RasMol PDB Protein Data Bank 4 http://pdb.protein. osaka-u.ac.jp/pdb/ 3000 PDB 2005 10 33,152 - RPS-BLAST Reverse PSI-BLAST 1 5 http://spock.genes. nig.ac.jp/~genome/grpsblt.html SEARCH PSI-BLAST PDB PDB- BLAST http://bioinformatics.ljcrf.edu/pdb_blast/ PDB Fig. 3. Screenshot of CATH protein structure classification database. University College London. Fig. 4. Screenshot of PDB (Protein Data Bank). Osaka University.
51 Fig. 5. Screenshot of RPS-BLAST (Reverse Position- Specific BLAST) server. National Institute of Genetics, Japan. Fig. 6. Screenshot of 3D-PSSM (3-dimentional position-specific scoring matrix) fold recognition server. Imperical College London. CASP6 Critical Assessment of Techniques for Protein Structure Prediction; http://predictioncenter.org/casp6/ Casp6.html FORTE 12 http://www.cbrc.jp/htbin/forte-cgi/forte_form.pl FAMS 6 http://www.pharm.kitasato-u. ac.jp/fams/ 3D-PSSM 2 http://www.sbg.bio.ic.ac.uk/~3dpssm/index2.html mgenthreader 8 7 http://bioinf.cs.ucl.ac.uk/ psipred/ 3D-PSSM 1D 3D mgenthreader GenTHREADER 7 3D-PSSM Phyre Fig. 7. Screenshot of PSIPRED protein structure prediction server. University College London. http://www.sbg.bio.ic.ac.uk/~phyre/ CASP6 Ginalski
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