Structural Classification of Proteins

SCOP Structural Classification of Proteins. Hierarchical protein structure database... 

Murzin A G, S E Brenner, T Hubbard and C Chothia 1995. SCOP A Structural Classification of Proteins Database for the Investigation of Sequences and Structures. Journal of Molecular Biology 247 536-540. 

TJ Hubbard, B Alley, SE Brenner, AG Murzm, C Chothia. SCOP A structural classification of proteins database. Nucleic Acids Res 27 254-256, 1999. 

Murzin, A. G. (1996). Structural classification of proteins new superfamilies. Curr. Opin. Struct. Biol. 6, 386-394. 

Murzin, A. G., and Bateman, A. (1997). Distant homology recognition using structural classification of proteins. Proteins Suppl. 1, 105-112. 

Naumann, T. and Matter, H. Structural classification of protein kinases using... 

Naumann, T. and Matter, H. (2002) Structural classification of protein kinases using 3d molecular interaction field analysis of their ligand binding sites Target family landscapes../. Med. Chem. 45, 2366-2378. 

FIGURE 4-22 Organization of proteins based on motifs. Shown here are just a small number of the hundreds of known stable motifs. They are divided into four classes all a, all /3, all3, and a + /3. Structural classification data from the SCOP (Structural Classification of Proteins) database (http //scop.mrc-lmb.cam.ac.uk/scop) are also provided. The PDB identifier is the unique number given to each structure archived in the Protein Data Bank (www.rcsb.org/pdb). The a//3 barrel, shown in Figure 4-21, is another particularly common a/fS motif. 

Structural classification of proteins SCOP http //vmrw.bio.cam.ac.uk/scop/... 

PALI (Phylogeny and Alignment of Homologous Protein Domains) Database. The PALI (v 2.6) database provides three-dimensional structure-based sequence alignments for homologous proteins of known three-dimensional structure (24-26). The protein families have been derived from the SCOP (Structural Classification of Proteins) database (27). There are 2,518 protein families, and using more than one sequence as reference, 37,986 profiles have been generated. 

Murzin AG, Brennerm SE, Hubbard T et al (1995) SCOP a structural classification of proteins database for the investigation of sequences and structures. J Mol Biol 247 536-540... 

Winter, C., Henschel, A., Kim, W.K. and Schroeder, M. (2006) SCOPPI a structural classification of protein-protein interfaces. Nucleic Acids Res. 34, D310-D314. 

The Sizes of Some Atoms Structure and Chemical Properties of Side Chain Groups of Amino Acids Approximate Torsion Angles for Some Regular Peptide Structures Classification of Protein Residues According to Their Tendencies to Form a Helix, P Structure, and P Turns... 

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