[BioRuby-cvs] bioruby/test/data/aaindex HENS920102, NONE, 1.1 PRAM900102, NONE, 1.1

[Mitsuteru C. Nakao]

Update of /home/repository/bioruby/bioruby/test/data/aaindex
In directory pub.open-bio.org:/tmp/cvs-serv30737/test/data/aaindex

Added Files:
	HENS920102 PRAM900102 
Log Message:
* HENS920102: newly added a test data for Bio::AAindex2.
* PRAM900102: newly added a test data for Bio::AAindex1.


--- NEW FILE: HENS920102 ---
H HENS920102
D BLOSUM62 substitution matrix (Henikoff-Henikoff, 1992)
R LIT:1902106 PMID:1438297
A Henikoff, S. and Henikoff, J.G.
T Amino acid substitution matrices from protein blocks
J Proc. Natl. Acad. Sci. USA 89, 10915-10919 (1992)
* matrix in 1/3 Bit Units
M rows = ARNDCQEGHILKMFPSTWYV, cols = ARNDCQEGHILKMFPSTWYV
      6.
     -2.      8.
     -2.     -1.      8.
     -3.     -2.      2.      9.
     -1.     -5.     -4.     -5.     13.
     -1.      1.      0.      0.     -4.      8.
     -1.      0.      0.      2.     -5.      3.      7.
      0.     -3.     -1.     -2.     -4.     -3.     -3.      8.
     -2.      0.      1.     -2.     -4.      1.      0.     -3.     11.
     -2.     -4.     -5.     -5.     -2.     -4.     -5.     -6.     -5.      6.
     -2.     -3.     -5.     -5.     -2.     -3.     -4.     -5.     -4.      2.      6.
     -1.      3.      0.     -1.     -5.      2.      1.     -2.     -1.     -4.     -4.      7.
     -1.     -2.     -3.     -5.     -2.     -1.     -3.     -4.     -2.      2.      3.     -2.      8.
     -3.     -4.     -4.     -5.     -4.     -5.     -5.     -5.     -2.      0.      1.     -5.      0.      9.
     -1.     -3.     -3.     -2.     -4.     -2.     -2.     -3.     -3.     -4.     -4.     -2.     -4.     -5.     11.
      2.     -1.      1.      0.     -1.      0.      0.      0.     -1.     -4.     -4.      0.     -2.     -4.     -1.      6.
      0.     -2.      0.     -2.     -1.     -1.     -1.     -2.     -3.     -1.     -2.     -1.     -1.     -3.     -2.      2.      7.
     -4.     -4.     -6.     -6.     -3.     -3.     -4.     -4.     -4.     -4.     -2.     -4.     -2.      1.     -5.     -4.     -4.     16.
     -3.     -3.     -3.     -5.     -4.     -2.     -3.     -5.      3.     -2.     -2.     -3.     -1.      4.     -4.     -3.     -2.      3.     10.
      0.     -4.     -4.     -5.     -1.     -3.     -4.     -5.     -5.      4.      1.     -3.      1.     -1.     -4.     -2.      0.     -4.     -2.      6.
//

--- NEW FILE: PRAM900102 ---
H PRAM900102
D Relative frequency in alpha-helix (Prabhakaran, 1990)
R LIT:1614053b PMID:2390062
A Prabhakaran, M.
T The distribution of physical, chemical and conformational properties in 
  signal and nascent peptides
J Biochem. J. 269, 691-696 (1990) Original reference of these three data: 
  Creighton, T.E. In "Protein Structure and Melecular Properties", (Freeman, 
  W.H., ed.), San Francisco P.235 (1983)
C LEVM780101    1.000  LEVM780104    0.964  PALJ810101    0.943
  KANM800101    0.942  ISOY800101    0.929  MAXF760101    0.924
  ROBB760101    0.916  GEIM800101    0.912  GEIM800104    0.907
  RACS820108    0.904  PALJ810102    0.902  PALJ810109    0.898
  NAGK730101    0.894  CRAJ730101    0.887  CHOP780201    0.873
  TANS770101    0.854  KANM800103    0.850  QIAN880107    0.829
  QIAN880106    0.827  BURA740101    0.805  NAGK730103   -0.809
I    A/L     R/K     N/M     D/F     C/P     Q/S     E/T     G/W     H/Y     I/V
    1.29    0.96    0.90    1.04    1.11    1.27    1.44    0.56    1.22    0.97
    1.30    1.23    1.47    1.07    0.52    0.82    0.82    0.99    0.72    0.91
//