BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 031669
         (155 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
          Minimized Mean Structure
 pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
          46 Structures
          Length = 70

 Score = 66.2 bits (160), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 42/60 (70%), Gaps = 1/60 (1%)

Query: 20 RPYKGIRMRKWGKWVAEIREPNKR-SRIWLGSYSTPVAAARAYDTAVFYLRGPSARLNFP 78
          + Y+G+R R WGK+ AEIR+P K  +R+WLG++ T   AA AYD A F +RG  A LNFP
Sbjct: 4  KHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 63


>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
          Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
          Structure
          Length = 63

 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 32/58 (55%), Positives = 41/58 (70%), Gaps = 1/58 (1%)

Query: 22 YKGIRMRKWGKWVAEIREPNKR-SRIWLGSYSTPVAAARAYDTAVFYLRGPSARLNFP 78
          Y+G+R R WGK+ AEIR+P K  +R+WLG++ T   AA AYD A F +RG  A LNFP
Sbjct: 3  YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60


>pdb|3H4J|B Chain B, Crystal Structure Of Pombe Ampk Kdaid Fragment
 pdb|3H4J|A Chain A, Crystal Structure Of Pombe Ampk Kdaid Fragment
          Length = 336

 Score = 27.7 bits (60), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 26/60 (43%)

Query: 69  RGPSARLNFPDLLRGEGAVGGADMSAAFIRKKATEVGARVDAIESALHNTPDQEIPPPHN 128
           R P   +N PD LR    V G+   +  + K    +G   D I  AL +  + E+   +N
Sbjct: 258 RDPWFNVNLPDYLRPMEEVQGSYADSRIVSKLGEAMGFSEDYIVEALRSDENNEVKEAYN 317


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.316    0.133    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,009,332
Number of Sequences: 62578
Number of extensions: 188277
Number of successful extensions: 339
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 331
Number of HSP's gapped (non-prelim): 6
length of query: 155
length of database: 14,973,337
effective HSP length: 91
effective length of query: 64
effective length of database: 9,278,739
effective search space: 593839296
effective search space used: 593839296
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)