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= 047100
         (233 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 =  107 bits (266), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 52/72 (72%), Positives = 59/72 (81%), Gaps = 4/72 (5%)

Query: 126 ARGTHVRMQYRGVRRRPWGKFAAEIRDPKKNGARVWLGTYDTPEGAAFAYDRAAFKMRGS 185
           A+G H    YRGVR+RPWGKFAAEIRDP KNGARVWLGT++T E AA AYDRAAF+MRGS
Sbjct: 1   AKGKH----YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGS 56

Query: 186 KAKLNFPHLIGS 197
           +A LNFP  + S
Sbjct: 57  RALLNFPLRVNS 68


>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 =  105 bits (261), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 48/59 (81%), Positives = 53/59 (89%)

Query: 134 QYRGVRRRPWGKFAAEIRDPKKNGARVWLGTYDTPEGAAFAYDRAAFKMRGSKAKLNFP 192
            YRGVR+RPWGKFAAEIRDP KNGARVWLGT++T E AA AYDRAAF+MRGS+A LNFP
Sbjct: 2   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60


>pdb|1GPP|A Chain A, Crystal Structure Of The S.Cerevisiae Homing Endonuclease
           Pi-Scei Domain I
          Length = 237

 Score = 26.9 bits (58), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 2/56 (3%)

Query: 127 RGTHVRMQYRGVRRRPWGKFAAEIRDPKKNGARVWLGTYDT--PEGAAFAYDRAAF 180
           R   +   YR    + + ++  E RD    G+ V   TY T  P GAAFA +   F
Sbjct: 148 RANELVESYRKASNKAYFEWTIEARDLSLLGSHVRKATYQTYAPIGAAFARECRGF 203


  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    0.134    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,439,326
Number of Sequences: 62578
Number of extensions: 185232
Number of successful extensions: 326
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 323
Number of HSP's gapped (non-prelim): 5
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
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: 50 (23.9 bits)