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= 012439
         (463 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 58/116 (50%), Gaps = 2/116 (1%)

Query: 136 MFCKTLTASDTSTCGGFSVPRRAAEDCFPPLDYMQQRPSQQLVAKDLHGVEWKFRHIYRG 195
           +F K +T SD        +P+  AE  FP            L  +D++G  W+FR+ Y  
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN 72

Query: 196 QPRRHLLTTGWSAFVNKKKLVSGDAVLFLR--GEDGELKIGIRRAAQVKNGATFPS 249
             + ++LT GWS FV +K L +GD V F R  G+D +L IG +  +     A+ PS
Sbjct: 73  SSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDLDASGPS 128


>pdb|1NTC|A Chain A, Solution Structure Of The Dna-Binding Domain Of Ntrc With
           Three Alanine Substitutions
 pdb|1NTC|B Chain B, Solution Structure Of The Dna-Binding Domain Of Ntrc With
           Three Alanine Substitutions
          Length = 91

 Score = 28.5 bits (62), Expect = 8.2,   Method: Composition-based stats.
 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 4/51 (7%)

Query: 333 PVRWPGSKWRCLLVRWDD--VESNRHNRVSPWEIEPSGSNILVTSGLRRTR 381
           P   P   W  LL +W D  + S   N +S  E +P     L+T+ LR T+
Sbjct: 16  PSHLPPDSWATLLAQWADRALRSGHQNLLS--EAQPELERTLLTTALRHTQ 64


  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
   0.319    0.135    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,252,350
Number of Sequences: 62578
Number of extensions: 533779
Number of successful extensions: 1007
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1006
Number of HSP's gapped (non-prelim): 2
length of query: 463
length of database: 14,973,337
effective HSP length: 102
effective length of query: 361
effective length of database: 8,590,381
effective search space: 3101127541
effective search space used: 3101127541
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)