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= 020381
         (327 letters)

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

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



>pdb|3L5Z|A Chain A, Crystal Structure Of Transcriptional Regulator, Gntr
           Family From Bacillus Cereus
 pdb|3L5Z|B Chain B, Crystal Structure Of Transcriptional Regulator, Gntr
           Family From Bacillus Cereus
          Length = 156

 Score = 31.6 bits (70), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 23/49 (46%)

Query: 101 VIPSSTAPVDSDEYRAYLKTKLDLACAAVALRTAPVKPEDKSSLIENQT 149
           VIP   A V  +   +Y++ KL L      +R   ++P+DK     N T
Sbjct: 62  VIPGVEASVLEESIYSYIQNKLGLKVGTSVVRVKGIRPDDKEKQFXNLT 110


>pdb|4FGV|A Chain A, Crystal Structure Of Free Crm1 (crystal Form 1)
 pdb|4HZK|A Chain A, Crystal Structure Of Free Crm1 (crystal Form 2)
 pdb|4HZK|B Chain B, Crystal Structure Of Free Crm1 (crystal Form 2)
          Length = 1086

 Score = 29.3 bits (64), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 1/33 (3%)

Query: 290 VNNRILKADIETLRAKVTYYFIRIIQLSIFYIM 322
           +NN   K D++T  A    +FIRI+Q  +F+++
Sbjct: 907 INNIAEKTDVQTCNAFFNQFFIRILQ-DVFFVL 938


  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
   0.313    0.127    0.350 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,018,121
Number of Sequences: 62578
Number of extensions: 181923
Number of successful extensions: 313
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: 312
Number of HSP's gapped (non-prelim): 2
length of query: 327
length of database: 14,973,337
effective HSP length: 99
effective length of query: 228
effective length of database: 8,778,115
effective search space: 2001410220
effective search space used: 2001410220
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)