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= 038843
         (283 letters)

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

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



>pdb|4ABN|A Chain A, Crystal Structure Of Full Length Mouse Strap (Ttc5)
 pdb|4ABN|B Chain B, Crystal Structure Of Full Length Mouse Strap (Ttc5)
          Length = 474

 Score = 27.7 bits (60), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 12/45 (26%), Positives = 27/45 (60%)

Query: 21 ERQFSYLRSYNNNHAVDEAKRKGIEIEKKVEKWLDSVNNAIFEAE 65
          +R + +  SY   H+V++A RK  ++++++EK L  +   +  A+
Sbjct: 55 DRLYCFRDSYFETHSVEDAGRKQQDVQEEMEKTLQQMEEVLGSAQ 99


>pdb|1USS|A Chain A, Yeast Histone H1 Globular Domain Ii, Hho1p Gii, Solution
           Nmr Structures
          Length = 88

 Score = 27.7 bits (60), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 5/63 (7%)

Query: 184 FDQVIFAEVSQNQDIRKIQGEIGCKILLRARSEDTLSRKLDSKQNFSSLFKKMAGDYIEG 243
           + ++I   + Q  D     G+   +I+L+   +DT S KL +  NF  LF       +E 
Sbjct: 10  YKEMILKSMPQLND-----GKGSSRIVLKKYVKDTFSSKLKTSSNFDYLFNSAIKKCVEN 64

Query: 244 SEF 246
            E 
Sbjct: 65  GEL 67


  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
   0.318    0.133    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,443,118
Number of Sequences: 62578
Number of extensions: 282586
Number of successful extensions: 874
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 23
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)