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= 042638
         (92 letters)

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

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



>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
           Recycles Rna Polymerase During Transcription
 pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
           Recycles Rna Polymerase During Transcription
          Length = 968

 Score = 25.4 bits (54), Expect = 9.2,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 6/76 (7%)

Query: 21  NHAIQTIQQRSNSLFPYVLQEIVHAKAEV----IEDFAKFAMLLKVKRGEKEEKLNVEVH 76
           N  +  + + + S     +Q+ VHA  ++    IE  A+   L+   R E +EKL+ E+ 
Sbjct: 862 NRQLNAVNRHTGSKLVNAVQQDVHAILQLGEAQIEKSAR--ALIDAARNEADEKLSAELS 919

Query: 77  KKEGTFHLNQMQQDQE 92
           + E    +N   +D E
Sbjct: 920 RLEALRAVNPNIRDDE 935


  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
   0.317    0.131    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,511,402
Number of Sequences: 62578
Number of extensions: 77533
Number of successful extensions: 197
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 6
length of query: 92
length of database: 14,973,337
effective HSP length: 59
effective length of query: 33
effective length of database: 11,281,235
effective search space: 372280755
effective search space used: 372280755
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: 45 (21.9 bits)