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= psy16278
         (88 letters)

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

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



>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
           The Yeast Chd1 Chromatin Remodeler
          Length = 800

 Score = 37.0 bits (84), Expect = 0.003,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 1/63 (1%)

Query: 23  MPGVTYLRLDGSVVSTARHAIVTKFNSDPTID-VXXXXXXXXXXXXXXXXADTVIFVDHD 81
           + G+ + RLDG+V S  R   +  FNS  + D V                ADTV+  D D
Sbjct: 594 IKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSD 653

Query: 82  WSP 84
           W+P
Sbjct: 654 WNP 656


>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
           EUKARYOTIC Rad54
          Length = 644

 Score = 26.9 bits (58), Expect = 2.5,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 28  YLRLDGSVVSTARHAIVTKFNSDPTID-VXXXXXXXXXXXXXXXXADTVIFVDHDWSPMK 86
           Y+RLDG++    R  IV +FN+  + + +                A+ ++  D DW+P  
Sbjct: 443 YVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPAN 502

Query: 87  LE 88
            E
Sbjct: 503 DE 504


  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
   0.315    0.127    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,954,929
Number of Sequences: 62578
Number of extensions: 44386
Number of successful extensions: 75
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: 73
Number of HSP's gapped (non-prelim): 2
length of query: 88
length of database: 14,973,337
effective HSP length: 56
effective length of query: 32
effective length of database: 11,468,969
effective search space: 367007008
effective search space used: 367007008
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: 45 (21.9 bits)