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= 026374
         (239 letters)

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

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



>pdb|3RRM|B Chain B, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
           And Adp
 pdb|3RRN|B Chain B, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
          Length = 297

 Score = 28.9 bits (63), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 18/109 (16%)

Query: 131 VTSFTLALEFKKGRLQNLYWKRDGCSKCSGNSN-----------FVCLNNQDCAIRSTSC 179
           V  FT  ++ +KGR QN+ WKR+  +K   N++           F  +          + 
Sbjct: 141 VIGFTCEIDTEKGR-QNMGWKRNNENKWEDNTSYDERMGGILSLFAIITRLQLPQEFITT 199

Query: 180 KNHGGSVDCSLGIQLAFSG------TDKHLSVLNSWYEVENLRQYSLYG 222
            +H   +  S  I            T+ H  +L SW++   ++    YG
Sbjct: 200 TSHPFPIALSWHILARICNTPLNLITNTHFVILGSWWDAAAVQFLQAYG 248


  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
   0.316    0.130    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,929,760
Number of Sequences: 62578
Number of extensions: 215225
Number of successful extensions: 792
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 792
Number of HSP's gapped (non-prelim): 2
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
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: 50 (23.9 bits)