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= 024038
         (273 letters)

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

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



>pdb|3RLS|A Chain A, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
 pdb|3RLS|B Chain B, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
          Length = 175

 Score =  129 bits (323), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 67/166 (40%), Positives = 97/166 (58%), Gaps = 17/166 (10%)

Query: 47  VEISIPIVYGNVAFWLGK----KASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFN 102
           + +S PI+YGN A  +G      A    +H WT++VRG  NED+   IK+ VF+LH ++ 
Sbjct: 4   LSVSRPIIYGNTAKKMGSVKPPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYP 63

Query: 103 NPTRAVESPPFELSESGWGEFEIAITLYFHADVCDKPLNLYHHLKLYP------------ 150
           NP R++E+PPFEL+E+GWGEF+I I +YF  +  +K LN YH L+L+P            
Sbjct: 64  NPVRSIEAPPFELTETGWGEFDINIKVYFVEEANEKVLNFYHRLRLHPYANPVPNSDNGN 123

Query: 151 EDESGSMSTKKPVVVESY-DEIVFPEPSDSFLARVQNHPAVTLPRL 195
           E  +   ++K   V   Y DEIVF EP++ F   + + P   LP L
Sbjct: 124 EQNTTDHNSKDAEVSSVYFDEIVFNEPNEEFFKILMSRPGNLLPSL 169


>pdb|3FK3|A Chain A, Structure Of The Yeats Domain, Yaf9
 pdb|3FK3|B Chain B, Structure Of The Yeats Domain, Yaf9
 pdb|3FK3|C Chain C, Structure Of The Yeats Domain, Yaf9
          Length = 164

 Score =  121 bits (304), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 63/152 (41%), Positives = 90/152 (59%), Gaps = 17/152 (11%)

Query: 47  VEISIPIVYGNVAFWLGK----KASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFN 102
           + +S PI+YGN A   G      A    +H WT++VRG  NED+   IK+ VF+LH ++ 
Sbjct: 7   LSVSRPIIYGNTAKKXGSVKPPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYP 66

Query: 103 NPTRAVESPPFELSESGWGEFEIAITLYFHADVCDKPLNLYHHLKLYP------------ 150
           NP R++E+PPFEL+E+GWGEF+I I +YF  +  +K LN YH L+L+P            
Sbjct: 67  NPVRSIEAPPFELTETGWGEFDINIKVYFVEEANEKVLNFYHRLRLHPYANPVPNSDNGN 126

Query: 151 EDESGSMSTKKPVVVESY-DEIVFPEPSDSFL 181
           E  +   ++K   V   Y DEIVF EP++ F 
Sbjct: 127 EQNTTDHNSKDAEVSSVYFDEIVFNEPNEEFF 158


>pdb|3QRL|A Chain A, Crystal Structure Of The Taf14 Yeats Domain
          Length = 140

 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 25/45 (55%)

Query: 87  GVVIKRAVFQLHSSFNNPTRAVESPPFELSESGWGEFEIAITLYF 131
             +  + ++ LH +F NP R    PPF + E GWG F + I+++ 
Sbjct: 51  ATIFDKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVFL 95


>pdb|2L7E|A Chain A, The Structure Of A Domain From Yeast
          Length = 131

 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 25/45 (55%)

Query: 87  GVVIKRAVFQLHSSFNNPTRAVESPPFELSESGWGEFEIAITLYF 131
             +  + ++ LH +F NP R    PPF + E GWG F + I+++ 
Sbjct: 48  ATIFDKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVFL 92


  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
   0.314    0.132    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,862,777
Number of Sequences: 62578
Number of extensions: 296169
Number of successful extensions: 473
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 460
Number of HSP's gapped (non-prelim): 10
length of query: 273
length of database: 14,973,337
effective HSP length: 97
effective length of query: 176
effective length of database: 8,903,271
effective search space: 1566975696
effective search space used: 1566975696
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)