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= psy3120
         (711 letters)

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

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



>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
           Nup475TTPTIS11
          Length = 77

 Score = 34.3 bits (77), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 4/60 (6%)

Query: 382 WGEPANCESGDLCQYCHTRTEQQ---FHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTE 438
           + E   C  G  CQ+ H   E +    HP+ YK+  C+  +  G CP G  C F H  TE
Sbjct: 18  YSESGRCRYGAKCQFAHGLGELRQANRHPK-YKTELCHKFKLQGRCPYGSRCHFIHNPTE 76


>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii Au-
           Rich Element By The Tandem Zinc Finger Domain Of Tis11d
          Length = 70

 Score = 33.1 bits (74), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 382 WGEPANCESGDLCQYCHTRTEQQF---HPEIYKSTKCNDVQQAGYCPRGVFCAFAH 434
           + E   C+ G+ CQ+ H   E +    HP+ YK+  C      G+CP G  C F H
Sbjct: 12  FEESGTCKYGEKCQFAHGFHELRSLTRHPK-YKTELCRTFHTIGFCPYGPRCHFIH 66


>pdb|2HCY|A Chain A, Yeast Alcohol Dehydrogenase I, Saccharomyces Cerevisiae
           Fermentative Enzyme
 pdb|2HCY|B Chain B, Yeast Alcohol Dehydrogenase I, Saccharomyces Cerevisiae
           Fermentative Enzyme
 pdb|2HCY|C Chain C, Yeast Alcohol Dehydrogenase I, Saccharomyces Cerevisiae
           Fermentative Enzyme
 pdb|2HCY|D Chain D, Yeast Alcohol Dehydrogenase I, Saccharomyces Cerevisiae
           Fermentative Enzyme
          Length = 347

 Score = 32.0 bits (71), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 33/86 (38%), Gaps = 16/86 (18%)

Query: 381 EWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRG--------VFCAF 432
           E G  +NC   DL  Y H  + QQ+           D  QA + P+G        + CA 
Sbjct: 104 ELGNESNCPHADLSGYTHDGSFQQY--------ATADAVQAAHIPQGTDLAQVAPILCAG 155

Query: 433 AHVDTEMANAREMAGGLGPLDGTPGS 458
             V   + +A  MAG    + G  G 
Sbjct: 156 ITVYKALKSANLMAGHWVAISGAAGG 181


  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    0.134    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,473,986
Number of Sequences: 62578
Number of extensions: 686188
Number of successful extensions: 1334
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1326
Number of HSP's gapped (non-prelim): 11
length of query: 711
length of database: 14,973,337
effective HSP length: 106
effective length of query: 605
effective length of database: 8,340,069
effective search space: 5045741745
effective search space used: 5045741745
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: 55 (25.8 bits)