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= 017999
         (362 letters)

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

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



>pdb|2YNO|A Chain A, Yeast Betaprime Cop 1-304h6
 pdb|2YNO|B Chain B, Yeast Betaprime Cop 1-304h6
          Length = 310

 Score = 28.9 bits (63), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 23/109 (21%), Positives = 41/109 (37%), Gaps = 17/109 (15%)

Query: 171 HSQGQGHINHYVFTDSD--IAVVDDLGHIFHDYQNFHLALTFRNNKDQPLNSGF-----I 223
             +G  ++++Y   D    I   DDL     DYQ      T   +      + F     I
Sbjct: 183 QERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTKSCVATLEGHMSNVSFAVFHPTLPI 242

Query: 224 AVRGTPDGISRAKIFLEEVLRVYSSKYMNASRMLGDQLALAWVVKSHPS 272
            + G+ DG           L++++S      + L   L  +W + +HP+
Sbjct: 243 IISGSEDG----------TLKIWNSSTYKVEKTLNVGLERSWCIATHPT 281


>pdb|2YNN|A Chain A, Yeast Betaprime Cop 1-304 With Ktktn Motif
          Length = 304

 Score = 28.9 bits (63), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 23/109 (21%), Positives = 41/109 (37%), Gaps = 17/109 (15%)

Query: 171 HSQGQGHINHYVFTDSD--IAVVDDLGHIFHDYQNFHLALTFRNNKDQPLNSGF-----I 223
             +G  ++++Y   D    I   DDL     DYQ      T   +      + F     I
Sbjct: 183 QERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTKSCVATLEGHMSNVSFAVFHPTLPI 242

Query: 224 AVRGTPDGISRAKIFLEEVLRVYSSKYMNASRMLGDQLALAWVVKSHPS 272
            + G+ DG           L++++S      + L   L  +W + +HP+
Sbjct: 243 IISGSEDG----------TLKIWNSSTYKVEKTLNVGLERSWCIATHPT 281


  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
   0.324    0.138    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,877,511
Number of Sequences: 62578
Number of extensions: 381883
Number of successful extensions: 952
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 952
Number of HSP's gapped (non-prelim): 4
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)