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= 015921
         (398 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 = 5.8,   Method: Compositional matrix adjust.
 Identities = 23/109 (21%), Positives = 41/109 (37%), Gaps = 17/109 (15%)

Query: 207 HSQGQGHINHYVFTDSD--IAVVDDLGHIFHDYQNFHLALTFRNNKDQPLNSGF-----I 259
             +G  ++++Y   D    I   DDL     DYQ      T   +      + F     I
Sbjct: 183 QERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTKSCVATLEGHMSNVSFAVFHPTLPI 242

Query: 260 AVRGTPDGISRAKIFLEEVLRVYSSKYMNASRMLGDQLALAWVVKSHPS 308
            + 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 = 5.8,   Method: Compositional matrix adjust.
 Identities = 23/109 (21%), Positives = 41/109 (37%), Gaps = 17/109 (15%)

Query: 207 HSQGQGHINHYVFTDSD--IAVVDDLGHIFHDYQNFHLALTFRNNKDQPLNSGF-----I 259
             +G  ++++Y   D    I   DDL     DYQ      T   +      + F     I
Sbjct: 183 QERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTKSCVATLEGHMSNVSFAVFHPTLPI 242

Query: 260 AVRGTPDGISRAKIFLEEVLRVYSSKYMNASRMLGDQLALAWVVKSHPS 308
            + G+ DG           L++++S      + L   L  +W + +HP+
Sbjct: 243 IISGSEDG----------TLKIWNSSTYKVEKTLNVGLERSWCIATHPT 281


>pdb|3B5W|A Chain A, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|B Chain B, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|C Chain C, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|D Chain D, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|E Chain E, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|F Chain F, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|G Chain G, Crystal Structure Of Eschericia Coli Msba
 pdb|3B5W|H Chain H, Crystal Structure Of Eschericia Coli Msba
          Length = 582

 Score = 28.5 bits (62), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 27/55 (49%)

Query: 72  RLPNRLQCQGLKALNKTSFQASSIGNSISFVTVFTIYNTSLDVHVDSRASNMVTV 126
           ++ NR++ QG+K ++ +S     I    S    F +Y  S    +DS  +  +TV
Sbjct: 232 KVSNRMRLQGMKMVSASSISDPIIQLIASLALAFVLYAASFPSVMDSLTAGTITV 286


  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
   0.323    0.137    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,663,220
Number of Sequences: 62578
Number of extensions: 410083
Number of successful extensions: 770
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 768
Number of HSP's gapped (non-prelim): 6
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)