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= 032655
         (136 letters)

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

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



>pdb|2XPI|A Chain A, Crystal Structure Of ApcC HETERO-Tetramer Cut9-Hcn1
 pdb|2XPI|D Chain D, Crystal Structure Of ApcC HETERO-Tetramer Cut9-Hcn1
          Length = 597

 Score = 36.2 bits (82), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 52/134 (38%), Gaps = 16/134 (11%)

Query: 9   LRGLVRDCVSKHLYSSAIFFANEVAALTNDPADVYMQAQALFLGRHYRRPFHLLNSSKIV 68
           LR    D + +  Y  A F   +V  +T +P D +  AQ       Y R   LL    + 
Sbjct: 87  LRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY 146

Query: 69  LRDLRFRYLAAKCLEEL----------------RSGTSVCRCSVMLRLLKMISSAICFLR 112
            R    RYLAA CL +L                R         +M      + +++C+LR
Sbjct: 147 NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLR 206

Query: 113 GKAYEALGNCAQAR 126
           G+ Y  L N  +A+
Sbjct: 207 GQVYTNLSNFDRAK 220


>pdb|2WUX|A Chain A, The Crystal Structure Of Recombinant Baculovirus
          Polyhedra
          Length = 245

 Score = 26.2 bits (56), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 15 DCVSKHLYSSAIFFANEVAALTNDPADVYMQAQALFLG 52
          D V K+      F  +E+   T DP D Y+ A+  FLG
Sbjct: 25 DAVIKNAKRKKHFAEHEIEEATLDPLDNYLVAEDPFLG 62


>pdb|3JW6|A Chain A, Crystal Structure Of Acmnpv Baculovirus Polyhedra
          Length = 245

 Score = 26.2 bits (56), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 15 DCVSKHLYSSAIFFANEVAALTNDPADVYMQAQALFLG 52
          D V K+      F  +E+   T DP D Y+ A+  FLG
Sbjct: 25 DAVIKNAKRKKHFAEHEIEEATLDPLDNYLVAEDPFLG 62


  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
   0.329    0.138    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,473,601
Number of Sequences: 62578
Number of extensions: 108474
Number of successful extensions: 311
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 304
Number of HSP's gapped (non-prelim): 7
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)