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= psy13665
         (105 letters)

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

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



>pdb|1ELV|A Chain A, Crystal Structure Of The Catalytic Domain Of Human
           Complement C1s Protease
          Length = 333

 Score = 26.2 bits (56), Expect = 5.2,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 5/49 (10%)

Query: 29  LQRKHVKSGALDPVLVPGGVAIETNKRRKDAKVIPE-----PDWPLVVL 72
           L   HV  G  +P +  G  +++T++  K   + PE     P W L+ +
Sbjct: 116 LTAAHVVEGNREPTMYVGSTSVQTSRLAKSKMLTPEHVFIHPGWKLLAV 164


>pdb|3NVL|A Chain A, Crystal Structure Of Phosphoglycerate Mutase From
           Trypanosoma Brucei
 pdb|3NVL|B Chain B, Crystal Structure Of Phosphoglycerate Mutase From
           Trypanosoma Brucei
          Length = 571

 Score = 25.8 bits (55), Expect = 6.1,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 6/74 (8%)

Query: 14  ELKVTATTVHTYDKPLQRKHVKSGALDPVLV---PGGVAIETNKRRKDAKVIPEPDWPLV 70
           +LK T T++   D+ LQR      +++ V +     G + +  +R K  K + + +  L+
Sbjct: 451 DLKATITSLEAVDQSLQRLKEAVDSVNGVFLITADHGNSDDMVQRDKKGKPVRDAEGNLM 510

Query: 71  VLTSMAGYAMAPAP 84
            LTS   + +AP P
Sbjct: 511 PLTS---HTLAPVP 521


>pdb|3ZHE|A Chain A, Structure Of The C. Elegans Smg5-smg7 Complex
 pdb|3ZHE|C Chain C, Structure Of The C. Elegans Smg5-smg7 Complex
          Length = 420

 Score = 25.4 bits (54), Expect = 8.6,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 19/42 (45%)

Query: 64  EPDWPLVVLTSMAGYAMAPAPFEWSSFLICFSQLQLLHSVLF 105
           E DW L++ T      +A   F +  F  CF  +  L+  ++
Sbjct: 235 EFDWSLIMSTCRLASKLAMKKFGFQQFYNCFDTISTLYITIY 276


  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    0.132    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,129,023
Number of Sequences: 62578
Number of extensions: 111199
Number of successful extensions: 154
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 150
Number of HSP's gapped (non-prelim): 6
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
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: 45 (21.9 bits)