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= psy3276
         (62 letters)

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

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



>pdb|2KDP|A Chain A, Solution Structure Of The Sap30 Zinc Finger Motif
          Length = 71

 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 23/43 (53%), Positives = 34/43 (79%)

Query: 15 TDLQQICCLVDDGVRCPRPIGNASYSKRIQQIVTQKRLKLHLD 57
          ++  Q+CCL +DG RC R  GNAS+SKRIQ+ ++QK++K+ LD
Sbjct: 1  SNAGQLCCLREDGERCGRAAGNASFSKRIQKSISQKKVKIELD 43


>pdb|1W36|D Chain D, Recbcd:dna Complex
 pdb|1W36|G Chain G, Recbcd:dna Complex
 pdb|3K70|D Chain D, Crystal Structure Of The Complete Initiation Complex Of
           Recbcd
 pdb|3K70|G Chain G, Crystal Structure Of The Complete Initiation Complex Of
           Recbcd
          Length = 608

 Score = 26.2 bits (56), Expect = 5.2,   Method: Composition-based stats.
 Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 6/37 (16%)

Query: 19  QICCLVDDGVRCPRPIGNASYSKRIQQIVTQKRLKLH 55
           Q+ C + +G     P G A  ++RI+Q + QKR K+H
Sbjct: 439 QLLCALREG-----PFGVAGLNERIEQFMQQKR-KIH 469


  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
   0.322    0.140    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,930,081
Number of Sequences: 62578
Number of extensions: 60296
Number of successful extensions: 70
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 69
Number of HSP's gapped (non-prelim): 3
length of query: 62
length of database: 14,973,337
effective HSP length: 33
effective length of query: 29
effective length of database: 12,908,263
effective search space: 374339627
effective search space used: 374339627
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)