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= 008892
         (549 letters)

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

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



>pdb|2FB7|A Chain A, Nmr Solution Structure Of Protein From Zebra Fish
          Dr.13312
 pdb|2VXF|A Chain A, Solution Structure Of The Lsm-Domain Of Zebrafish Rap55
          Length = 95

 Score = 85.5 bits (210), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 46/78 (58%), Positives = 57/78 (73%), Gaps = 1/78 (1%)

Query: 13 YIGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYI 72
          YIGS ISLISK EIRYEG+LY ++  +ST+ L  V+SFGTE R  D P + P ++ +EYI
Sbjct: 17 YIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRP-IAPRDETFEYI 75

Query: 73 LFRGSDIKDLEVKSSPPP 90
          +FRGSDIKDL V   P P
Sbjct: 76 IFRGSDIKDLTVCEPPKP 93


>pdb|2VXE|A Chain A, Solution Structure Of The Lsm Domain Of Drosophila
          Melanogaster Tral (Trailer Hitch)
          Length = 88

 Score = 79.0 bits (193), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 40/71 (56%), Positives = 52/71 (73%), Gaps = 1/71 (1%)

Query: 14 IGSFISLISKYEIRYEGVLYHLNVGDSTIGLKNVKSFGTEGRKKDGPQVLPSEKVYEYIL 73
          +GS ISLISK +IRYEG LY ++  + TI L +V+SFGTE R     Q+ P  ++Y+YIL
Sbjct: 12 LGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQ-FQIAPQSQIYDYIL 70

Query: 74 FRGSDIKDLEV 84
          FRGSDIKD+ V
Sbjct: 71 FRGSDIKDIRV 81


  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
   0.308    0.125    0.362 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,702,292
Number of Sequences: 62578
Number of extensions: 589195
Number of successful extensions: 942
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 934
Number of HSP's gapped (non-prelim): 20
length of query: 549
length of database: 14,973,337
effective HSP length: 104
effective length of query: 445
effective length of database: 8,465,225
effective search space: 3767025125
effective search space used: 3767025125
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 54 (25.4 bits)