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= 003869
         (790 letters)

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

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



>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
          Length = 82

 Score = 31.2 bits (69), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 29/82 (35%), Gaps = 25/82 (30%)

Query: 348 FECHKCEMTFDEKDTYLQHLLSFHQRTTRRYRLGSSVGDGVIIKDGKFECQFCHKVFHER 407
           F+C  C  +F    T   HLL  H  T                    + CQ+C K FH++
Sbjct: 2   FDCKICGKSFKRSSTLSTHLL-IHSDTR------------------PYPCQYCGKRFHQK 42

Query: 408 RRYNGHVGIHVRNYVRGIEEPH 429
                H  IH        E+PH
Sbjct: 43  SDMKKHTFIHTG------EKPH 58


>pdb|3ZWL|B Chain B, Structure Of Eukaryotic Translation Initiation Factor
           Eif3i Complex With Eif3b C-Terminus (655-700)
 pdb|3ZWL|D Chain D, Structure Of Eukaryotic Translation Initiation Factor
           Eif3i Complex With Eif3b C-Terminus (655-700)
          Length = 369

 Score = 30.0 bits (66), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)

Query: 392 DGKFECQFCHKVFHER-RRYNGHVG 415
           +GKFE +F HK+F E   R  GH G
Sbjct: 292 EGKFEARFYHKIFEEEIGRVQGHFG 316


  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
   0.314    0.132    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,625,591
Number of Sequences: 62578
Number of extensions: 923236
Number of successful extensions: 1566
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1564
Number of HSP's gapped (non-prelim): 2
length of query: 790
length of database: 14,973,337
effective HSP length: 107
effective length of query: 683
effective length of database: 8,277,491
effective search space: 5653526353
effective search space used: 5653526353
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)