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= 009074
         (544 letters)

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

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



>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
           Nucleotide Free Form
 pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
           Analogue, Gmppnp
          Length = 592

 Score = 28.5 bits (62), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 57/130 (43%), Gaps = 41/130 (31%)

Query: 100 IEAILAPLEAELKLA--------RQEIAKLQDDNK--------------ALDRLTKSKEA 137
           ++ I +PLE E+K          R  + KLQD  K               L    KSKE+
Sbjct: 411 LQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKES 470

Query: 138 ----------ALLEAERTVQV-------ALAKASMVDDLQNKNQELMKQIEICQEEN--K 178
                      L E E+ ++V       A A A M+ ++Q KN+++M+Q E   +E+  +
Sbjct: 471 MTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQ 530

Query: 179 ILDKMHRQKV 188
           + +KM   +V
Sbjct: 531 LTEKMENDRV 540


  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
   0.312    0.127    0.342 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,518,128
Number of Sequences: 62578
Number of extensions: 366139
Number of successful extensions: 762
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 748
Number of HSP's gapped (non-prelim): 54
length of query: 544
length of database: 14,973,337
effective HSP length: 104
effective length of query: 440
effective length of database: 8,465,225
effective search space: 3724699000
effective search space used: 3724699000
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)