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= 025378
         (253 letters)

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

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



>pdb|3GIG|B Chain B, Crystal Structure Of Phosphorylated Deskc In Complex With
           Amp-Pcp
          Length = 218

 Score = 27.3 bits (59), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 29/112 (25%), Positives = 53/112 (47%), Gaps = 13/112 (11%)

Query: 148 VGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL-KDPITQAAALAQKNSEATRA 206
           +  + KLEE  + +  +   L ++L  +G++  + RK + KDP   A  L      A  +
Sbjct: 19  IAELVKLEERQRIARDLXDTLGQKLSLIGLKSDLARKLIYKDPEQAARELKSVQQTARTS 78

Query: 207 L--------AMQGDVLEKELGEIQKVLLAMQVSPI----TWFYHLSVLTVSI 246
           L        +M+G  L+ EL  I+++L A  +  I     W  ++S+L  +I
Sbjct: 79  LNEVRKIVSSMKGIRLKDELINIKQILEAADIMFIYEEEKWPENISLLNENI 130


  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
   0.320    0.131    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,709,760
Number of Sequences: 62578
Number of extensions: 232740
Number of successful extensions: 603
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 603
Number of HSP's gapped (non-prelim): 10
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
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: 50 (23.9 bits)