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= psy11615
         (224 letters)

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

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



>pdb|3TEQ|A Chain A, Crystal Structure Of Soar Domain
 pdb|3TEQ|B Chain B, Crystal Structure Of Soar Domain
 pdb|3TEQ|C Chain C, Crystal Structure Of Soar Domain
 pdb|3TEQ|D Chain D, Crystal Structure Of Soar Domain
          Length = 101

 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/38 (55%), Positives = 27/38 (71%)

Query: 7  AEKQLQQAREACEKLRKKRSSLVGAFVSTHGKSIDDVD 44
          AEKQL  A+E  EK++KKR++L G F   H  S+DDVD
Sbjct: 26 AEKQLMVAKEGAEKIKKKRNTLFGTFHVAHSSSLDDVD 63



 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/36 (58%), Positives = 24/36 (66%)

Query: 179 PPGLQHWLQLTHEIENKAYVKKKLMAEKQLQQAREA 214
           P  LQ WLQLTHE+E + Y  KK  AEKQL  A+E 
Sbjct: 1   PEALQKWLQLTHEVEVQYYNIKKQNAEKQLMVAKEG 36


>pdb|4GOX|A Chain A, Sulfotransferase Domain From The Synechococcus Pcc 7002
           Olefin Synthase
          Length = 313

 Score = 28.1 bits (61), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 15/32 (46%), Positives = 19/32 (59%)

Query: 89  EGLQRAELDLANLQKELERARQEQENAASEKI 120
           EGLQRA +DL NL  E  +A+  Q   A+  I
Sbjct: 78  EGLQRALMDLENLTPEASQAKVNQWVKANTPI 109


>pdb|2WM9|A Chain A, Structure Of The Complex Between Dock9 And Cdc42.
 pdb|2WMN|A Chain A, Structure Of The Complex Between Dock9 And Cdc42-Gdp.
 pdb|2WMO|A Chain A, Structure Of The Complex Between Dock9 And Cdc42
          Length = 428

 Score = 27.3 bits (59), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 30/57 (52%)

Query: 91  LQRAELDLANLQKELERARQEQENAASEKIKLERRLQEHQALQGDASDLKSSSAFSD 147
           L   E+ +  + K++   RQ   +A  + IKL+ +LQ   ++Q +A  L  + AF D
Sbjct: 304 LNPIEVAIDEMSKKVAELRQLCSSAEVDMIKLQLKLQGSVSVQVNAGPLAYARAFLD 360


  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
   0.315    0.128    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,380,356
Number of Sequences: 62578
Number of extensions: 183246
Number of successful extensions: 852
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 822
Number of HSP's gapped (non-prelim): 41
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)