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= psy8772
         (234 letters)

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

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



>pdb|2EBM|A Chain A, Solution Structure Of The Rwd Domain Of Human Rwd Domain
           Containing Protein 1
          Length = 128

 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 45/116 (38%), Positives = 64/116 (55%)

Query: 2   DYQEEQSNEIEALDSIYYGDMEILEKDPHVFTIPIQSECVDDEHQMNCLLRFQYTPKYXX 61
           DY EEQ NE+EAL+SIY     +L ++P  FTI + SE  +++  +   L+F Y+ KY  
Sbjct: 10  DYGEEQRNELEALESIYPDSFTVLSENPPSFTITVTSEAGENDETVQTTLKFTYSEKYPD 69

Query: 62  XXXXXXXXXXXXXXXXVERELKEYLLTQANENLGMVMIFTLVSSAQEWLSTKSDQL 117
                              ++ + L  QA ENLGMVMIFTLV++ QE L+   DQ+
Sbjct: 70  EAPLYEIFSQENLEDNDVSDILKLLALQAEENLGMVMIFTLVTAVQEKLNEIVDQI 125


>pdb|2YZ0|A Chain A, Solution Structure Of RwdGI DOMAIN OF SACCHAROMYCES
           Cerevisiae Gcn2
          Length = 138

 Score = 28.1 bits (61), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 47/117 (40%), Gaps = 11/117 (9%)

Query: 3   YQEEQSNEIEALDSIYYGDMEIL-------EKDPH-VFTIPIQSECVDDEH-QMNCLLRF 53
           Y E Q NE+EA+ SIY  D   L       +K P  +F I ++S  VD E  + +  L F
Sbjct: 11  YYEIQCNELEAIRSIYMDDFTDLTKRKSSWDKQPQIIFEITLRS--VDKEPVESSITLHF 68

Query: 54  QYTPKYXXXXXXXXXXXXXXXXXXVERELKEYLLTQANENLGMVMIFTLVSSAQEWL 110
             TP Y                    + LK       N + G  +IF + S  QE L
Sbjct: 69  AMTPMYPYTAPEIEFKNVQNVMDSQLQMLKSEFKKIHNTSRGQEIIFEITSFTQEKL 125


  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    0.131    0.367 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,529,144
Number of Sequences: 62578
Number of extensions: 179163
Number of successful extensions: 298
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 296
Number of HSP's gapped (non-prelim): 4
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
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: 50 (23.9 bits)