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= psy1198
         (249 letters)

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

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



>pdb|4B8J|A Chain A, Rimp_alpha1a
          Length = 528

 Score = 32.0 bits (71), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 46/99 (46%), Gaps = 3/99 (3%)

Query: 138 DEDQQLQAVVEMCQMLVMGNEDTLTGFPVKQVVPALITLLSMDHNFDMMNNACRALTYMM 197
           D + QL+A  +  ++L +     +       VVP  +  L+ +    +   A  ALT + 
Sbjct: 87  DNNLQLEATTQFRKLLSIERSPPIEEVIQSGVVPRFVQFLTREDFPQLQFEAAWALTNIA 146

Query: 198 EALPRSSAVVLD--AVPTFLEKLQVIQCMDVAEQSLTAL 234
                ++ VV+D  AVP F+ KL      DV EQ++ AL
Sbjct: 147 SGTSENTKVVIDHGAVPIFV-KLLGSSSDDVREQAVWAL 184


>pdb|2YNS|A Chain A, Rimp_alpha_b54nls
 pdb|2YNS|B Chain B, Rimp_alpha_b54nls
 pdb|4B8O|A Chain A, Rimp_alpha_sv40tagnls
 pdb|4B8P|A Chain A, Rimp_alpha_a89nls
 pdb|4B8P|B Chain B, Rimp_alpha_a89nls
          Length = 490

 Score = 31.6 bits (70), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 46/99 (46%), Gaps = 3/99 (3%)

Query: 138 DEDQQLQAVVEMCQMLVMGNEDTLTGFPVKQVVPALITLLSMDHNFDMMNNACRALTYMM 197
           D + QL+A  +  ++L +     +       VVP  +  L+ +    +   A  ALT + 
Sbjct: 49  DNNLQLEATTQFRKLLSIERSPPIEEVIQSGVVPRFVQFLTREDFPQLQFEAAWALTNIA 108

Query: 198 EALPRSSAVVLD--AVPTFLEKLQVIQCMDVAEQSLTAL 234
                ++ VV+D  AVP F+ KL      DV EQ++ AL
Sbjct: 109 SGTSENTKVVIDHGAVPIFV-KLLGSSSDDVREQAVWAL 146


  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
   0.316    0.128    0.348 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,242,637
Number of Sequences: 62578
Number of extensions: 116829
Number of successful extensions: 294
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 294
Number of HSP's gapped (non-prelim): 3
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
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: 50 (23.9 bits)