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= psy12849
         (138 letters)

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

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



>pdb|2Z2U|A Chain A, Crystal Structure Of Archaeal Tyw1
          Length = 311

 Score = 27.7 bits (60), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 22/47 (46%)

Query: 47  IMAKKCRVILNCVGPYTWYGEAVVKACIEAKTHHVDITGEPYFMEYM 93
           I+A   R+I+   G     GE   K  +E K   + ++GEP    Y+
Sbjct: 99  ILAMHKRIIMGYAGVLDRVGEKKFKEALEPKHVAISLSGEPTLYPYL 145


>pdb|4EBA|A Chain A, Crystal Structure Of The Rna14-Rna15 Complex
 pdb|4EBA|B Chain B, Crystal Structure Of The Rna14-Rna15 Complex
 pdb|4EBA|C Chain C, Crystal Structure Of The Rna14-Rna15 Complex
 pdb|4EBA|D Chain D, Crystal Structure Of The Rna14-Rna15 Complex
 pdb|4EBA|E Chain E, Crystal Structure Of The Rna14-Rna15 Complex
 pdb|4EBA|F Chain F, Crystal Structure Of The Rna14-Rna15 Complex
          Length = 645

 Score = 25.4 bits (54), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)

Query: 94  QYEYNTRAQESEVCVVSACGIETLPIDMGVLMLQD 128
           QYE NT+  E E  ++S   I+ + +D+  LM  D
Sbjct: 353 QYELNTKIPEIETTILSC--IDRIHLDLAALMEDD 385


>pdb|4E85|A Chain A, Crystal Structure Of Hat Domain Of Rna14
 pdb|4E85|B Chain B, Crystal Structure Of Hat Domain Of Rna14
          Length = 678

 Score = 25.4 bits (54), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)

Query: 94  QYEYNTRAQESEVCVVSACGIETLPIDMGVLMLQD 128
           QYE NT+  E E  ++S   I+ + +D+  LM  D
Sbjct: 386 QYELNTKIPEIETTILSC--IDRIHLDLAALMEDD 418


>pdb|4E6H|A Chain A, Crystal Structure Of The Hat Domain Of K. Lactis Rna14
          Length = 679

 Score = 25.4 bits (54), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)

Query: 94  QYEYNTRAQESEVCVVSACGIETLPIDMGVLMLQD 128
           QYE NT+  E E  ++S   I+ + +D+  LM  D
Sbjct: 387 QYELNTKIPEIETTILSC--IDRIHLDLAALMEDD 419


  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
   0.321    0.135    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,547,766
Number of Sequences: 62578
Number of extensions: 110842
Number of successful extensions: 190
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: 189
Number of HSP's gapped (non-prelim): 4
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
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: 46 (22.3 bits)