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= 039796
         (66 letters)

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

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



>pdb|2LYD|A Chain A, The Solution Structure Of The Dm Dcp1 Evh1 Domain In
          Complex With The Xrn1 Dbm Peptide
          Length = 134

 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 36/54 (66%)

Query: 11 LDQQSTKLLNLTVLQLIDPFIEEILITAAHVTFYEFNIDLSQWSRKDVEGSLFV 64
          +  +S   +NL  ++ IDP+ +EI+ +++HV FY FN   ++W + DVEG+ F+
Sbjct: 8  MADESITRMNLAAIKKIDPYAKEIVDSSSHVAFYTFNSSQNEWEKTDVEGAFFI 61


>pdb|2QKL|A Chain A, The Crystal Structure Of Fission Yeast Mrna Decapping
          Enzyme Dcp1-Dcp2 Complex
 pdb|2QKM|A Chain A, The Crystal Structure Of Fission Yeast Mrna Decapping
          Enzyme Dcp1-Dcp2 Complex
 pdb|2QKM|C Chain C, The Crystal Structure Of Fission Yeast Mrna Decapping
          Enzyme Dcp1-Dcp2 Complex
 pdb|2QKM|E Chain E, The Crystal Structure Of Fission Yeast Mrna Decapping
          Enzyme Dcp1-Dcp2 Complex
 pdb|2QKM|G Chain G, The Crystal Structure Of Fission Yeast Mrna Decapping
          Enzyme Dcp1-Dcp2 Complex
          Length = 127

 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 31/48 (64%)

Query: 19 LNLTVLQLIDPFIEEILITAAHVTFYEFNIDLSQWSRKDVEGSLFVVK 66
          +NL VL+   P IE I+  A+HV  Y+F++   +W +  +EG+ F+VK
Sbjct: 11 VNLQVLKFHYPEIESIIDIASHVAVYQFDVGSQKWLKTSIEGTFFLVK 58


>pdb|1Q67|A Chain A, Crystal Structure Of Dcp1p
 pdb|1Q67|B Chain B, Crystal Structure Of Dcp1p
          Length = 231

 Score = 34.3 bits (77), Expect = 0.017,   Method: Compositional matrix adjust.
 Identities = 13/48 (27%), Positives = 27/48 (56%)

Query: 17 KLLNLTVLQLIDPFIEEILITAAHVTFYEFNIDLSQWSRKDVEGSLFV 64
          K LN  V+   DP I+++L    H + Y+++    +W++ + +G L +
Sbjct: 20 KALNFNVIGRYDPKIKQLLFHTPHASLYKWDFKKDEWNKLEYQGVLAI 67


  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    0.136    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,854,910
Number of Sequences: 62578
Number of extensions: 54381
Number of successful extensions: 177
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 174
Number of HSP's gapped (non-prelim): 3
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)