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= 038803
         (83 letters)

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

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



>pdb|1ST0|B Chain B, Structure Of Dcps Bound To M7gpppg
 pdb|1ST0|A Chain A, Structure Of Dcps Bound To M7gpppg
 pdb|1ST4|B Chain B, Structure Of Dcps Bound To M7gpppa
 pdb|1ST4|A Chain A, Structure Of Dcps Bound To M7gpppa
          Length = 337

 Score = 28.1 bits (61), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 6/42 (14%)

Query: 17  PGNKIERIYWSVSAIEIMNSNPGHY------VALLATSPTLK 52
           PG+ +ER +     IE +  +P HY       AL A  P LK
Sbjct: 288 PGSGVERAHLLAEVIENLECDPRHYQQRTLTFALRADDPLLK 329


>pdb|1XML|B Chain B, Structure Of Human Dcps
 pdb|1XML|A Chain A, Structure Of Human Dcps
          Length = 342

 Score = 28.1 bits (61), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 6/42 (14%)

Query: 17  PGNKIERIYWSVSAIEIMNSNPGHY------VALLATSPTLK 52
           PG+ +ER +     IE +  +P HY       AL A  P LK
Sbjct: 293 PGSGVERAHLLAEVIENLECDPRHYQQRTMTFALRADDPLLK 334


>pdb|1XMM|B Chain B, Structure Of Human Dcps Bound To M7gdp
 pdb|1XMM|A Chain A, Structure Of Human Dcps Bound To M7gdp
 pdb|1XMM|C Chain C, Structure Of Human Dcps Bound To M7gdp
 pdb|1XMM|D Chain D, Structure Of Human Dcps Bound To M7gdp
          Length = 342

 Score = 28.1 bits (61), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 6/42 (14%)

Query: 17  PGNKIERIYWSVSAIEIMNSNPGHY------VALLATSPTLK 52
           PG+ +ER +     IE +  +P HY       AL A  P LK
Sbjct: 293 PGSGVERAHLLAEVIENLECDPRHYQQRTLTFALRADDPLLK 334


>pdb|3BL7|A Chain A, Synthetic Gene Encoded Dcps Bound To Inhibitor Dg156844
 pdb|3BL7|B Chain B, Synthetic Gene Encoded Dcps Bound To Inhibitor Dg156844
 pdb|3BL9|A Chain A, Synthetic Gene Encoded Dcps Bound To Inhibitor Dg157493
 pdb|3BL9|B Chain B, Synthetic Gene Encoded Dcps Bound To Inhibitor Dg157493
 pdb|3BLA|A Chain A, Synthetic Gene Encoded Dcps Bound To Inhibitor Dg153249
 pdb|3BLA|B Chain B, Synthetic Gene Encoded Dcps Bound To Inhibitor Dg153249
          Length = 301

 Score = 26.9 bits (58), Expect = 3.2,   Method: Composition-based stats.
 Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 6/44 (13%)

Query: 15  QHPGNKIERIYWSVSAIEIMNSNPGHY------VALLATSPTLK 52
           + PG+ +ER +     IE +  +P HY       AL A  P LK
Sbjct: 250 EAPGSGVERAHLLAEVIENLECDPRHYQQRTLTFALRADDPLLK 293


>pdb|4HBS|A Chain A, Crystal Structure Of A Putative Hydrolase (Bacova_04882)
           From Bacteroides Ovatus Atcc 8483 At 2.80 A Resolution
          Length = 416

 Score = 25.4 bits (54), Expect = 9.0,   Method: Composition-based stats.
 Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 1/40 (2%)

Query: 2   GNCQAAEAATVVIQHPGNKIERIYWSVSAIEIMNSNPGHY 41
           GNC      ++ +Q PG K E + W    ++  + N   Y
Sbjct: 90  GNCSFPRN-SIXVQTPGEKDENLVWLADYVQTNDPNADRY 128


  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
   0.318    0.134    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,442,383
Number of Sequences: 62578
Number of extensions: 79018
Number of successful extensions: 181
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 180
Number of HSP's gapped (non-prelim): 7
length of query: 83
length of database: 14,973,337
effective HSP length: 51
effective length of query: 32
effective length of database: 11,781,859
effective search space: 377019488
effective search space used: 377019488
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)