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= 008589
         (560 letters)

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

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



>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
           Ligase Complex
          Length = 396

 Score = 29.3 bits (64), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15  IESDSNQDVDLLKNYVSKIQELEGELLRVKSTH 47
           +++D N+D+  + N VS+IQ+  GEL ++  TH
Sbjct: 297 LDADKNEDLGRMYNLVSRIQDGLGELKKLLETH 329


>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
          Length = 776

 Score = 29.3 bits (64), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15  IESDSNQDVDLLKNYVSKIQELEGELLRVKSTH 47
           +++D N+D+  + N VS+IQ+  GEL ++  TH
Sbjct: 311 LDADKNEDLGRMYNLVSRIQDGLGELKKLLETH 343


>pdb|1EJ6|B Chain B, Reovirus Core
 pdb|1EJ6|C Chain C, Reovirus Core
 pdb|2CSE|V Chain V, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|W Chain W, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
          Length = 1275

 Score = 28.9 bits (63), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)

Query: 399 ASEQSGQGADETDKDHALVTHGAMLLQNAL-IERPADTDEDGGARRKPLS 447
           A E + + A +TDK  A VT+    + NA  + R  + D +GG+ +KP+S
Sbjct: 102 ADEATQKQAKDTDKSKAQVTYSDTGINNANELSRSGNVDNEGGSNQKPMS 151


>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
           Ligase Complex
          Length = 760

 Score = 28.9 bits (63), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15  IESDSNQDVDLLKNYVSKIQELEGELLRVKSTH 47
           +++D N+D+  + N VS+IQ+  GEL ++  TH
Sbjct: 295 LDADKNEDLGRMYNLVSRIQDGLGELKKLLETH 327


  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
   0.307    0.123    0.330 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,965,675
Number of Sequences: 62578
Number of extensions: 409721
Number of successful extensions: 957
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 950
Number of HSP's gapped (non-prelim): 17
length of query: 560
length of database: 14,973,337
effective HSP length: 104
effective length of query: 456
effective length of database: 8,465,225
effective search space: 3860142600
effective search space used: 3860142600
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 54 (25.4 bits)