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= 018399
         (356 letters)

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

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



>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
 pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
 pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
          Length = 445

 Score = 36.2 bits (82), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 17/37 (45%), Positives = 23/37 (62%)

Query: 28 LPREIVLHILLRLPITSLVQFKFVCRAWRALAQDPLL 64
          LP+E+ L++L  L    L+Q    CR WR LA+D LL
Sbjct: 22 LPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLL 58


>pdb|2OLS|A Chain A, The Crystal Structure Of The Phosphoenolpyruvate Synthase
           From Neisseria Meningitidis
          Length = 794

 Score = 30.8 bits (68), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 23/113 (20%), Positives = 53/113 (46%), Gaps = 8/113 (7%)

Query: 150 PRSDVQVY-TVGSPAWRSKGKLAYQFVRRPSEALVKGRLHWVTRPRRYSPVRGIVSFDIA 208
           P++ V+V   VG+P      +LA+ F   PSE +   R+ ++   +     + ++ FD  
Sbjct: 481 PKAPVKVMMNVGNP------ELAFSFANLPSEGIGLARMEFIINRQIGIHPKALLEFDKQ 534

Query: 209 DEQFR-EVPKPDCGGLNRCNYHLTVLSGCLSVAVYGNYGKLEIWVMKDYNVKE 260
           D++ + E+ +   G  +  ++++  ++  ++      Y +  I  M D+   E
Sbjct: 535 DDELKAEITRRIAGYASPVDFYVDKIAEGVATLAASVYPRKTIVRMSDFKSNE 587


>pdb|1FS1|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FS1|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
          Length = 53

 Score = 27.7 bits (60), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 21/40 (52%)

Query: 22 ATGMETLPREIVLHILLRLPITSLVQFKFVCRAWRALAQD 61
              ++LP E++L I   L +  L++   VC+ W  LA D
Sbjct: 6  GVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASD 45


  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
   0.323    0.139    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,190,606
Number of Sequences: 62578
Number of extensions: 470483
Number of successful extensions: 812
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 807
Number of HSP's gapped (non-prelim): 7
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)