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= 045071
         (453 letters)

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

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



>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
          Length = 272

 Score = 34.3 bits (77), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 51 WSKLPQRLLDRVLAFLPPPAFFRARAVCKRWYGL 84
          W  LP  LL  + + L  P   +   VCKRWY L
Sbjct: 9  WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL 42


>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
 pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A
          P27 Peptide
          Length = 336

 Score = 33.9 bits (76), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 51 WSKLPQRLLDRVLAFLPPPAFFRARAVCKRWYGL 84
          W  LP  LL  + + L  P   +   VCKRWY L
Sbjct: 9  WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL 42


>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 = 32.7 bits (73), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 18/40 (45%)

Query: 51 WSKLPQRLLDRVLAFLPPPAFFRARAVCKRWYGLLFSNSF 90
          W  LP  LL  + + L  P   +   VCKRWY L    S 
Sbjct: 9  WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL 48


>pdb|1LDK|E Chain E, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
          Ligase Complex
          Length = 41

 Score = 32.7 bits (73), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 18/40 (45%)

Query: 51 WSKLPQRLLDRVLAFLPPPAFFRARAVCKRWYGLLFSNSF 90
          W  LP  LL  + + L  P   +   VCKRWY L    S 
Sbjct: 1  WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL 40


  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
   0.324    0.138    0.447 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,067,381
Number of Sequences: 62578
Number of extensions: 520065
Number of successful extensions: 1582
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1578
Number of HSP's gapped (non-prelim): 5
length of query: 453
length of database: 14,973,337
effective HSP length: 102
effective length of query: 351
effective length of database: 8,590,381
effective search space: 3015223731
effective search space used: 3015223731
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (25.0 bits)