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= 046773
         (453 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 = 37.4 bits (85), Expect = 0.019,   Method: Compositional matrix adjust.
 Identities = 26/118 (22%), Positives = 43/118 (36%), Gaps = 18/118 (15%)

Query: 75  QVCSTWRAVSRSDLLWHR------------LTRRIWGRTNLLHATWRDEYIYRHRTAQNF 122
           Q C  WR ++  +LLW              + RR   +   +H+ W+  YI +HR   N+
Sbjct: 44  QTCRYWRILAEDNLLWREKCKEEGIDEPLHIKRRKVIKPGFIHSPWKSAYIRQHRIDTNW 103

Query: 123 RTRRYTHFNLYFDPSDVDNPDGLTCRCLTLSDLYLACGFADGAVRLFDLTTRLHVRTF 180
           R            P  +   D     CL      +  G  D  ++++   T   +RT 
Sbjct: 104 RRGELK------SPKVLKGHDDHVITCLQFCGNRIVSGSDDNTLKVWSAVTGKCLRTL 155


>pdb|3MKS|B Chain B, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
           ALLOSTERIC Inhibitor Scf-I2
 pdb|3MKS|D Chain D, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
           ALLOSTERIC Inhibitor Scf-I2
 pdb|3V7D|B Chain B, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
 pdb|3V7D|D Chain D, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
          Length = 464

 Score = 30.4 bits (67), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 26/49 (53%)

Query: 402 VEGVIRVWEVEGGEYMYSFRERIGEEVIAFVGDDRHVAASCGTNIHLWD 450
           ++  IR+W++E GE MY+ +       +  + D   V+A+   +I  WD
Sbjct: 330 MDTTIRIWDLENGELMYTLQGHTALVGLLRLSDKFLVSAAADGSIRGWD 378


>pdb|3IZ6|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
           A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
           Ribosome
          Length = 380

 Score = 28.5 bits (62), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 34/86 (39%), Gaps = 1/86 (1%)

Query: 157 LACGFADGAVRLFDLTTRLHVRTFRPQHSDRLGQFSRAVSGIIITDSQLIFATLDGDIHV 216
           +ACG  D A  +F+L+++       P      G    A S   + D +    T  GD   
Sbjct: 123 VACGGLDSACSIFNLSSQADRDGNMPVSRVLTGHKGYASSCQYVPDQETRLITGSGD-QT 181

Query: 217 AVIDDVANETRTAHFGSVMDDGVLID 242
            V+ DV    R + FGS    G   D
Sbjct: 182 CVLWDVTTGQRISIFGSEFPSGHTAD 207


  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
   0.325    0.138    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,552,987
Number of Sequences: 62578
Number of extensions: 505627
Number of successful extensions: 1323
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1314
Number of HSP's gapped (non-prelim): 18
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 (21.6 bits)
S2: 53 (25.0 bits)