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= 009345
         (537 letters)

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

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



>pdb|2WVR|C Chain C, Human Cdt1:geminin Complex
          Length = 546

 Score = 59.3 bits (142), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 36/126 (28%), Positives = 65/126 (51%), Gaps = 8/126 (6%)

Query: 104 LPAKYMQLAECFDSLDAVIRLLKLKCSSPTFTSICPKIECLTDRRFSLGHLAQLKFILPE 163
           LP KY  LAE F S+D ++ +L  +  +PTF  +   ++ +  RRF   ++ Q+K + P 
Sbjct: 186 LPYKYQVLAEMFRSMDTIVGMLHNRSETPTFAKVQRGVQDMMRRRFEERNVGQIKTVYPA 245

Query: 164 VIQIKK---VLTFDEKTSCMKPDLHVTVN-ADAIECDGKSK--CNSKNLNLRTVFRARLM 217
             + ++   V TF + T   + D  +T+      E DG +     S+ L  R +F  +L+
Sbjct: 246 SYRFRQERSVPTFKDGTR--RSDYQLTIEPLLEQEADGAAPQLTASRLLQRRQIFSQKLV 303

Query: 218 DFLKDH 223
           + +K+H
Sbjct: 304 EHVKEH 309


>pdb|2ZXX|C Chain C, Crystal Structure Of Cdt1GEMININ COMPLEX
 pdb|2ZXX|F Chain F, Crystal Structure Of Cdt1GEMININ COMPLEX
          Length = 197

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/147 (25%), Positives = 66/147 (44%), Gaps = 9/147 (6%)

Query: 84  ISASPSVKSSVNPAGSGSPKL--PAKYMQLAECFDSLDAVIRLLKLKCSSPTFTSICPKI 141
           +  +P+ +     A  G P L  P KY  L E F S D ++  L  +  + TF  +   +
Sbjct: 6   VEKAPAYQRFHALAQPGLPGLVLPYKYQVLVEXFRSXDTIVSXLHNRSETVTFAKVKQGV 65

Query: 142 ECLTDRRFSLGHLAQLKFILPEVIQIKK---VLTFDEKTSCMKPDLHVTVN-ADAIECDG 197
           +    +RF   ++ Q+K + P   + ++   V TF  K S  + D  +T+      E  G
Sbjct: 66  QEXXRKRFEERNVGQIKTVYPTSYRFRQECNVPTF--KDSIKRSDYQLTIEPLLGQEAGG 123

Query: 198 KSKCNSK-NLNLRTVFRARLMDFLKDH 223
            ++  +   L  R VFR  L++ +K+ 
Sbjct: 124 ATQLTATCLLQRRQVFRQNLVERVKEQ 150


  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
   0.312    0.126    0.358 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,725,340
Number of Sequences: 62578
Number of extensions: 552993
Number of successful extensions: 968
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 963
Number of HSP's gapped (non-prelim): 12
length of query: 537
length of database: 14,973,337
effective HSP length: 103
effective length of query: 434
effective length of database: 8,527,803
effective search space: 3701066502
effective search space used: 3701066502
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)