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= 006819
         (630 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 = 7e-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---VLTFDEKTSCMKPDLHVTVNA-DAIECDGKSK--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



 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 62/119 (52%), Gaps = 3/119 (2%)

Query: 509 ENLIQSIREKERKFMEERDPAISQAKWRRQMIASLPKLFNMIHFLFQSIKRSVITKEELI 568
           ++L++ IR KE +    +     + + R Q +  LP+L  ++  +F S ++  ++ E   
Sbjct: 420 QDLLERIRAKEAQKQLAQMTRCPEQEQRLQRLERLPELARVLRSVFVSERKPALSMEVAC 479

Query: 569 HKIISSHLQITDRREVEEQMNLMLELVPEWIS-EKLSSCGDLLVCINKMTCPESIRARL 626
            +++ S   I    E+E+ + L+ EL+P+W+S  ++ +  D  V ++K      I ARL
Sbjct: 480 ARMVGSCCTIMSPGEMEKHLLLLSELLPDWLSLHRIRT--DTYVKLDKAADLAHITARL 536


>pdb|2KLO|A Chain A, Structure Of The Cdt1 C-Terminal Domain
          Length = 138

 Score = 35.8 bits (81), Expect = 0.084,   Method: Compositional matrix adjust.
 Identities = 24/92 (26%), Positives = 49/92 (53%)

Query: 509 ENLIQSIREKERKFMEERDPAISQAKWRRQMIASLPKLFNMIHFLFQSIKRSVITKEELI 568
           + L++ IR KE +    R     + + R Q +  LP+L  ++  +F S ++  +T E + 
Sbjct: 13  QALLERIRAKEVQKQLARMTRCPEQELRLQRLERLPELARVLRNVFVSERKPALTMEVVC 72

Query: 569 HKIISSHLQITDRREVEEQMNLMLELVPEWIS 600
            +++ S        E+E+ + L+ EL+P+W+S
Sbjct: 73  ARMVDSCQTALSPGEMEKHLVLLAELLPDWLS 104


>pdb|2RQQ|A Chain A, Structure Of C-Terminal Region Of Cdt1
          Length = 113

 Score = 35.4 bits (80), Expect = 0.090,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 39/69 (56%)

Query: 532 QAKWRRQMIASLPKLFNMIHFLFQSIKRSVITKEELIHKIISSHLQITDRREVEEQMNLM 591
           + + R Q +  LP+L  ++  +F S ++  +T E +  +++ S        E+E+ + L+
Sbjct: 11  EQELRLQRLERLPELARVLRNVFVSERKPALTMEVVCARMVDSCQTALSPGEMEKHLVLL 70

Query: 592 LELVPEWIS 600
            EL+P+W+S
Sbjct: 71  AELLPDWLS 79


>pdb|3A4C|A Chain A, Crystal Structure Of Cdt1 C Terminal Domain
          Length = 106

 Score = 35.4 bits (80), Expect = 0.092,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 39/69 (56%)

Query: 532 QAKWRRQMIASLPKLFNMIHFLFQSIKRSVITKEELIHKIISSHLQITDRREVEEQMNLM 591
           + + R Q +  LP+L  ++  +F S ++  +T E +  +++ S        E+E+ + L+
Sbjct: 4   EQELRLQRLERLPELARVLRNVFVSERKPALTMEVVCARMVDSCQTALSPGEMEKHLVLL 63

Query: 592 LELVPEWIS 600
            EL+P+W+S
Sbjct: 64  AELLPDWLS 72


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

 Score = 34.7 bits (78), Expect = 0.17,   Method: Composition-based stats.
 Identities = 33/125 (26%), Positives = 58/125 (46%), Gaps = 7/125 (5%)

Query: 104 LPAKYMQLAECFDSLDAVIRLLKLKCSSPTFTSICPKIECLTDRRFSLGHLAQLKFILPE 163
           LP KY  L E F S D ++  L  +  + TF  +   ++    +RF   ++ Q+K + P 
Sbjct: 28  LPYKYQVLVEXFRSXDTIVSXLHNRSETVTFAKVKQGVQEXXRKRFEERNVGQIKTVYPT 87

Query: 164 VIQIKK---VLTFDEKTSCMKPDLHVTVNA-DAIECDGKSKCNSKN-LNLRTVFRARLMD 218
             + ++   V TF  K S  + D  +T+      E  G ++  +   L  R VFR  L++
Sbjct: 88  SYRFRQECNVPTF--KDSIKRSDYQLTIEPLLGQEAGGATQLTATCLLQRRQVFRQNLVE 145

Query: 219 FLKDH 223
            +K+ 
Sbjct: 146 RVKEQ 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
   0.313    0.126    0.356 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,017,034
Number of Sequences: 62578
Number of extensions: 642232
Number of successful extensions: 1202
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1195
Number of HSP's gapped (non-prelim): 14
length of query: 630
length of database: 14,973,337
effective HSP length: 105
effective length of query: 525
effective length of database: 8,402,647
effective search space: 4411389675
effective search space used: 4411389675
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)