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= psy7171
         (146 letters)

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

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



>pdb|1UNG|D Chain D, Structural Mechanism For The Inhibition Of Cdk5-P25 By
           Roscovitine, Aloisine And Indirubin.
 pdb|1UNG|E Chain E, Structural Mechanism For The Inhibition Of Cdk5-P25 By
           Roscovitine, Aloisine And Indirubin.
 pdb|1UNH|D Chain D, Structural Mechanism For The Inhibition Of Cdk5-P25 By
           Roscovitine, Aloisine And Indirubin.
 pdb|1UNH|E Chain E, Structural Mechanism For The Inhibition Of Cdk5-P25 By
           Roscovitine, Aloisine And Indirubin.
 pdb|1UNL|D Chain D, Structural Mechanism For The Inhibition Of Cd5-P25 From
           The Roscovitine, Aloisine And Indirubin.
 pdb|1UNL|E Chain E, Structural Mechanism For The Inhibition Of Cd5-P25 From
           The Roscovitine, Aloisine And Indirubin
          Length = 208

 Score =  150 bits (378), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/128 (57%), Positives = 93/128 (72%), Gaps = 12/128 (9%)

Query: 4   VVGLRMGDDHLAIACWLFPVPLRLSEINDVAFINPANVVFVYMLVRELVDGDKIDSESQL 63
           V+ LR  D  L +  W            D  FI PANVVF+YML R+++  + + S+ +L
Sbjct: 76  VLWLRSVDRSLLLQGW-----------QDQGFITPANVVFLYMLCRDVISSE-VGSDHEL 123

Query: 64  QAVVLTCLYLSYSYMGNEISYPLKPFLVEDCKEKFWDRCLHIVNNMSSSMLRINAEPGFF 123
           QAV+LTCLYLSYSYMGNEISYPLKPFLVE CKE FWDRCL ++N MSS ML+INA+P +F
Sbjct: 124 QAVLLTCLYLSYSYMGNEISYPLKPFLVESCKEAFWDRCLSVINLMSSKMLQINADPHYF 183

Query: 124 TEIFTELK 131
           T++F++LK
Sbjct: 184 TQVFSDLK 191


>pdb|3O0G|D Chain D, Crystal Structure Of Cdk5:p25 In Complex With An Atp
           Analogue
 pdb|3O0G|E Chain E, Crystal Structure Of Cdk5:p25 In Complex With An Atp
           Analogue
          Length = 149

 Score =  149 bits (376), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 73/128 (57%), Positives = 93/128 (72%), Gaps = 12/128 (9%)

Query: 4   VVGLRMGDDHLAIACWLFPVPLRLSEINDVAFINPANVVFVYMLVRELVDGDKIDSESQL 63
           V+ LR  D  L +  W            D  FI PANVVF+YML R+++  + + S+ +L
Sbjct: 31  VLWLRSVDRSLLLQGW-----------QDQGFITPANVVFLYMLCRDVISSE-VGSDHEL 78

Query: 64  QAVVLTCLYLSYSYMGNEISYPLKPFLVEDCKEKFWDRCLHIVNNMSSSMLRINAEPGFF 123
           QAV+LTCLYLSYSYMGNEISYPLKPFLVE CKE FWDRCL ++N MSS ML+INA+P +F
Sbjct: 79  QAVLLTCLYLSYSYMGNEISYPLKPFLVESCKEAFWDRCLSVINLMSSKMLQINADPHYF 138

Query: 124 TEIFTELK 131
           T++F++LK
Sbjct: 139 TQVFSDLK 146


>pdb|1H4L|D Chain D, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
 pdb|1H4L|E Chain E, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
          Length = 147

 Score =  149 bits (375), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 73/128 (57%), Positives = 93/128 (72%), Gaps = 12/128 (9%)

Query: 4   VVGLRMGDDHLAIACWLFPVPLRLSEINDVAFINPANVVFVYMLVRELVDGDKIDSESQL 63
           V+ LR  D  L +  W            D  FI PANVVF+YML R+++  + + S+ +L
Sbjct: 29  VLWLRSVDRSLLLQGW-----------QDQGFITPANVVFLYMLCRDVISSE-VGSDHEL 76

Query: 64  QAVVLTCLYLSYSYMGNEISYPLKPFLVEDCKEKFWDRCLHIVNNMSSSMLRINAEPGFF 123
           QAV+LTCLYLSYSYMGNEISYPLKPFLVE CKE FWDRCL ++N MSS ML+INA+P +F
Sbjct: 77  QAVLLTCLYLSYSYMGNEISYPLKPFLVESCKEAFWDRCLSVINLMSSKMLQINADPHYF 136

Query: 124 TEIFTELK 131
           T++F++LK
Sbjct: 137 TQVFSDLK 144


>pdb|2GCU|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
           At1g53580
 pdb|2GCU|B Chain B, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
           At1g53580
 pdb|2GCU|C Chain C, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
           At1g53580
 pdb|2GCU|D Chain D, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
           At1g53580
          Length = 245

 Score = 27.7 bits (60), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 11/41 (26%), Positives = 26/41 (63%)

Query: 74  SYSYMGNEISYPLKPFLVEDCKEKFWDRCLHIVNNMSSSML 114
           +++Y+  ++S+P KP L+ D  +K  DR L +++ +   ++
Sbjct: 15  TFTYLLADVSHPDKPALLIDPVDKTVDRDLKLIDELGLKLI 55


  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    0.139    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,169,899
Number of Sequences: 62578
Number of extensions: 148929
Number of successful extensions: 357
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 8
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)