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= 028026
         (215 letters)

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

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



>pdb|4GGD|A Chain A, Structural Analysis Of Human Cdc20 Supports Multisite
           Degron Recognition By ApcC.
 pdb|4GGD|B Chain B, Structural Analysis Of Human Cdc20 Supports Multisite
           Degron Recognition By ApcC
          Length = 431

 Score = 29.6 bits (65), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 4   IAWPYKLSPKVDCSHGHSKSVKKLTITPHYLSFSSSSTEQNIRF-------PVSKRNHLS 56
           + W Y    KV    GH+  V  LT++P   + +S++ ++ +R        P  +R    
Sbjct: 358 VIWKYPTMAKVAELKGHTSRVLSLTMSPDGATVASAAADETLRLWRCFELDPARRREREK 417

Query: 57  NTTANSTL 64
            + A S+L
Sbjct: 418 ASAAKSSL 425


>pdb|4GGA|A Chain A, Structural Analysis Of Human Cdc20 Supports Multi-Site
           Degron Recognition By ApcC
          Length = 420

 Score = 29.6 bits (65), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 4   IAWPYKLSPKVDCSHGHSKSVKKLTITPHYLSFSSSSTEQNIRF-------PVSKRNHLS 56
           + W Y    KV    GH+  V  LT++P   + +S++ ++ +R        P  +R    
Sbjct: 347 VIWKYPTMAKVAELKGHTSRVLSLTMSPDGATVASAAADETLRLWRCFELDPARRREREK 406

Query: 57  NTTANSTL 64
            + A S+L
Sbjct: 407 ASAAKSSL 414


>pdb|4GGC|A Chain A, Structural Analysis Of Human Cdc20 Supports Multi-Site
           Degron Recognition By ApcC
          Length = 318

 Score = 27.7 bits (60), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 12/44 (27%), Positives = 23/44 (52%)

Query: 4   IAWPYKLSPKVDCSHGHSKSVKKLTITPHYLSFSSSSTEQNIRF 47
           + W Y    KV    GH+  V  LT++P   + +S++ ++ +R 
Sbjct: 267 VIWKYPTMAKVAELKGHTSRVLSLTMSPDGATVASAAADETLRL 310


  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
   0.318    0.132    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,964,451
Number of Sequences: 62578
Number of extensions: 147088
Number of successful extensions: 458
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 454
Number of HSP's gapped (non-prelim): 4
length of query: 215
length of database: 14,973,337
effective HSP length: 95
effective length of query: 120
effective length of database: 9,028,427
effective search space: 1083411240
effective search space used: 1083411240
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)