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= psy9160
         (297 letters)

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

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



>pdb|3F1I|H Chain H, Human Escrt-0 Core Complex
          Length = 98

 Score =  123 bits (309), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 58/95 (61%), Positives = 76/95 (80%)

Query: 143 DDFIRALKSQVEIFVNRMKSNSSRGRSIANDSSVQTLFVNITTMHSRLLKYIQQKDDKRV 202
           + F++AL++ V  FVNRMKSN  RGRSI NDS+V +LF +I  MH +LL+ + Q D++R+
Sbjct: 3   EQFLKALQNAVTTFVNRMKSNHMRGRSITNDSAVLSLFQSINGMHPQLLELLNQLDERRL 62

Query: 203 YYEGLQDKLTQVKDARAALNALREEHNEKLRREAQ 237
           YYEGLQDKL Q++DAR AL+ALREEH EKLRR A+
Sbjct: 63  YYEGLQDKLAQIRDARGALSALREEHREKLRRAAE 97


>pdb|2GSE|A Chain A, Crystal Structure Of Human Dihydropyrimidinease-Like 2
 pdb|2GSE|B Chain B, Crystal Structure Of Human Dihydropyrimidinease-Like 2
 pdb|2GSE|C Chain C, Crystal Structure Of Human Dihydropyrimidinease-Like 2
 pdb|2GSE|D Chain D, Crystal Structure Of Human Dihydropyrimidinease-Like 2
 pdb|2VM8|A Chain A, Human Crmp-2 Crystallised In The Presence Of Mg
 pdb|2VM8|B Chain B, Human Crmp-2 Crystallised In The Presence Of Mg
 pdb|2VM8|C Chain C, Human Crmp-2 Crystallised In The Presence Of Mg
 pdb|2VM8|D Chain D, Human Crmp-2 Crystallised In The Presence Of Mg
          Length = 501

 Score = 28.9 bits (63), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 21/39 (53%)

Query: 113 GTHGSHYSTDHHMNHTSGVTSPDEASDTELDDFIRALKS 151
           GT GSHY + +     + VTSP  + D    DF+ +L S
Sbjct: 295 GTDGSHYWSKNWAKAAAFVTSPPLSPDPTTPDFLNSLLS 333


  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    0.127    0.358 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,008,221
Number of Sequences: 62578
Number of extensions: 297824
Number of successful extensions: 927
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 925
Number of HSP's gapped (non-prelim): 12
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
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: 51 (24.3 bits)