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= 025261
         (255 letters)

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

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



>pdb|3EBQ|A Chain A, Crystal Structure Of Human Pppde1
          Length = 170

 Score = 38.9 bits (89), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 33/141 (23%), Positives = 61/141 (43%), Gaps = 14/141 (9%)

Query: 1   MTDVRLHIYDVTNSGSEXXXXXXXXXXXXFKDGIGVGGIFHSAVQVYGDEEWSFGFCEQG 60
           +  V+L++YD++   +                G  + GI+H+++ V+ DE + FG     
Sbjct: 8   LYPVKLYVYDLSKGLARRLSPIML--------GKQLEGIWHTSIVVHKDE-FFFG----S 54

Query: 61  SGVFSCPSGRNPMYTYRESIVLGKTNFSIFKVNQILRELSRE-WPGNSYDLLGRNCNHFC 119
            G+ SCP G   +      + +G T  +     + L  L    + G +Y+L   NCN F 
Sbjct: 55  GGISSCPPGGTLLGPPDSVVDVGSTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNCNTFS 114

Query: 120 DEFCDRLGVPKLPGWVNRFAN 140
           +E    L   K+P ++    +
Sbjct: 115 NEVAQFLTGRKIPSYITDLPS 135


>pdb|2WP7|A Chain A, Crystal Structure Of Desumoylase(Duf862)
          Length = 168

 Score = 37.0 bits (84), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 33/136 (24%), Positives = 60/136 (44%), Gaps = 14/136 (10%)

Query: 1   MTDVRLHIYDVTNSGSEXXXXXXXXXXXXFKDGIGVGGIFHSAVQVYGDEEWSFGFCEQG 60
           +  V+L++YD++   +                G  + GI+H+++ V+ DE + FG     
Sbjct: 6   LYPVKLYVYDLSKGLARRLSPIML--------GKQLEGIWHTSIVVHKDE-FFFG----S 52

Query: 61  SGVFSCPSGRNPMYTYRESIVLGKTNFSIFKVNQILRELSRE-WPGNSYDLLGRNCNHFC 119
           SG+ SC  G   +      + +G T  +     + L  L    + G +Y+L   NCN F 
Sbjct: 53  SGISSCTPGGTLLGPPDSVVDVGNTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNCNTFS 112

Query: 120 DEFCDRLGVPKLPGWV 135
           +E    L   K+P ++
Sbjct: 113 NEVAQFLTGRKIPSYI 128


>pdb|2D16|A Chain A, Crystal Structure Of Ph1918 Protein From Pyrococcus
           Horikoshii Ot3
 pdb|2D16|B Chain B, Crystal Structure Of Ph1918 Protein From Pyrococcus
           Horikoshii Ot3
 pdb|2D16|C Chain C, Crystal Structure Of Ph1918 Protein From Pyrococcus
           Horikoshii Ot3
 pdb|2D16|D Chain D, Crystal Structure Of Ph1918 Protein From Pyrococcus
           Horikoshii Ot3
          Length = 162

 Score = 28.5 bits (62), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 79  SIVLGKTNFSIFKVNQILRELSREWPGNSYDL 110
            +++G+ NFSIF V+ + R L    PG  + +
Sbjct: 16  EVIIGQGNFSIFTVDDLARALLTAVPGIKFGI 47


  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    0.135    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,465,032
Number of Sequences: 62578
Number of extensions: 241613
Number of successful extensions: 382
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 379
Number of HSP's gapped (non-prelim): 3
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
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: 50 (23.9 bits)