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= 025852
         (247 letters)

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

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



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

 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 12/133 (9%)

Query: 38  PGRAPVYLNVYDLTP-----MNGYVHWAGL-GIYHSGVEVHGVEYAFGAHDYPTSGVFEV 91
           P   PV L VYDL+      ++  +    L GI+H+ + VH  E+ FG+     SG+   
Sbjct: 4   PNLYPVKLYVYDLSKGLARRLSPIMLGKQLEGIWHTSIVVHKDEFFFGS-----SGISSC 58

Query: 92  EPRLCPGFKFRKSIFIGTTCLDPIQVREFMER-QSAHYNGDTYHLIVKNCNHFCKDICYK 150
            P           + +G T +      E++     + + G+ Y+L   NCN F  ++   
Sbjct: 59  TPGGTLLGPPDSVVDVGNTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNCNTFSNEVAQF 118

Query: 151 LTGKPIPKWVNRL 163
           LTG+ IP ++  L
Sbjct: 119 LTGRKIPSYITDL 131


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

 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/136 (26%), Positives = 60/136 (44%), Gaps = 18/136 (13%)

Query: 38  PGRAPVYLNVYDLTP-----MNGYVHWAGL-GIYHSGVEVHGVEYAFGAHDY---PTSGV 88
           P   PV L VYDL+      ++  +    L GI+H+ + VH  E+ FG+      P  G 
Sbjct: 6   PNLYPVKLYVYDLSKGLARRLSPIMLGKQLEGIWHTSIVVHKDEFFFGSGGISSCPPGGT 65

Query: 89  FEVEPRLCPGFKFRKSIFIGTTCLDPIQVREFMER-QSAHYNGDTYHLIVKNCNHFCKDI 147
               P           + +G+T +      E++     + + G+ Y+L   NCN F  ++
Sbjct: 66  LLGPPD--------SVVDVGSTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNCNTFSNEV 117

Query: 148 CYKLTGKPIPKWVNRL 163
              LTG+ IP ++  L
Sbjct: 118 AQFLTGRKIPSYITDL 133


  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
   0.322    0.138    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,572,173
Number of Sequences: 62578
Number of extensions: 307101
Number of successful extensions: 524
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 520
Number of HSP's gapped (non-prelim): 2
length of query: 247
length of database: 14,973,337
effective HSP length: 96
effective length of query: 151
effective length of database: 8,965,849
effective search space: 1353843199
effective search space used: 1353843199
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)