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= 025832
         (247 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 = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 41/143 (28%), Positives = 59/143 (41%), Gaps = 40/143 (27%)

Query: 42  PVYLNVYDLTPANGYVYWAGL------GIFHTGVEVYGIEYAFGAHDFASSGVFEVEPRQ 95
           PV L VYDL+          +      GI+HT + V+  E+ FG+   +S          
Sbjct: 10  PVKLYVYDLSKGLARRLSPIMLGKQLEGIWHTSIVVHKDEFFFGSGGISS---------- 59

Query: 96  CPGFRFRKSILMGTTCLDP---------IEVRE--FMERQSAN----YNGDTYHLIVKNC 140
           CP          G T L P          EV E  F+E  S+     + G+ Y+L   NC
Sbjct: 60  CP---------PGGTLLGPPDSVVDVGSTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNC 110

Query: 141 NHFCEDICYKLTGKPIPKWVNRL 163
           N F  ++   LTG+ IP ++  L
Sbjct: 111 NTFSNEVAQFLTGRKIPSYITDL 133


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

 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 35/129 (27%), Positives = 56/129 (43%), Gaps = 12/129 (9%)

Query: 42  PVYLNVYDLTPANGYVYWAGL------GIFHTGVEVYGIEYAFGAHDFASSGVFEVEPRQ 95
           PV L VYDL+          +      GI+HT + V+  E+ FG     SSG+    P  
Sbjct: 8   PVKLYVYDLSKGLARRLSPIMLGKQLEGIWHTSIVVHKDEFFFG-----SSGISSCTPGG 62

Query: 96  CPGFRFRKSILMGTTCLDPIEVREFMERQSAN-YNGDTYHLIVKNCNHFCEDICYKLTGK 154
                    + +G T +      E++     + + G+ Y+L   NCN F  ++   LTG+
Sbjct: 63  TLLGPPDSVVDVGNTEVTEEIFLEYLSSLGESLFRGEAYNLFEHNCNTFSNEVAQFLTGR 122

Query: 155 PIPKWVNRL 163
            IP ++  L
Sbjct: 123 KIPSYITDL 131


>pdb|3LY8|A Chain A, Crystal Structure Of Mutant D471e Of The Periplasmic
           Domain Of Cadc
          Length = 372

 Score = 30.4 bits (67), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 36  FGRGNAPVYLNVYDLTPANGYVYWAGLGIFHTGV 69
             R  A  YL  ++L P    +YW   GIF T V
Sbjct: 325 MNREAAEAYLTAFNLRPGANTLYWIENGIFQTSV 358


>pdb|3LY7|A Chain A, Crystal Structure Of The Periplasmic Domain Of Cadc
 pdb|3LYA|A Chain A, Crystal Structure Of The Periplasmic Domain Of Cadc In The
           Presence Of K2recl6
          Length = 372

 Score = 30.4 bits (67), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 36  FGRGNAPVYLNVYDLTPANGYVYWAGLGIFHTGV 69
             R  A  YL  ++L P    +YW   GIF T V
Sbjct: 325 MNREAADAYLTAFNLRPGANTLYWIENGIFQTSV 358


>pdb|3LY9|A Chain A, Crystal Structure Of Mutant D471n Of The Periplasmic
           Domain Of Cadc
          Length = 372

 Score = 30.0 bits (66), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 36  FGRGNAPVYLNVYDLTPANGYVYWAGLGIFHTGV 69
             R  A  YL  ++L P    +YW   GIF T V
Sbjct: 325 MNREAANAYLTAFNLRPGANTLYWIENGIFQTSV 358


  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    0.452 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,827,588
Number of Sequences: 62578
Number of extensions: 329989
Number of successful extensions: 569
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 562
Number of HSP's gapped (non-prelim): 5
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)