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= 045621
         (205 letters)

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

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



>pdb|2FBT|A Chain A, Wrn Exonuclease
 pdb|2FBV|A Chain A, Wrn Exonuclease, Mn Complex
 pdb|2FBX|A Chain A, Wrn Exonuclease, Mg Complex
 pdb|2FBY|A Chain A, Wrn Exonuclease, Eu Complex
 pdb|2FC0|A Chain A, Wrn Exonuclease, Mn Dgmp Complex
          Length = 205

 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/132 (31%), Positives = 55/132 (41%), Gaps = 32/132 (24%)

Query: 75  NKLQKVAIIQLC-------LFHKDRM---PQSLVDFLDN------------DKFTFVGTM 112
            KL KVA+IQLC       LFH   M   PQ L   L+N            D++  +   
Sbjct: 61  GKLGKVALIQLCVSESKCYLFHVSSMSVFPQGLKMLLENKAVKKAGVGIEGDQWKLLRDF 120

Query: 113 DV--------ADMAAAKYDDEELKTFGLKRLVLKFLHVEMEKSKRITLSKWDVNNLSKQQ 164
           D+         D+A  K    E  T+ L  LV   L  ++ K K I  S W    L++ Q
Sbjct: 121 DIKLKNFVELTDVANKKLKCTE--TWSLNSLVKHLLGKQLLKDKSIRCSNWSKFPLTEDQ 178

Query: 165 IRYAAIDAFVSF 176
             YAA DA+  F
Sbjct: 179 KLYAATDAYAGF 190


>pdb|2E6L|A Chain A, Structure Of Mouse Wrn Exonuclease Domain
 pdb|2E6M|A Chain A, Structure Of Mouse Werner Exonuclease Domain
          Length = 208

 Score = 38.5 bits (88), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 40/130 (30%), Positives = 55/130 (42%), Gaps = 28/130 (21%)

Query: 75  NKLQKVAIIQLC-------LFHKDRM---PQSLVDFLDN------------DKFTFVGTM 112
            K  +VA+IQLC       LFH   M   PQ L   L+N            D++  +   
Sbjct: 56  GKRSRVAVIQLCVSESKCYLFHISSMSVFPQGLKMLLENKSIKKAGVGIEGDQWKLLRDF 115

Query: 113 DVADMAAAKYDD---EELK---TFGLKRLVLKFLHVEMEKSKRITLSKWDVNNLSKQQIR 166
           DV   +  +  D   E+LK   T+ L  LV   L  ++ K K I  S W    L++ Q  
Sbjct: 116 DVKLESFVELTDVANEKLKCAETWSLNGLVKHVLGKQLLKDKSIRCSNWSNFPLTEDQKL 175

Query: 167 YAAIDAFVSF 176
           YAA DA+   
Sbjct: 176 YAATDAYAGL 185


>pdb|3CYM|A Chain A, Crystal Structure Of Protein Bad_0989 From Bifidobacterium
           Adolescentis
          Length = 440

 Score = 27.3 bits (59), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 127 LKTFGLKRLVLKFLHVEMEKSKRITLSKWDVNNLSKQQIRYAAIDAFVSFKLAIELKKEI 186
           LK FGL  +   FL + +  +K  + + W    L +    YAA+D  +  +L  +++ E+
Sbjct: 130 LKRFGLAAVTEHFLGLTL--AKEHSAADWSYRPLPRDWRNYAALDVELLIELETKMRAEL 187


  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
   0.323    0.136    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,541,020
Number of Sequences: 62578
Number of extensions: 200655
Number of successful extensions: 639
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 636
Number of HSP's gapped (non-prelim): 8
length of query: 205
length of database: 14,973,337
effective HSP length: 94
effective length of query: 111
effective length of database: 9,091,005
effective search space: 1009101555
effective search space used: 1009101555
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 49 (23.5 bits)