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= 007992
         (582 letters)

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

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



>pdb|4DOG|A Chain A, Structures Of Vaccinia Virus Uracil-dna Glycosylase In New
           Crystal Forms
          Length = 221

 Score = 31.6 bits (70), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 18/73 (24%)

Query: 205 NFPKEKIKEMATMIARLSGGIVINIHNVKTIIMFRGRNYRQPKNLIPFNTL-------TK 257
           NF K+ IKE+A+ I+RL+G           +I ++G N      +IP+N         TK
Sbjct: 86  NFTKKSIKEIASSISRLTG-----------VIDYKGYNLNIIDGVIPWNYYLSCKLGETK 134

Query: 258 RKALFKARFEQAL 270
             A++  +  + L
Sbjct: 135 SHAIYWDKISKLL 147


>pdb|3NT7|C Chain C, Crystal Structure Of Vaccinia Virus Uracil Dna Glycosylase
           R187v Mutant
 pdb|3NT7|A Chain A, Crystal Structure Of Vaccinia Virus Uracil Dna Glycosylase
           R187v Mutant
          Length = 238

 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 18/73 (24%)

Query: 205 NFPKEKIKEMATMIARLSGGIVINIHNVKTIIMFRGRNYRQPKNLIPFNTL-------TK 257
           NF K+ IKE+A+ I+RL+G           +I ++G N      +IP+N         TK
Sbjct: 103 NFTKKSIKEIASSISRLTG-----------VIDYKGYNLNIIDGVIPWNYYLSCKLGETK 151

Query: 258 RKALFKARFEQAL 270
             A++  +  + L
Sbjct: 152 SHAIYWDKISKLL 164


>pdb|2OWR|A Chain A, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|B Chain B, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|C Chain C, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|D Chain D, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|E Chain E, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|F Chain F, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|G Chain G, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWR|H Chain H, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
          Length = 218

 Score = 31.2 bits (69), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 18/73 (24%)

Query: 205 NFPKEKIKEMATMIARLSGGIVINIHNVKTIIMFRGRNYRQPKNLIPFNTL-------TK 257
           NF K+ IKE+A+ I+RL+G           +I ++G N      +IP+N         TK
Sbjct: 83  NFTKKSIKEIASSISRLTG-----------VIDYKGYNLNIIDGVIPWNYYLSCKLGETK 131

Query: 258 RKALFKARFEQAL 270
             A++  +  + L
Sbjct: 132 SHAIYWDKISKLL 144


>pdb|2OWQ|A Chain A, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|2OWQ|B Chain B, Crystal Structure Of Vaccinia Virus Uracil-Dna Glycosylase
 pdb|4DOF|A Chain A, Structures Of Vaccinia Virus Uracil-dna Glycosylase In New
           Crystal Forms
 pdb|4DOF|B Chain B, Structures Of Vaccinia Virus Uracil-dna Glycosylase In New
           Crystal Forms
 pdb|4DOF|C Chain C, Structures Of Vaccinia Virus Uracil-dna Glycosylase In New
           Crystal Forms
 pdb|4DOF|D Chain D, Structures Of Vaccinia Virus Uracil-dna Glycosylase In New
           Crystal Forms
          Length = 238

 Score = 31.2 bits (69), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 18/73 (24%)

Query: 205 NFPKEKIKEMATMIARLSGGIVINIHNVKTIIMFRGRNYRQPKNLIPFNTL-------TK 257
           NF K+ IKE+A+ I+RL+G           +I ++G N      +IP+N         TK
Sbjct: 103 NFTKKSIKEIASSISRLTG-----------VIDYKGYNLNIIDGVIPWNYYLSCKLGETK 151

Query: 258 RKALFKARFEQAL 270
             A++  +  + L
Sbjct: 152 SHAIYWDKISKLL 164


  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
   0.315    0.129    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,803,292
Number of Sequences: 62578
Number of extensions: 526531
Number of successful extensions: 1363
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1361
Number of HSP's gapped (non-prelim): 8
length of query: 582
length of database: 14,973,337
effective HSP length: 104
effective length of query: 478
effective length of database: 8,465,225
effective search space: 4046377550
effective search space used: 4046377550
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)