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= 034873
         (80 letters)

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

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



>pdb|1J6O|A Chain A, Crystal Structure Of Tatd-related Deoxyribonuclease
           (tm0667) From Thermotoga Maritima At 1.8 A Resolution
          Length = 268

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 5/61 (8%)

Query: 6   YVEAVKLTGDLNVPAGEVTFRAKIGKGSRLPNRGKFPDELGVVASYSGQ----GRIADFG 61
           +VE ++L G LN+P   V  R    +   +      P++ GV+ ++S       +  D G
Sbjct: 122 FVEQIELAGKLNLPLV-VHIRDAYSEAYEILRTESLPEKRGVIHAFSSDYEWAKKFIDLG 180

Query: 62  F 62
           F
Sbjct: 181 F 181


>pdb|2G8S|A Chain A, Crystal Structure Of The Soluble Aldose Sugar
           Dehydrogenase (Asd) From Escherichia Coli In The
           Apo-Form
 pdb|2G8S|B Chain B, Crystal Structure Of The Soluble Aldose Sugar
           Dehydrogenase (Asd) From Escherichia Coli In The
           Apo-Form
          Length = 353

 Score = 26.2 bits (56), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 30  GKGSRLPNRGKFPDELGVVASYSGQGRIADFGFRNPK 66
           GK  RL ++G+ PD+   +     +  I  +G RNP+
Sbjct: 164 GKLVRLTDQGEIPDDNPFIKESGVRAEIWSYGIRNPQ 200


>pdb|1LFW|A Chain A, Crystal Structure Of Pepv
          Length = 470

 Score = 25.4 bits (54), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 4/56 (7%)

Query: 18  VPAGE----VTFRAKIGKGSRLPNRGKFPDELGVVASYSGQGRIADFGFRNPKWVD 69
           VPAGE      F+ +I +  R+  RG   D+   + +Y G   + + GF+  K +D
Sbjct: 91  VPAGEGWTRDPFKMEIDEEGRIYGRGSADDKGPSLTAYYGMLLLKEAGFKPKKKID 146


  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
   0.319    0.142    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,805,856
Number of Sequences: 62578
Number of extensions: 115171
Number of successful extensions: 242
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 241
Number of HSP's gapped (non-prelim): 3
length of query: 80
length of database: 14,973,337
effective HSP length: 49
effective length of query: 31
effective length of database: 11,907,015
effective search space: 369117465
effective search space used: 369117465
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)