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= 043847
         (325 letters)

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

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



>pdb|4AX2|A Chain A, New Type Vi-Secreted Toxins And Self-Resistance Proteins
           In Serratia Marcescens
          Length = 142

 Score = 30.8 bits (68), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 81  QLHFSPLSFPSTFMKTLPYHAKIPTMSPNHTLIVTSLPSDDQVSLNGVK 129
           Q H +P+  P  F+K +PYH  +  ++ +  L   S  SD   SL+  +
Sbjct: 15  QGHMAPIQDPVAFIKQMPYHQVVKELALSRCLAQVS-DSDKAFSLDAAR 62


>pdb|1DGS|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase From T.
           Filiformis
 pdb|1DGS|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase From T.
           Filiformis
          Length = 667

 Score = 28.1 bits (61), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 11/51 (21%), Positives = 25/51 (49%), Gaps = 5/51 (9%)

Query: 263 GTVLPTFLEGFKINVTKSLKDLYLNNVRVNDPSLYLNDWMFIHGVEKIVPE 313
           G + P F+EG +++      + Y+  + +      + DW+ +H    ++PE
Sbjct: 339 GVLEPVFIEGSEVSRVTLHNESYIEELDIR-----IGDWVLVHKAGGVIPE 384


>pdb|1V9P|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase
 pdb|1V9P|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase
          Length = 584

 Score = 28.1 bits (61), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 11/51 (21%), Positives = 25/51 (49%), Gaps = 5/51 (9%)

Query: 263 GTVLPTFLEGFKINVTKSLKDLYLNNVRVNDPSLYLNDWMFIHGVEKIVPE 313
           G + P F+EG +++      + Y+  +      + + DW+ +H    ++PE
Sbjct: 342 GVLEPVFIEGSEVSRVTLHNESYIEEL-----DIRIGDWVLVHKAGGVIPE 387


  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
   0.318    0.135    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,253,314
Number of Sequences: 62578
Number of extensions: 389310
Number of successful extensions: 1134
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1131
Number of HSP's gapped (non-prelim): 8
length of query: 325
length of database: 14,973,337
effective HSP length: 99
effective length of query: 226
effective length of database: 8,778,115
effective search space: 1983853990
effective search space used: 1983853990
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)