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= psy18235
         (232 letters)

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

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



>pdb|3QE9|Y Chain Y, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
           Complex With Dna (Complex I)
 pdb|3QE9|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
           Complex With Dna (Complex I)
          Length = 352

 Score = 28.5 bits (62), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 66  DTSLAEHILFIRAISGCDSTSALFNQGKVKALRT--VVKNPDLLPYIRRF 113
           D    E   ++  +SGCD  S+L   G  KA +   +  NPD++  I++ 
Sbjct: 208 DVFTEEKFRYMCILSGCDYLSSLRGIGLAKACKVLRLANNPDIVKVIKKI 257


>pdb|3QEA|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
           Complex With Dna (Complex Ii)
 pdb|3QEB|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
           Complex With Dna And Mn2+ (Complex Iii)
          Length = 352

 Score = 28.5 bits (62), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 66  DTSLAEHILFIRAISGCDSTSALFNQGKVKALRT--VVKNPDLLPYIRRF 113
           D    E   ++  +SGCD  S+L   G  KA +   +  NPD++  I++ 
Sbjct: 208 DVFTEEKFRYMCILSGCDYLSSLRGIGLAKACKVLRLANNPDIVKVIKKI 257


>pdb|3GBT|A Chain A, Crystal Structure Of Gluconate Kinase From Lactobacillus
           Acidophilus
 pdb|3LL3|A Chain A, The Crystal Structure Of Ligand Bound Xylulose Kinase From
           Lactobacillus Acidophilus
 pdb|3LL3|B Chain B, The Crystal Structure Of Ligand Bound Xylulose Kinase From
           Lactobacillus Acidophilus
          Length = 504

 Score = 28.1 bits (61), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 14/43 (32%), Positives = 19/43 (44%)

Query: 78  AISGCDSTSALFNQGKVKALRTVVKNPDLLPYIRRFLDPASTT 120
            ++  DS     N G   A+RT+V  P + P    F  PA  T
Sbjct: 246 GVNAIDSDHCALNVGTSGAIRTIVDQPKIDPSASYFCYPADKT 288


>pdb|3DZB|A Chain A, Crystal Structure Of Prephenate Dehydrogenase From
           Streptococcus Thermophilus
 pdb|3DZB|B Chain B, Crystal Structure Of Prephenate Dehydrogenase From
           Streptococcus Thermophilus
          Length = 317

 Score = 27.3 bits (59), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 3/28 (10%)

Query: 115 DPASTTREITEAGERFLV---VLYGGNH 139
           D  ST REI EA ER+L    V + G+H
Sbjct: 98  DAGSTKREIVEAAERYLTGKNVQFVGSH 125


  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    0.133    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,174,441
Number of Sequences: 62578
Number of extensions: 223868
Number of successful extensions: 451
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 5
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
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: 50 (23.9 bits)