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= 014861
         (417 letters)

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

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



>pdb|2NQ9|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
           Endonuclease Iv (Endo Iv) Y72a Mutant Bound To Damaged
           Dna
          Length = 285

 Score = 29.3 bits (64), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 15/28 (53%)

Query: 90  GKRFDRYHELGQGAFGDKLGLWIVVPQQ 117
           G R DR+H LG+G  G     WI+   +
Sbjct: 225 GSRVDRHHSLGEGNIGHDAFRWIMQDDR 252


>pdb|1QUM|A Chain A, Crystal Structure Of Escherichia Coli Endonuclease Iv In
           Complex With Damaged Dna
 pdb|1QTW|A Chain A, High-resolution Crystal Structure Of The Escherichia Coli
           Dna Repair Enzyme Endonuclease Iv
          Length = 285

 Score = 29.3 bits (64), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 15/28 (53%)

Query: 90  GKRFDRYHELGQGAFGDKLGLWIVVPQQ 117
           G R DR+H LG+G  G     WI+   +
Sbjct: 225 GSRVDRHHSLGEGNIGHDAFRWIMQDDR 252


>pdb|2NQH|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
           Endonuclease Iv (Endo Iv) E261q Mutant
 pdb|2NQJ|A Chain A, Crystal Structure Of Escherichia Coli Endonuclease Iv
           (Endo Iv) E261q Mutant Bound To Damaged Dna
 pdb|2NQJ|B Chain B, Crystal Structure Of Escherichia Coli Endonuclease Iv
           (Endo Iv) E261q Mutant Bound To Damaged Dna
          Length = 285

 Score = 29.3 bits (64), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 15/28 (53%)

Query: 90  GKRFDRYHELGQGAFGDKLGLWIVVPQQ 117
           G R DR+H LG+G  G     WI+   +
Sbjct: 225 GSRVDRHHSLGEGNIGHDAFRWIMQDDR 252


>pdb|2ZOX|A Chain A, Crystal Structure Of The Covalent Intermediate Of Human
           Cytosolic Beta-Glucosidase
 pdb|3VKK|A Chain A, Crystal Structure Of The Covalent Intermediate Of Human
           Cytosolic Beta-Glucosidase-Mannose Complex
          Length = 469

 Score = 28.9 bits (63), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 10/61 (16%)

Query: 91  KRFDRYHELGQGAFGDKLGLWIVVPQQVIVEVST--------NIIYMVTGGKSFKKAHEV 142
           + FD+Y +     FGD++  WI + Q  ++ V +         I +  TGG  ++ AH +
Sbjct: 140 ESFDKYAQFCFSTFGDRVKQWITINQANVLSVMSYDLGMFPPGIPHFGTGG--YQAAHNL 197

Query: 143 I 143
           I
Sbjct: 198 I 198


  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
   0.325    0.137    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,431,049
Number of Sequences: 62578
Number of extensions: 435903
Number of successful extensions: 1018
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1013
Number of HSP's gapped (non-prelim): 7
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)