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= 038748
         (482 letters)

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

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



>pdb|1QFX|A Chain A, Ph 2.5 Acid Phosphatase From Aspergillus Niger
 pdb|1QFX|B Chain B, Ph 2.5 Acid Phosphatase From Aspergillus Niger
          Length = 460

 Score = 33.1 bits (74), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 27/63 (42%)

Query: 406 WKYMIENHCSDLSETGNLLVAGLCDMHMLPEAVKYAKGMAEKGIQVTPFALSKLKQILIK 465
           W Y + N C   +ET +   AGL D +      K   G    G  V PF  S   +++  
Sbjct: 101 WTYYVPNECYYNAETTSGPYAGLLDAYNHGNDYKARYGHLWNGETVVPFFSSGYGRVIET 160

Query: 466 ARK 468
           ARK
Sbjct: 161 ARK 163


>pdb|3A3U|A Chain A, Crystal Structure Of Mqnd (Ttha1568), A Menaquinone
           Biosynthetic Enzyme From Thermus Thermophilus Hb8
          Length = 272

 Score = 29.6 bits (65), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 24/41 (58%)

Query: 58  LDKTLIRVSQETVEQVLKFSYSHPGPAVKFFRWSAYQLNDK 98
           L + LIR   E V + + ++ +HP  A+ + R  A +L+D+
Sbjct: 185 LGEGLIRALDEAVRRSVAYALAHPEEALDYMRAHAQELSDE 225


>pdb|2CZL|A Chain A, Crystal Structure Of Mqnd (Ttha1568), A Menaquinone
           Biosynthetic Enzyme From Thermus Thermophilus Hb8 (Cys11
           Modified With Beta- Mercaptoethanol)
          Length = 272

 Score = 29.6 bits (65), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 24/41 (58%)

Query: 58  LDKTLIRVSQETVEQVLKFSYSHPGPAVKFFRWSAYQLNDK 98
           L + LIR   E V + + ++ +HP  A+ + R  A +L+D+
Sbjct: 185 LGEGLIRALDEAVRRSVAYALAHPEEALDYMRAHAQELSDE 225


  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
   0.321    0.136    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,921,877
Number of Sequences: 62578
Number of extensions: 614561
Number of successful extensions: 1389
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1386
Number of HSP's gapped (non-prelim): 7
length of query: 482
length of database: 14,973,337
effective HSP length: 103
effective length of query: 379
effective length of database: 8,527,803
effective search space: 3232037337
effective search space used: 3232037337
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)