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= psy6706
         (119 letters)

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

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



>pdb|3HL3|A Chain A, 2.76 Angstrom Crystal Structure Of A Putative
           Glucose-1-Phosphate Thymidylyltransferase From Bacillus
           Anthracis In Complex With A Sucrose.
 pdb|4ECM|A Chain A, 2.3 Angstrom Crystal Structure Of A Glucose-1-Phosphate
           Thymidylyltransferase From Bacillus Anthracis In Complex
           With Thymidine-5-Diphospho-Alpha-D-Glucose And
           Pyrophosphate
          Length = 269

 Score = 30.0 bits (66), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 15/105 (14%)

Query: 1   MGRIFLDHIGGSRLFSCAACDTILTNRRELISTRFTGATGRAFLFHRVVNLNYSDVQDRV 60
           M  I L    GSRL+      T +TN+  L   R+        ++H V  L   D+ D +
Sbjct: 25  MKGIILAGGTGSRLYPI----TKVTNKHLLPVGRY------PMIYHAVYKLKQCDITDIM 74

Query: 61  MLTGRHMVRDVSCKNCNTKLGWVYEFALEETQRYKEGRVILERAL 105
           ++TG+  + DV      + LG   EF +  T R ++    + +AL
Sbjct: 75  IITGKEHMGDVV-----SFLGSGQEFGVSFTYRVQDKAGGIAQAL 114


>pdb|2RQY|A Chain A, Solution Structure And Dynamics Of Mouse Armet
          Length = 171

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 62 LTGRHMVRDVSCKNCNTKLGWVYE 85
          + GRHM+R   C+ C + LG  Y+
Sbjct: 8  IEGRHMLRPGDCEVCISYLGRFYQ 31


  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
   0.326    0.139    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,192,729
Number of Sequences: 62578
Number of extensions: 108730
Number of successful extensions: 283
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 282
Number of HSP's gapped (non-prelim): 2
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)