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= 027688
         (220 letters)

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

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



>pdb|4FFB|A Chain A, A Tog:alphaBETA-Tubulin Complex Structure Reveals
           Conformation-Based Mechanisms For A Microtubule
           Polymerase
          Length = 447

 Score = 28.1 bits (61), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 66  IEPDLNEDPKDRWATNGVDPEDFLYGEYDGAHTYHEGGVVTG-SFWGAIADDIK--AVEC 122
           +EP++ ++ ++    +   PE  + G+ D A+ Y  G    G    G + D I+  A +C
Sbjct: 71  LEPNVIDEVRNGPYKDLFHPEQLISGKEDAANNYARGHYTVGREILGDVLDRIRKLADQC 130

Query: 123 PTGFQGFI 130
             G QGF+
Sbjct: 131 -DGLQGFL 137


>pdb|2QRU|A Chain A, Crystal Structure Of An Alpha/beta Hydrolase Superfamily
          Protein From Enterococcus Faecalis
          Length = 274

 Score = 27.7 bits (60), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 27 NAKLSNTQDSAS-VHVKLFGKSSSRSGSVTKLNAGGKLALIEPDLNEDPKDRWATNG 82
          NA L N Q  A+   V ++  ++  +  V  L+ GG +   + DL E+ K+ + +NG
Sbjct: 2  NAHLKNNQTLANGATVTIYPTTTEPTNYVVYLHGGGXIYGTKSDLPEELKELFTSNG 58


>pdb|2KN9|A Chain A, Solution Structure Of Zinc-Substituted Rubredoxin B
           (Rv3250c) From Mycobacterium Tuberculosis. Seattle
           Structural Genomics Center For Infectious Disease Target
           Mytud.01635.A
          Length = 81

 Score = 26.9 bits (58), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 12/31 (38%), Positives = 16/31 (51%)

Query: 92  EYDGAHTYHEGGVVTGSFWGAIADDIKAVEC 122
           EYD A  + E G+  G+ W  I DD    +C
Sbjct: 36  EYDEALGWPEDGIAAGTRWDDIPDDWSCPDC 66


  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    0.136    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,860,332
Number of Sequences: 62578
Number of extensions: 305599
Number of successful extensions: 659
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 654
Number of HSP's gapped (non-prelim): 7
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
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: 49 (23.5 bits)