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= 020811
         (321 letters)

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

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



>pdb|1W77|A Chain A, 2c-methyl-d-erythritol 4-phosphate Cytidylyltransferase
           (ispd) From Arabidopsis Thaliana
          Length = 228

 Score = 31.2 bits (69), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)

Query: 63  WVPMYSE--AKLAFFVYLWYPKTKGTTYVYDSFFRPYVARHENEIDQNL 109
           ++P+  +  A  +FF +   P+ K    V D FFR     +E  ID +L
Sbjct: 26  YIPLLGQPIALYSFFTFSRMPEVKEIVVVCDPFFRDIFEEYEESIDVDL 74


>pdb|2YCM|A Chain A, Inhibitors Of Herbicidal Target Ispd
          Length = 227

 Score = 31.2 bits (69), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)

Query: 63  WVPMYSE--AKLAFFVYLWYPKTKGTTYVYDSFFRPYVARHENEIDQNL 109
           ++P+  +  A  +FF +   P+ K    V D FFR     +E  ID +L
Sbjct: 25  YIPLLGQPIALYSFFTFSRMPEVKEIVVVCDPFFRDIFEEYEESIDVDL 73


>pdb|2YC3|A Chain A, Inhibitors Of The Herbicidal Target Ispd
 pdb|2YC5|A Chain A, Inhibitors Of The Herbicidal Target Ispd
          Length = 228

 Score = 31.2 bits (69), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)

Query: 63  WVPMYSE--AKLAFFVYLWYPKTKGTTYVYDSFFRPYVARHENEIDQNL 109
           ++P+  +  A  +FF +   P+ K    V D FFR     +E  ID +L
Sbjct: 26  YIPLLGQPIALYSFFTFSRMPEVKEIVVVCDPFFRDIFEEYEESIDVDL 74


>pdb|3ZSE|A Chain A, 3d Structure Of A Thermophilic Family Gh11 Xylanase From
           Thermobifida Fusca
          Length = 201

 Score = 30.4 bits (67), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 14/24 (58%)

Query: 21  YECYKTVEKNKPEIEQLRFWCQYW 44
           Y+ YKT   N P IE  R + QYW
Sbjct: 112 YDIYKTTRYNAPSIEGTRTFDQYW 135


  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
   0.314    0.128    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,648,349
Number of Sequences: 62578
Number of extensions: 261623
Number of successful extensions: 656
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 652
Number of HSP's gapped (non-prelim): 4
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)