BLASTP 2.2.18 [Mar-02-2008]


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= 0002.0097.p
         (84 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase ...   100   3e-23

>gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase
           [Herbaspirillum seropedicae SmR1]
          Length = 288

 Score = 99.8 bits (247), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 61/88 (69%), Positives = 65/88 (73%), Gaps = 9/88 (10%)

Query: 1   VVNRWFG-------PEGAF--ASWSWPRLPDEFHGSGCTLAAALSAQLAQGLGMRDAIEA 51
           V+NRW+G        E A   A W W RLPDEFHGSGCTLAAALSA LA+GL MR AIE 
Sbjct: 189 VINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARGLPMRQAIEL 248

Query: 52  AQQYCQHALATSYAIAAGQRIPNRVPQF 79
           AQ Y QHALATSYAIA GQRIP+RVP F
Sbjct: 249 AQHYTQHALATSYAIADGQRIPHRVPAF 276


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.320    0.132    0.427 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 240,739
Number of extensions: 5911
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 43
Number of HSP's successfully gapped: 2
Length of query: 84
Length of database: 1,619,870
Length adjustment: 54
Effective length of query: 30
Effective length of database: 1,364,180
Effective search space: 40925400
Effective search space used: 40925400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 123 (52.0 bits)