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= 0004.0039.p
         (167 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312331|ref|YP_003776423.1| 2-C-methyl-D-erythritol 2,4-cyc...   286   5e-79

>gi|300312331|ref|YP_003776423.1| 2-C-methyl-D-erythritol
           2,4-cyclodiphosphate synthase [Herbaspirillum
           seropedicae SmR1]
          Length = 167

 Score =  286 bits (732), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 143/163 (87%), Positives = 149/163 (91%)

Query: 4   SSPFPFRIGQGYDCHALVEGRPLILGGVTIPHKKGLLGHSDADALLHAITDALFGAAALG 63
           S P  FRIGQGYDCH LVEGRPLILGGVTIPH KGLLGHSDADALLHAITDALFGAAALG
Sbjct: 2   SHPIAFRIGQGYDCHVLVEGRPLILGGVTIPHHKGLLGHSDADALLHAITDALFGAAALG 61

Query: 64  DIGRHFPDTDPQFKGADSRVLLREAAKRLAAAGYAVGNVDATIIAQAPKMAPHIPSMVAN 123
           DIGRHFPDTDPQFKGADSRVLLREA KRLAAAGY VGNVDATIIAQAPKMAPHI +MV +
Sbjct: 62  DIGRHFPDTDPQFKGADSRVLLREAGKRLAAAGYRVGNVDATIIAQAPKMAPHIGAMVIH 121

Query: 124 VAADLGISEGQVNIKAKTNEKMGFLGREEGIATEAVVLIHRQN 166
           +A DLGIS  QVN+KAKTNEKMGFLGREEGIATEAV LI+R +
Sbjct: 122 IAEDLGISPQQVNVKAKTNEKMGFLGREEGIATEAVALIYRPD 164


  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
   0.319    0.137    0.398 

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: 502,186
Number of extensions: 19308
Number of successful extensions: 68
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 68
Number of HSP's successfully gapped: 1
Length of query: 167
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 88
Effective length of database: 1,245,805
Effective search space: 109630840
Effective search space used: 109630840
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 (21.7 bits)
S2: 127 (53.5 bits)