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= 0001.3078.p
         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312415|ref|YP_003776507.1| exodeoxyribonuclease III protei...   525   e-150
gi|300313958|ref|YP_003778050.1| exodeoxyribonuclease III protei...    86   3e-18

>gi|300312415|ref|YP_003776507.1| exodeoxyribonuclease III protein
           [Herbaspirillum seropedicae SmR1]
          Length = 255

 Score =  525 bits (1352), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 253/255 (99%), Positives = 254/255 (99%)

Query: 1   MKIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQK 60
           MKIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQK
Sbjct: 1   MKIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQK 60

Query: 61  TYNGVAILSRHPMNDVVKNNPLFPDEQQRIIAATIEGVRYVCAYIPNGQSLDSEKYPYKL 120
           TYNGVAILSRHPMNDVVKNNPLFPDEQQRIIAATIEGVRYVCAYIPNGQSL+SEKYPYKL
Sbjct: 61  TYNGVAILSRHPMNDVVKNNPLFPDEQQRIIAATIEGVRYVCAYIPNGQSLESEKYPYKL 120

Query: 121 NWLAALHEWLAQEKASNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQA 180
           NWLAALHEWLAQEKA NPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQA
Sbjct: 121 NWLAALHEWLAQEKAKNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQA 180

Query: 181 LGLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPRKW 240
           LGLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPRKW
Sbjct: 181 LGLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPRKW 240

Query: 241 EQPSDHAPVIATLAD 255
           EQPSDHAPVIATLAD
Sbjct: 241 EQPSDHAPVIATLAD 255


>gi|300313958|ref|YP_003778050.1| exodeoxyribonuclease III protein
           [Herbaspirillum seropedicae SmR1]
          Length = 258

 Score = 85.9 bits (211), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 74/265 (27%), Positives = 121/265 (45%), Gaps = 20/265 (7%)

Query: 2   KIATWNVNSLKVRLPQ-VLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEF--SG 58
           KI + N+N ++    +   +WL++   D +C+QE K          +A AGY+  F  + 
Sbjct: 3   KIVSANLNGIRSAAKKGFFEWLQKEAPDFVCVQELKAQAADMTEQFLAPAGYVGHFHYAQ 62

Query: 59  QKTYNGVAILSRHPMNDV--VKNNPLFPDEQQRIIAATIEGVRYVCAYIPNGQSLDSEKY 116
           +K Y+GV + SR   + V     N  F DE  R +      +  +  Y P+G S + E+ 
Sbjct: 63  KKGYSGVGVYSRRQPDSVRIGFGNTEFDDE-GRYVECDYGDLTVISLYAPSGSSSE-ERQ 120

Query: 117 PYKLNWLAALHEWLAQEKASNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSE--PEREA 174
             K  ++ A    L + + S   + + GD+NIA ++ D+ +   W+     S   PE  A
Sbjct: 121 EAKFRFMEAFLPHLMELEKSGREVVICGDWNIAHKEIDLKN---WKSNQKNSGFLPEERA 177

Query: 175 F--RKLQALGLTDSYRLF--EQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTA 230
           +  R    LGL D YR    E   + Y+WW  R   +  N G RID+ + +  +  +  +
Sbjct: 178 WMTRIFDQLGLVDVYRRLHPETTGEAYTWWSNRGQAWANNVGWRIDYHVSTPGIAAKAVS 237

Query: 231 CVIDKVPRKWEQPSDHAPVIATLAD 255
             I K  R     SDHAP+    +D
Sbjct: 238 AAIYKEQR----FSDHAPLTVVYSD 258


  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    0.135    0.423 

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: 863,119
Number of extensions: 35189
Number of successful extensions: 75
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 73
Number of HSP's successfully gapped: 2
Length of query: 255
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,226,865
Effective search space: 211020780
Effective search space used: 211020780
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 (21.8 bits)
S2: 129 (54.3 bits)