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= 0004.0140.p
         (348 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...   490   e-140
gi|300313958|ref|YP_003778050.1| exodeoxyribonuclease III protei...    79   4e-16

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

 Score =  490 bits (1261), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 235/238 (98%), Positives = 236/238 (99%)

Query: 1   MKIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQK 60
           MKIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQK
Sbjct: 1   MKIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQK 60

Query: 61  TYNGVAILSRHPMTDVVKNNPLFPDEQQRIIAATIEGVRTVCAYIPNGQSLESEKYPYKL 120
           TYNGVAILSRHPM DVVKNNPLFPDEQQRIIAATIEGVR VCAYIPNGQSLESEKYPYKL
Sbjct: 61  TYNGVAILSRHPMNDVVKNNPLFPDEQQRIIAATIEGVRYVCAYIPNGQSLESEKYPYKL 120

Query: 121 SWLAALHEWLAQEKAKNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQA 180
           +WLAALHEWLAQEKAKNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQA
Sbjct: 121 NWLAALHEWLAQEKAKNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQA 180

Query: 181 LGLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPR 238
           LGLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPR
Sbjct: 181 LGLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPR 238


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

 Score = 79.3 bits (194), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 69/249 (27%), Positives = 113/249 (45%), Gaps = 18/249 (7%)

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

Query: 59  QKTYNGVAILSRHPMTDVVK---NNPLFPDEQQRIIAATIEGVRTVCAYIPNGQSLESEK 115
           +K Y+GV + SR    D V+    N  F DE  R +      +  +  Y P+G S E E+
Sbjct: 63  KKGYSGVGVYSRR-QPDSVRIGFGNTEFDDE-GRYVECDYGDLTVISLYAPSGSSSE-ER 119

Query: 116 YPYKLSWLAALHEWLAQEKAKNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSE--PERE 173
              K  ++ A    L + +     + + GD+NIA ++ D+ +   W+     S   PE  
Sbjct: 120 QEAKFRFMEAFLPHLMELEKSGREVVICGDWNIAHKEIDLKN---WKSNQKNSGFLPEER 176

Query: 174 AF--RKLQALGLTDSYRLF--EQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCT 229
           A+  R    LGL D YR    E   + Y+WW  R   +  N G RID+ + +  +  +  
Sbjct: 177 AWMTRIFDQLGLVDVYRRLHPETTGEAYTWWSNRGQAWANNVGWRIDYHVSTPGIAAKAV 236

Query: 230 ACVIDKVPR 238
           +  I K  R
Sbjct: 237 SAAIYKEQR 245


  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
   0.321    0.137    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: 1,155,081
Number of extensions: 47652
Number of successful extensions: 118
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 2
Length of query: 348
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 262
Effective length of database: 1,212,660
Effective search space: 317716920
Effective search space used: 317716920
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: 131 (55.1 bits)