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= 0013.0005.p
         (257 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...   437   e-124
gi|300313958|ref|YP_003778050.1| exodeoxyribonuclease III protei...    82   3e-17

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

 Score =  437 bits (1125), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 209/252 (82%), Positives = 226/252 (89%)

Query: 3   KIATWNVNSLKVRLPQVLQWLGDNPVDVLCLQETKLTDDKFPQAEINAAGYEVVFSGQKT 62
           KIATWNVNSLKVRLPQVL+WL +NPVDVLCLQETKLTDDKFP AEI AAGY V FSGQKT
Sbjct: 2   KIATWNVNSLKVRLPQVLKWLEENPVDVLCLQETKLTDDKFPAAEIAAAGYLVEFSGQKT 61

Query: 63  YNGVAILSRHPIADVVKNNPLFEDEQQRIIAATIEGVRYVCAYIPNGQAPDSEKYQYKLK 122
           YNGVAILSRHP+ DVVKNNPLF DEQQRIIAATIEGVRYVCAYIPNGQ+ +SEKY YKL 
Sbjct: 62  YNGVAILSRHPMNDVVKNNPLFPDEQQRIIAATIEGVRYVCAYIPNGQSLESEKYPYKLN 121

Query: 123 WLAALHTWLAQEQQQHEKLALLGDYNIAPEDRDVHDPAAWVGQNLVSEPERAAFFHLEKM 182
           WLAALH WLAQE+ ++ +LALLGDYNIAPEDRDVHDP AW GQ LVSEPER AF  L+ +
Sbjct: 122 WLAALHEWLAQEKAKNPRLALLGDYNIAPEDRDVHDPVAWQGQVLVSEPEREAFRKLQAL 181

Query: 183 GFTDAFRKFEQPEKLFSWWDYRQMGFRLNRGLRIDHILLTAPLAAQCTACVIDKVPRKWE 242
           G TD++R FEQPEK++SWWDYRQMGFRLNRGLRIDHILL+  L  +CTACVIDKVPRKWE
Sbjct: 182 GLTDSYRLFEQPEKMYSWWDYRQMGFRLNRGLRIDHILLSEELVPRCTACVIDKVPRKWE 241

Query: 243 QPSDHAPVIATL 254
           QPSDHAPVIATL
Sbjct: 242 QPSDHAPVIATL 253


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

 Score = 82.4 bits (202), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 69/262 (26%), Positives = 125/262 (47%), Gaps = 22/262 (8%)

Query: 1   MKKIATWNVNSLKVRLPQ-VLQWLGDNPVDVLCLQETKLTDDKFPQAEINAAGY--EVVF 57
           M KI + N+N ++    +   +WL     D +C+QE K       +  +  AGY     +
Sbjct: 1   MPKIVSANLNGIRSAAKKGFFEWLQKEAPDFVCVQELKAQAADMTEQFLAPAGYVGHFHY 60

Query: 58  SGQKTYNGVAILSRHPIADVVK---NNPLFEDEQQRIIAATIEGVRYVCAYIPNGQAPDS 114
           + +K Y+GV + SR    D V+    N  F+DE  R +      +  +  Y P+G + + 
Sbjct: 61  AQKKGYSGVGVYSRRQ-PDSVRIGFGNTEFDDEG-RYVECDYGDLTVISLYAPSGSSSE- 117

Query: 115 EKYQYKLKWLAALHTWLAQEQQQHEKLALLGDYNIAPEDRDVHDPAAWVG--QNLVSEPE 172
           E+ + K +++ A    L + ++   ++ + GD+NIA ++ D+ +   W    +N    PE
Sbjct: 118 ERQEAKFRFMEAFLPHLMELEKSGREVVICGDWNIAHKEIDLKN---WKSNQKNSGFLPE 174

Query: 173 RAAFFH--LEKMGFTDAFRKF--EQPEKLFSWWDYRQMGFRLNRGLRIDHILLTAPLAAQ 228
             A+     +++G  D +R+   E   + ++WW  R   +  N G RID+ + T  +AA+
Sbjct: 175 ERAWMTRIFDQLGLVDVYRRLHPETTGEAYTWWSNRGQAWANNVGWRIDYHVSTPGIAAK 234

Query: 229 CTACVIDKVPRKWEQPSDHAPV 250
             +  I K  R     SDHAP+
Sbjct: 235 AVSAAIYKEQRF----SDHAPL 252


  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    0.135    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: 877,768
Number of extensions: 35850
Number of successful extensions: 81
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 2
Length of query: 257
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 174
Effective length of database: 1,226,865
Effective search space: 213474510
Effective search space used: 213474510
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)