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= 0004.0025.p
         (181 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313671|ref|YP_003777763.1| OmpA family protein [Herbaspiri...   248   1e-67
gi|300312990|ref|YP_003777082.1| signal peptide protein [Herbasp...    83   1e-17
gi|300310091|ref|YP_003774183.1| outer membrane protein and rela...    75   3e-15
gi|300313316|ref|YP_003777408.1| lipoprotein [Herbaspirillum ser...    75   3e-15

>gi|300313671|ref|YP_003777763.1| OmpA family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 241

 Score =  248 bits (634), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 115/145 (79%), Positives = 134/145 (92%)

Query: 33  NVWSNRMENQKRAMEQATQGTGVQVTQTQDNRLKLEIPSDISFNTGRADIQPNFRAVLDK 92
           N+WSNRMENQKRAME+ATQGTGVQV+QT DNRLKLEIPSDISF+TGRADI+P  R VLD+
Sbjct: 70  NIWSNRMENQKRAMEEATQGTGVQVSQTADNRLKLEIPSDISFDTGRADIKPEMRPVLDR 129

Query: 93  FAATLNENPATTVNIIGHTDSTGSDAVNNPLSMERAARTRDYLTARGVSPGRFHIDGRGS 152
           FAATL ENPATTV I+GHTD+TGSDA+N+PLS++RA+RTRDYL++RGV+  RF I GRGS
Sbjct: 130 FAATLVENPATTVTIVGHTDNTGSDAINDPLSLQRASRTRDYLSSRGVAANRFSIQGRGS 189

Query: 153 HEPLVANDTEANRAKNRRVEIFVAE 177
           HEPLVAN ++ANRA+NRRVEIFVAE
Sbjct: 190 HEPLVANTSDANRARNRRVEIFVAE 214


>gi|300312990|ref|YP_003777082.1| signal peptide protein
           [Herbaspirillum seropedicae SmR1]
          Length = 203

 Score = 82.8 bits (203), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 43/110 (39%), Positives = 62/110 (56%)

Query: 66  KLEIPSDISFNTGRADIQPNFRAVLDKFAATLNENPATTVNIIGHTDSTGSDAVNNPLSM 125
           K+   +D  F+  +A ++P  +A LD+    L       +  +GHTDS GS A N  LS+
Sbjct: 89  KVTYAADAFFDFDKATLKPAGKAKLDELVGNLKAINLEVIIAVGHTDSIGSVAYNQKLSV 148

Query: 126 ERAARTRDYLTARGVSPGRFHIDGRGSHEPLVANDTEANRAKNRRVEIFV 175
            RA   + YL ++GV   R + +G+G  +P+  N T A RAKNRRVEI V
Sbjct: 149 RRAESVKAYLVSKGVEANRVYTEGKGKSQPVADNKTAAGRAKNRRVEIEV 198


>gi|300310091|ref|YP_003774183.1| outer membrane protein and related
           peptidoglycan-associated (lipo)proteins [Herbaspirillum
           seropedicae SmR1]
          Length = 271

 Score = 75.5 bits (184), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/105 (39%), Positives = 61/105 (58%)

Query: 73  ISFNTGRADIQPNFRAVLDKFAATLNENPATTVNIIGHTDSTGSDAVNNPLSMERAARTR 132
           +SF +G+A + P  + +LD+ AAT+ +     V IIG+TD+ G  A N  LS+ RA   +
Sbjct: 167 VSFESGQATLTPEGKRILDEIAATMLKLKGRHVEIIGNTDNEGLRASNISLSLARADAVK 226

Query: 133 DYLTARGVSPGRFHIDGRGSHEPLVANDTEANRAKNRRVEIFVAE 177
            YL A+GV        G+G   P+ +N T   RAKNRR+E  +A+
Sbjct: 227 AYLGAKGVDESLLSTSGQGPDRPVASNATAEGRAKNRRIEFRIAK 271


>gi|300313316|ref|YP_003777408.1| lipoprotein [Herbaspirillum
           seropedicae SmR1]
          Length = 267

 Score = 75.5 bits (184), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/105 (38%), Positives = 61/105 (58%)

Query: 73  ISFNTGRADIQPNFRAVLDKFAATLNENPATTVNIIGHTDSTGSDAVNNPLSMERAARTR 132
           +SF +GRA + P  + +LD+ AAT+ +     V IIG+TD+ G  A N  LS+ RA   +
Sbjct: 163 VSFESGRATLTPEGKRILDEIAATMLQLKGRRVEIIGNTDNEGLRASNISLSLARADAVK 222

Query: 133 DYLTARGVSPGRFHIDGRGSHEPLVANDTEANRAKNRRVEIFVAE 177
            YL+ +GV        G+G   P+ +N T   RA+NRR+E  +A+
Sbjct: 223 AYLSTKGVDDSLLTTSGQGPDRPVASNATSEGRARNRRIEFRIAK 267


  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
   0.313    0.131    0.371 

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: 411,973
Number of extensions: 14805
Number of successful extensions: 39
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 39
Number of HSP's successfully gapped: 4
Length of query: 181
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 102
Effective length of database: 1,245,805
Effective search space: 127072110
Effective search space used: 127072110
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 127 (53.5 bits)