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= 0001.2429.p
         (140 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310109|ref|YP_003774201.1| hypothetical protein Hsero_0774...   110   4e-26
gi|300310157|ref|YP_003774249.1| dihydrodipicolinate synthase/N-...    64   4e-12
gi|300310152|ref|YP_003774244.1| hypothetical protein Hsero_0817...    59   2e-10

>gi|300310109|ref|YP_003774201.1| hypothetical protein Hsero_0774
           [Herbaspirillum seropedicae SmR1]
          Length = 134

 Score =  110 bits (275), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 53/133 (39%), Positives = 79/133 (59%), Gaps = 1/133 (0%)

Query: 1   MMISRYRHLIEQLGAHFSLPLQGSLHQATTMQVNGVELNLYHGGLIVPDSVLLYCEFGPL 60
           M I RY  L+  L     +     +HQA  + ++ V+  L++GG++ PDSV+++C FG L
Sbjct: 1   MSIQRYWALVTDLYRQLGIEAAPGMHQAVQLCIDDVDFILFYGGVLAPDSVVMHCTFGAL 60

Query: 61  PRLQREQVLLRLLETNMYLFNANCPAFTYQAQKDSIFLICRFSL-SSATLESTLELFDFL 119
           P   R+++LLRLLET  +LF    P F+  A +  I L+CRF L      ESTLEL    
Sbjct: 61  PTASRDRILLRLLETQSHLFGVCAPVFSCDAAQQHITLMCRFPLRDDQPTESTLELLHLF 120

Query: 120 VSLALRWRRDYYL 132
             +A+RWR+D++L
Sbjct: 121 AGMAMRWRKDHFL 133


>gi|300310157|ref|YP_003774249.1| dihydrodipicolinate
           synthase/N-acetylneuraminate lyase N-terminal protein
           [Herbaspirillum seropedicae SmR1]
          Length = 165

 Score = 63.9 bits (154), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 1/139 (0%)

Query: 1   MMISRYRHLIEQLGAHFSLPLQGSLHQATTMQVNGVELNLYHGGLIVPDSVLLYCEFGPL 60
           M I  +   I+++     +P   SL++   ++V+ V+  L          + +YC+FGPL
Sbjct: 1   MAIKEFYRFIDKICELARIPHPQSLYERADIEVDEVKFTLVDASGKSGRCMHVYCDFGPL 60

Query: 61  PR-LQREQVLLRLLETNMYLFNANCPAFTYQAQKDSIFLICRFSLSSATLESTLELFDFL 119
           P    R+ V  RLL+ N+  F    P F+     + + L+ R    + T   TL +   L
Sbjct: 61  PNGPDRQTVCYRLLDLNLECFANREPCFSIDTTSNHVVLMDRVPFDAETALETLNMLAKL 120

Query: 120 VSLALRWRRDYYLFGEDEA 138
            + A +WR  Y+L  E+ A
Sbjct: 121 AAQAKQWRSGYFLPSEEAA 139


>gi|300310152|ref|YP_003774244.1| hypothetical protein Hsero_0817
           [Herbaspirillum seropedicae SmR1]
          Length = 133

 Score = 58.5 bits (140), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 3/107 (2%)

Query: 27  QATTMQVNGVELNLYHGGLIVPDSVLLYCEFGPLPRLQREQVLLRLLETNMYLFNANCPA 86
           Q   + V+GV+  + +   + PD +++YC+FG  P  +R +    LLE NM ++ AN PA
Sbjct: 27  QGNAIAVDGVDFFVQYDEELSPDHLIVYCDFGEPPPARRLEAYQALLEANMLIYAANSPA 86

Query: 87  FTYQAQKDSIF-LICRFSLSSATLESTLELFDFLVSLALRWRRDYYL 132
           F     +  +F   CR  L+       + +F  L   A  WR D++L
Sbjct: 87  FMLGPDQRVVFGYQCR--LNEVRAPELMNIFLNLAEQARDWRTDHFL 131


  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
   0.327    0.142    0.426 

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: 325,983
Number of extensions: 8805
Number of successful extensions: 29
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 27
Number of HSP's successfully gapped: 3
Length of query: 140
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 64
Effective length of database: 1,260,010
Effective search space: 80640640
Effective search space used: 80640640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 126 (53.1 bits)