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= 0001.2432.p
         (164 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310152|ref|YP_003774244.1| hypothetical protein Hsero_0817...   109   1e-25
gi|300310157|ref|YP_003774249.1| dihydrodipicolinate synthase/N-...    72   2e-14
gi|300310109|ref|YP_003774201.1| hypothetical protein Hsero_0774...    65   3e-12

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

 Score =  109 bits (272), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/132 (40%), Positives = 80/132 (60%), Gaps = 1/132 (0%)

Query: 1   MSKQHYEQLIQQLCNLCQIKGAQGILEGGPVAVNDVVFSLAHHEQLSPDTLLVYCDFGAV 60
           MS+  + +L    C L  +   + +++G  +AV+ V F + + E+LSPD L+VYCDFG  
Sbjct: 1   MSRSRFIELTNDFCELAHVDQPELMVQGNAIAVDGVDFFVQYDEELSPDHLIVYCDFGEP 60

Query: 61  EVGREAQAYRALLETNLLMYAGNGPMYTLSPATGRIVFANRYRLSGMDAVTLRSILAHLA 120
              R  +AY+ALLE N+L+YA N P + L P   R+VF  + RL+ + A  L +I  +LA
Sbjct: 61  PPARRLEAYQALLEANMLIYAANSPAFMLGP-DQRVVFGYQCRLNEVRAPELMNIFLNLA 119

Query: 121 AKAMDWRKDQFL 132
            +A DWR D FL
Sbjct: 120 EQARDWRTDHFL 131


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

 Score = 72.4 bits (176), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 41/134 (30%), Positives = 68/134 (50%), Gaps = 3/134 (2%)

Query: 1   MSKQHYEQLIQQLCNLCQIKGAQGILEGGPVAVNDVVFSLAHHEQLSPDTLLVYCDFGAV 60
           M+ + + + I ++C L +I   Q + E   + V++V F+L      S   + VYCDFG +
Sbjct: 1   MAIKEFYRFIDKICELARIPHPQSLYERADIEVDEVKFTLVDASGKSGRCMHVYCDFGPL 60

Query: 61  EVG--REAQAYRALLETNLLMYAGNGPMYTLSPATGRIVFANRYRLSGMDAVTLRSILAH 118
             G  R+   YR LL+ NL  +A   P +++   +  +V  +R       A+   ++LA 
Sbjct: 61  PNGPDRQTVCYR-LLDLNLECFANREPCFSIDTTSNHVVLMDRVPFDAETALETLNMLAK 119

Query: 119 LAAKAMDWRKDQFL 132
           LAA+A  WR   FL
Sbjct: 120 LAAQAKQWRSGYFL 133


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

 Score = 65.1 bits (157), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 42/134 (31%), Positives = 64/134 (47%), Gaps = 1/134 (0%)

Query: 1   MSKQHYEQLIQQLCNLCQIKGAQGILEGGPVAVNDVVFSLAHHEQLSPDTLLVYCDFGAV 60
           MS Q Y  L+  L     I+ A G+ +   + ++DV F L +   L+PD+++++C FGA+
Sbjct: 1   MSIQRYWALVTDLYRQLGIEAAPGMHQAVQLCIDDVDFILFYGGVLAPDSVVMHCTFGAL 60

Query: 61  EVGREAQAYRALLETNLLMYAGNGPMYTLSPATGRIVFANRYRLSGMDAVTLRSILAHL- 119
                 +    LLET   ++    P+++   A   I    R+ L           L HL 
Sbjct: 61  PTASRDRILLRLLETQSHLFGVCAPVFSCDAAQQHITLMCRFPLRDDQPTESTLELLHLF 120

Query: 120 AAKAMDWRKDQFLD 133
           A  AM WRKD FLD
Sbjct: 121 AGMAMRWRKDHFLD 134


  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    0.136    0.418 

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: 548,305
Number of extensions: 21563
Number of successful extensions: 54
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 3
Length of query: 164
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 86
Effective length of database: 1,250,540
Effective search space: 107546440
Effective search space used: 107546440
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: 127 (53.5 bits)