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= 0216.0012.p
         (190 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314042|ref|YP_003778134.1| signal transduction protein con...    55   4e-09
gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei...    55   4e-09
gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane...    54   9e-09

>gi|300314042|ref|YP_003778134.1| signal transduction protein
           containing a membrane domain, an EAL and a GGDEF
           domain-containing protein [Herbaspirillum seropedicae
           SmR1]
          Length = 948

 Score = 55.1 bits (131), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 42/138 (30%), Positives = 62/138 (44%), Gaps = 7/138 (5%)

Query: 46  MYHVWARFRSENVLAFQAAHDPLTGLAHRGSFERRLKTM------ADQPHTVVLGMIDRF 99
           +Y + +  R E  L FQA+ D LTGL +R      L+          Q   VV   +DRF
Sbjct: 502 LYDITSMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRF 561

Query: 100 ERVVGGLGHAFGDRLMQEMATRIKRAAERHGGEVFRLNGANVAILYKSNGDNVSFQEALS 159
           + V   LGH  GD L++ +A R+ RAA R    V RL G    ++     +      +L 
Sbjct: 562 KFVNDTLGHKAGDTLLRTVAGRL-RAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQ 620

Query: 160 SLQEYMRQPFEFGQHEIF 177
            + + +  P   G H +F
Sbjct: 621 RIMDAVAAPVTLGGHTLF 638


>gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 695

 Score = 55.1 bits (131), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 42/118 (35%), Positives = 58/118 (49%), Gaps = 8/118 (6%)

Query: 65  HDPLTGLAHRGSFERRL-----KTMADQPHTVVLGM-IDRFERVVGGLGHAFGDRLMQEM 118
           HD LT L +R   E RL     K   +Q H  ++ M +D F+ +   LGH  GDRL+ E+
Sbjct: 268 HDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEV 327

Query: 119 ATRIKRAAERHGGEVFRLNGANVAILYKSNGDNVSFQEALSSLQEYMRQPFEFGQHEI 176
           A R+  ++ R    V RL G    IL   N    +   A   L E + QPF+  QHE+
Sbjct: 328 AQRLT-SSSRANDTVARLGGDEFVILVDLNTPEDAMGVA-EKLVEAVNQPFKVDQHEL 383


>gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 797

 Score = 53.9 bits (128), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/159 (28%), Positives = 76/159 (47%), Gaps = 19/159 (11%)

Query: 25  DEISRLVHIYSVGMLLTALFMMYHVWARFRSENVLAFQAAHDPLTGLAHRGSFERRLK-T 83
           DEI RL + +          M   + +R    + LA+Q   D LTGL +R  F   L+  
Sbjct: 332 DEIGRLGNAFET--------MRLEIASRELKISRLAYQ---DQLTGLPNRVQFADLLRDA 380

Query: 84  MADQPHT------VVLGMIDRFERVVGGLGHAFGDRLMQEMATRIKRAAERHGGEVFRLN 137
           +A+   T      +++  +DRF++V   LGH+FGD L++++A R+       G ++ RL 
Sbjct: 381 IAEAARTPGAACYILMMDLDRFQQVNDVLGHSFGDDLLRQVALRLSAQLLHPGAKLSRLG 440

Query: 138 GANVAILYKSNGDNVSFQEALSSLQEYMRQPFEFGQHEI 176
           G   AIL        + ++AL  L+  + QP    Q  +
Sbjct: 441 GDEFAILLPGVDQEGAVEQALQILRA-LEQPLSLHQQTV 478


  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
   0.323    0.136    0.403 

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: 578,163
Number of extensions: 22631
Number of successful extensions: 114
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 3
Length of query: 190
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 110
Effective length of database: 1,241,070
Effective search space: 136517700
Effective search space used: 136517700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 128 (53.9 bits)