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= 0250.0003.p
         (86 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies...    81   1e-17
gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi...    61   2e-11
gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi...    59   5e-11
gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi...    54   3e-09

>gi|300313993|ref|YP_003778085.1| diguanylate
           cyclase/phosphodiesterase with PAS/PAC sensor
           domain-containing protein [Herbaspirillum seropedicae
           SmR1]
          Length = 573

 Score = 81.3 bits (199), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/82 (48%), Positives = 54/82 (65%)

Query: 1   VIVAESDSANAMQLAENIRNAVAALQIAHEDSPFGCVTCSIGVTAVQVDEDMSTDTLLRL 60
           VI+AE D+  A+Q AENI  A+  L++ H DSPFG ++ SIGV  +  DE  + + ++R+
Sbjct: 488 VIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRI 547

Query: 61  ADVALYQAKALGRNRVALSDPA 82
           AD ALY AK  GRNRV L   A
Sbjct: 548 ADQALYHAKYQGRNRVVLGSDA 569


>gi|300313782|ref|YP_003777874.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 475

 Score = 61.2 bits (147), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 52/78 (66%)

Query: 1   VIVAESDSANAMQLAENIRNAVAALQIAHEDSPFGCVTCSIGVTAVQVDEDMSTDTLLRL 60
           V++  +D+  A  +A+ I +A+ +L+I HE SPF  +T SIGVT++  +   S + +++ 
Sbjct: 398 VLLNGTDTVGATHVAKRIISAIQSLKIPHERSPFDILTVSIGVTSLLREHHSSIEDVVKD 457

Query: 61  ADVALYQAKALGRNRVAL 78
           AD ALY+AK  GRN+ +L
Sbjct: 458 ADAALYRAKQDGRNKHSL 475


>gi|300313918|ref|YP_003778010.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 515

 Score = 59.3 bits (142), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/82 (39%), Positives = 47/82 (57%)

Query: 1   VIVAESDSANAMQLAENIRNAVAALQIAHEDSPFGCVTCSIGVTAVQVDEDMSTDTLLRL 60
           V++ ++D   A  +A+ + +AV    IAH  SP   VT S+GV  ++ D     + +L  
Sbjct: 434 VLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSPLAVVTISVGVATLERDHHRRVEDVLNA 493

Query: 61  ADVALYQAKALGRNRVALSDPA 82
           AD ALY+AK  GR+RV LS  A
Sbjct: 494 ADAALYRAKQAGRDRVHLSSQA 515


>gi|300313329|ref|YP_003777421.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 501

 Score = 53.5 bits (127), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 28/82 (34%), Positives = 45/82 (54%)

Query: 1   VIVAESDSANAMQLAENIRNAVAALQIAHEDSPFGCVTCSIGVTAVQVDEDMSTDTLLRL 60
           V++ ++D   A+++A+ +  A+    I H  SP G ++ SIGV  +        + +L  
Sbjct: 414 VLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNA 473

Query: 61  ADVALYQAKALGRNRVALSDPA 82
           AD ALY AK  GRNRV ++ P 
Sbjct: 474 ADHALYIAKREGRNRVCVAHPG 495


  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
   0.315    0.127    0.345 

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: 229,909
Number of extensions: 7169
Number of successful extensions: 72
Number of sequences better than 1.0e-08: 7
Number of HSP's gapped: 78
Number of HSP's successfully gapped: 7
Length of query: 86
Length of database: 1,619,870
Length adjustment: 56
Effective length of query: 30
Effective length of database: 1,354,710
Effective search space: 40641300
Effective search space used: 40641300
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 123 (52.0 bits)