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= 0229.0068.p
         (84 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane...   131   8e-33
gi|300314042|ref|YP_003778134.1| signal transduction protein con...    70   4e-14
gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709...    67   3e-13
gi|300311036|ref|YP_003775128.1| signal transduction protein [He...    64   3e-12
gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies...    63   4e-12

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

 Score =  131 bits (330), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 59/84 (70%), Positives = 66/84 (78%)

Query: 1   MNMEHDADDAKIVKSTIDLGHNLGLRVVAEGLETLAVWNLLRQMGCDQAQGYFMSKPMPG 60
           M M  D DDAKIV+ST+DLGHNLGLRVVAEG+E+  VW LLRQMGCDQ QGYFM KPMP 
Sbjct: 714 MKMAQDQDDAKIVRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPV 773

Query: 61  DRFIEWLEQWTPPEMPSQSENMAI 84
             F+ W EQW  P+M  QSENMA+
Sbjct: 774 QHFLAWREQWRAPDMLDQSENMAV 797


>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 = 69.7 bits (169), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 33/64 (51%), Positives = 41/64 (64%)

Query: 6   DADDAKIVKSTIDLGHNLGLRVVAEGLETLAVWNLLRQMGCDQAQGYFMSKPMPGDRFIE 65
           DADDA I  S I L  +L LRV+AEG+ET    + LR  GCD+ QGY  S P+P D+F +
Sbjct: 880 DADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKFEQ 939

Query: 66  WLEQ 69
            L Q
Sbjct: 940 ILRQ 943


>gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709
           [Herbaspirillum seropedicae SmR1]
          Length = 598

 Score = 67.0 bits (162), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 32/64 (50%), Positives = 39/64 (60%)

Query: 6   DADDAKIVKSTIDLGHNLGLRVVAEGLETLAVWNLLRQMGCDQAQGYFMSKPMPGDRFIE 65
           D  D  IV S + L HNLG  VVAEGLE+     LLR +GCD  QGY +++PMP      
Sbjct: 533 DEADQLIVPSILHLAHNLGFSVVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAELEA 592

Query: 66  WLEQ 69
           WLE+
Sbjct: 593 WLER 596


>gi|300311036|ref|YP_003775128.1| signal transduction protein
           [Herbaspirillum seropedicae SmR1]
          Length = 750

 Score = 63.5 bits (153), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 29/62 (46%), Positives = 42/62 (67%), Gaps = 1/62 (1%)

Query: 6   DADDAK-IVKSTIDLGHNLGLRVVAEGLETLAVWNLLRQMGCDQAQGYFMSKPMPGDRFI 64
           DAD  K IV++ I + H LG++V+AEG+ET+    LLR  GC+  QGY  S+P+P D F+
Sbjct: 675 DADSNKAIVEAIIVMAHRLGMKVIAEGVETMVQAQLLRDAGCEYVQGYLYSRPLPEDDFL 734

Query: 65  EW 66
            +
Sbjct: 735 NF 736


>gi|300312904|ref|YP_003776996.1| diguanylate
           cyclase/phosphodiesterase with PAS/PAC sensor domains
           protein [Herbaspirillum seropedicae SmR1]
          Length = 701

 Score = 63.2 bits (152), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 40/68 (58%)

Query: 2   NMEHDADDAKIVKSTIDLGHNLGLRVVAEGLETLAVWNLLRQMGCDQAQGYFMSKPMPGD 61
           ++  DAD A IVK+ I L H L LRV+AEG+E       L++  CD+ QGY+  KPM   
Sbjct: 623 DIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVA 682

Query: 62  RFIEWLEQ 69
            F  W+ +
Sbjct: 683 VFTAWMSE 690


  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
   0.318    0.133    0.419 

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: 289,474
Number of extensions: 10071
Number of successful extensions: 54
Number of sequences better than 1.0e-08: 13
Number of HSP's gapped: 54
Number of HSP's successfully gapped: 13
Length of query: 84
Length of database: 1,619,870
Length adjustment: 54
Effective length of query: 30
Effective length of database: 1,364,180
Effective search space: 40925400
Effective search space used: 40925400
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 (21.7 bits)
S2: 123 (52.0 bits)