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= 0090.0002.p
         (55 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311453|ref|YP_003775545.1| signal transduction containing ...    94   1e-21
gi|300314042|ref|YP_003778134.1| signal transduction protein con...    59   8e-11
gi|300311036|ref|YP_003775128.1| signal transduction protein [He...    58   2e-10

>gi|300311453|ref|YP_003775545.1| signal transduction containing
           PAS/GGDEF/EAL domains protein [Herbaspirillum
           seropedicae SmR1]
          Length = 683

 Score = 94.4 bits (233), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 42/52 (80%), Positives = 46/52 (88%)

Query: 1   LRHKVIAEGVENMAQFNFLKEAGCNELQGYLFSRPVPAADFHLMLTEGRKFS 52
           LRHKVIAEGVE+  QFNFL+EAGCNELQGY+FSRPVPA DFH ML EGRK +
Sbjct: 623 LRHKVIAEGVEDEKQFNFLREAGCNELQGYIFSRPVPAPDFHAMLLEGRKLA 674


>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 = 58.9 bits (141), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 35/49 (71%)

Query: 1   LRHKVIAEGVENMAQFNFLKEAGCNELQGYLFSRPVPAADFHLMLTEGR 49
           L+ +VIAEGVE   Q ++L+  GC+E+QGYLFS PVPA  F  +L + R
Sbjct: 897 LKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKFEQILRQDR 945


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

 Score = 57.8 bits (138), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 24/38 (63%), Positives = 29/38 (76%)

Query: 4   KVIAEGVENMAQFNFLKEAGCNELQGYLFSRPVPAADF 41
           KVIAEGVE M Q   L++AGC  +QGYL+SRP+P  DF
Sbjct: 696 KVIAEGVETMVQAQLLRDAGCEYVQGYLYSRPLPEDDF 733


  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
   0.325    0.138    0.408 

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: 158,083
Number of extensions: 4268
Number of successful extensions: 30
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 30
Number of HSP's successfully gapped: 3
Length of query: 55
Length of database: 1,619,870
Length adjustment: 28
Effective length of query: 27
Effective length of database: 1,487,290
Effective search space: 40156830
Effective search space used: 40156830
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 123 (52.0 bits)