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= 0052.0006.p
         (248 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312322|ref|YP_003776414.1| two component hybrid sensor his...   339   1e-94
gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbas...    64   1e-11
gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbas...    62   6e-11
gi|300309955|ref|YP_003774047.1| two-component system sensor his...    59   4e-10
gi|300311032|ref|YP_003775124.1| chemotaxis CheY protein [Herbas...    59   5e-10

>gi|300312322|ref|YP_003776414.1| two component hybrid sensor
           histidine kinase/response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 775

 Score =  339 bits (869), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 173/233 (74%), Positives = 195/233 (83%), Gaps = 1/233 (0%)

Query: 1   LIRSLLVSIDGEPYAFPLAYVNRTLELQRDELDVLEGYQHFSFEGRQIGLVSAHQILQKG 60
           +IRSLLV I GEPYAFPLAYVNRTL L  + L  LEGYQHFS  GRQ+GLVSAHQ+LQKG
Sbjct: 495 VIRSLLVDIAGEPYAFPLAYVNRTLRLPAEALQTLEGYQHFSHGGRQVGLVSAHQVLQKG 554

Query: 61  DLRARGESVMVVVIGDNEHAYGVAVDRFLGERMLVVQALDARLGKIPNVQAGALMEDGAP 120
             R+R  SV VVVIG+ EH YG+AVD FLGERMLVVQ LD RLGKI +V AGALMEDG P
Sbjct: 555 QWRSRDGSVCVVVIGEQEHTYGLAVDAFLGERMLVVQPLDPRLGKIADVLAGALMEDGTP 614

Query: 121 VLILDVADMLRSVEKLSVAGQLENVGQ-ASADDAGMVRKRVLVVDDSLTVRELERKLLSN 179
           +LILDVADMLR+VEKL+ +G+L+ V Q  +A      RK+VLVVDDSLTVRELERKLL+N
Sbjct: 615 LLILDVADMLRTVEKLTSSGRLQTVDQDGAAPTTTAARKKVLVVDDSLTVRELERKLLTN 674

Query: 180 RGYQVTVAVDGMDGWNAVRTEQFDLVITDIDMPRMDGIELVTLIRQAPHLRNL 232
           RGYQVTVAVDGMDGWNAVR + FDLVITDIDMPRMDGIELV+LIR A +L++L
Sbjct: 675 RGYQVTVAVDGMDGWNAVRADSFDLVITDIDMPRMDGIELVSLIRGAANLQSL 727


>gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein
           [Herbaspirillum seropedicae SmR1]
          Length = 121

 Score = 63.9 bits (154), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 46/68 (67%)

Query: 158 KRVLVVDDSLTVRELERKLLSNRGYQVTVAVDGMDGWNAVRTEQFDLVITDIDMPRMDGI 217
           K +L VDDS ++R++    L   GY VT AVDG+D     +++ FDLV+TD +MPRMDG+
Sbjct: 3   KTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKSQTFDLVLTDQNMPRMDGL 62

Query: 218 ELVTLIRQ 225
            L+  +R+
Sbjct: 63  TLIRSLRE 70


>gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein
           [Herbaspirillum seropedicae SmR1]
          Length = 131

 Score = 61.6 bits (148), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 46/75 (61%), Gaps = 1/75 (1%)

Query: 159 RVLVVDDSLTVRELERKLLSNRGY-QVTVAVDGMDGWNAVRTEQFDLVITDIDMPRMDGI 217
           + LVVDD  T+R + R LL   GY  V  A DG+     +R++QFD V++D +MP MDG+
Sbjct: 7   KFLVVDDFSTMRRIVRNLLKELGYTNVDEAEDGVQALQKLRSDQFDFVVSDWNMPNMDGL 66

Query: 218 ELVTLIRQAPHLRNL 232
            ++  IR+ P L  L
Sbjct: 67  TMLQEIRKDPALSKL 81


>gi|300309955|ref|YP_003774047.1| two-component system sensor
           histidine kinase/response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 122

 Score = 58.5 bits (140), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 43/72 (59%)

Query: 156 VRKRVLVVDDSLTVRELERKLLSNRGYQVTVAVDGMDGWNAVRTEQFDLVITDIDMPRMD 215
           + K +L+VDDS ++R+     L + GY V  A DG      +   +F+LVI+D++MP +D
Sbjct: 1   MEKNILIVDDSFSLRQTISAALKSAGYHVEEAADGKQALAHLDGRKFNLVISDLNMPHLD 60

Query: 216 GIELVTLIRQAP 227
           G+  V  ++Q P
Sbjct: 61  GLSFVREMKQMP 72


>gi|300311032|ref|YP_003775124.1| chemotaxis CheY protein
           [Herbaspirillum seropedicae SmR1]
          Length = 123

 Score = 58.5 bits (140), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 42/70 (60%)

Query: 158 KRVLVVDDSLTVRELERKLLSNRGYQVTVAVDGMDGWNAVRTEQFDLVITDIDMPRMDGI 217
           KR+L+VDD+ TVR   R +L    Y V  AV+G++G      + +DL I DI+MP++DG 
Sbjct: 2   KRILLVDDAATVRMYHRNILEAAHYLVEEAVNGIEGLEKALHQPYDLYIVDINMPKLDGY 61

Query: 218 ELVTLIRQAP 227
             +  +R  P
Sbjct: 62  GFLRQLRGEP 71


  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    0.139    0.392 

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: 717,203
Number of extensions: 29513
Number of successful extensions: 213
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 233
Number of HSP's successfully gapped: 6
Length of query: 248
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 165
Effective length of database: 1,226,865
Effective search space: 202432725
Effective search space used: 202432725
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: 129 (54.3 bits)