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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
132 projects found  

1 accessions found for Rhodopseudomonas palustris BisB5  

Data for CP000283  

Available Atlases
Other Plots
hmmsearch - search a sequence database with a profile HMM
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_2.hmm [HisKA_2]
Sequence database: CP000283.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_2
Accession: PF07568.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000283_2418 CDS_2707479-2706397 108.2 1.5e-30 1
CP000283_0325 CDS_380435-381637 91.6 7.5e-26 1
CP000283_3001 CDS_3360546-3359446 57.5 3.7e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000283_2418 1/1 160 243 .. 1 94 [] 108.2 1.5e-30
CP000283_0325 1/1 208 290 .. 1 94 [] 91.6 7.5e-26
CP000283_3001 1/1 167 253 .. 1 94 [] 57.5 3.7e-16

Alignments of top-scoring domains:
CP000283_2418: domain 1 of 1, from 160 to 243: score 108.2, E = 1.5e-30
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV N+LQ+I+SLL LQa ++k+ ev ++aL + +RV++
CP000283_2 160 EVNHRVGNSLQIIASLLHLQASSSKESEV-----KAALTNAMGRVAA 201

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++LY+s dl++v + +Yle L+e+L++s+++ + l
CP000283_2 202 VAQVHRRLYTSHDLKSVMLNQYLEALLEDLRRSAEGNRMSR-----L 243

CP000283_0325: domain 1 of 1, from 208 to 290: score 91.6, E = 7.5e-26
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+ HRVKN+L + +LLr Qar +++ +v ++aL+++ RV+S
CP000283_0 208 EMSHRVKNSLTSVVGLLRVQARGSESADV-----KNALEDAAMRVAS 249

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +H++L+++ ++ vd+s++++ L+e L s+ + i+ +
CP000283_0 250 IAGVHDHLWRGSKVGFVDLSDFVSHLCETLQGSAPE--HVIQ----C 290

CP000283_3001: domain 1 of 1, from 167 to 253: score 57.5, E = 3.7e-16
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HRVKNNLQ++++L+rL+ar++ + e aL +R+ +
CP000283_3 167 ELQHRVKNNLQLVTALVRLEARSAAEGE------NVALARLASRIDA 207

mAliHEeLYkse..dldtvdfseYlekLtenLfqsygvgsdgisLklDl<
+++ L+ + +++d+++Yl +te +q+ g +++ +L+ +
CP000283_3 208 LTVLYRILSAENaaG-SDIDLGQYLADITEAVMQANGSEGITYELS--V 253

-*

CP000283_3 - -


Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-15 8 0|=
-14 31 0|==
-13 90 27|=*===
-12 300 288|==============*
-11 1174 804|========================================*==================
-10 952 1040|================================================ *
-9 690 878|=================================== *
-8 525 589|=========================== *
-7 248 350|============= *
-6 210 195|=========*=
-5 70 105|==== *
-4 45 55|==*
-3 25 29|=*
-2 13 15|*
-1 6 7|*
0 1 4|*
1 0 2|*
2 1 1|*
> 3 8 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 413.6566
P(chi-square) = 0

Total sequences searched: 4397

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: