Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
132 projects found  

1 accessions found for Orientia tsutsugamushi str. Ikeda  

Data for AP008981  

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_1.hmm [HisKA]
Sequence database: AP008981.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
AP008981_0255 CDS_248398-249909 73.5 8.6e-21 1
AP008981_0302 CDS_315797-314220 44.7 1.2e-12 1
AP008981_0162 CDS_152846-156073 43.2 3.2e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP008981_0255 1/1 273 339 .. 1 87 [] 73.5 8.6e-21
AP008981_0302 1/1 294 364 .. 1 87 [] 44.7 1.2e-12
AP008981_0162 1/1 700 769 .. 1 87 [] 43.2 3.2e-12

Alignments of top-scoring domains:
AP008981_0255: domain 1 of 1, from 273 to 339: score 73.5, E = 8.6e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak++flan+sHELRTPL+aI+g++e++l ++ +
AP008981_0 273 AKNKFLANVSHELRTPLSAIIGLTEIILS------------NSHCK- 306

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y y++ i++++++ll+ ind+Ld+s++ a+
AP008981_0 307 -------INYYNYIRDIHNSGKHLLAVINDILDFSKASAN 339

AP008981_0302: domain 1 of 1, from 294 to 364: score 44.7, E = 1.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
s+ ++ ++HE+++PLt I++ a++L +++ ++ +++
AP008981_0 294 VWSDIARKVAHEINNPLTPIQLSASMLADKF-------GKEVSDT-- 331

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +yl++i r a+ ++ +i ++ d+++i +
AP008981_0 332 -------IMFTKYLNIISRHAKDIETIIKEFADFAKIPVP 364

AP008981_0162: domain 1 of 1, from 700 to 769: score 43.2, E = 3.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k e l +lsHE RTPL +++ ++lL + + e s ++l
AP008981_0 700 IKKEILNHLSHEVRTPLQGVKSCIDLLIK-------HCNEYSNSEQL 739

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++++ +++er + i++lLdls+iea+
AP008981_0 740 ----------LRIVNRVNSSVERVCNHIDNLLDLSKIEAN 769


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 22 0|====
-13 50 1|*=======
-12 184 44|======*====================
-11 299 233|=================================*=========
-10 358 432|==================================================== *
-9 326 446|=============================================== *
-8 245 334|=================================== *
-7 168 210|======================== *
-6 107 121|================ *
-5 74 66|=========*=
-4 73 35|====*======
-3 24 18|==*=
-2 20 9|=*=
-1 3 5|*
0 2 2|*
> 1 12 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 580.2843
P(chi-square) = 0

Total sequences searched: 1967

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: