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 Neorickettsia sennetsu str. Miyayama  

Data for CP000237  

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: CP000237.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]
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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
-------- ----------- ----- ------- ---
CP000237_0003 CDS_3580-2237 87.1 5.4e-25 1
CP000237_0352 CDS_297885-300113 49.2 3e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000237_0003 1/1 221 287 .. 1 87 [] 87.1 5.4e-25
CP000237_0352 1/1 364 430 .. 1 87 [] 49.2 3e-14

Alignments of top-scoring domains:
CP000237_0003: domain 1 of 1, from 221 to 287: score 87.1, E = 5.4e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+flan+sHEL+TPL+aI+g+++l+++ + l+ e+
CP000237_0 221 QKSQFLANVSHELKTPLNAIIGFSDLIRT--------AEVLGTEH-- 257

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
rey + i+ ++++ll+Lind+Ld+s+ e +
CP000237_0 258 ----------REYANDIYYSGNHLLNLINDILDFSKSELN 287

CP000237_0352: domain 1 of 1, from 364 to 430: score 49.2, E = 3e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e+ +++H++++ LtaI+g+ae+Lle++ l +++
CP000237_0 364 SLGELSGGIAHDFNNILTAIMGFAEMLLEDV--------RLESKH-- 400

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ i+ +a+ ++L+ +L +sr ++
CP000237_0 401 ----------YYNVAQIRYSAKKGRDLVKKILAFSRKQTL 430


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-16 1 0|=
-15 2 0|=
-14 24 0|========
-13 47 0|================
-12 95 21|======*=========================
-11 110 110|====================================*
-10 143 204|================================================ *
-9 166 211|======================================================== *
-8 143 158|================================================ *
-7 72 99|======================== *
-6 59 57|==================*=
-5 32 31|==========*
-4 16 16|=====*
-3 9 8|==*
-2 4 4|=*
-1 0 2|*
0 2 1|*
1 3 0|=
> 2 4 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 292.9348
P(chi-square) = 0

Total sequences searched: 932

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: