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

5 accessions found for Roseobacter denitrificans OCh 114  

Data for CP000362  

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: CP000362.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]
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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
-------- ----------- ----- ------- ---
CP000362_0078 CDS_88468-86744 99.7 3.4e-28 1
CP000362_2293 CDS_2348140-2347022 78.6 3.5e-22 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000362_0078 1/1 373 457 .. 1 94 [] 99.7 3.4e-28
CP000362_2293 1/1 158 228 .. 1 76 [. 78.6 3.5e-22

Alignments of top-scoring domains:
CP000362_0078: domain 1 of 1, from 373 to 457: score 99.7, E = 3.4e-28
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+ISS+ ++Q r++++ ++ + +L+ q R+lS
CP000362_0 373 EVHHRVKNNLQLISSIMNMQIRRAESDDA-----RQVLKRLQERILS 414

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
A++H+ LY++e+ld+vd + le+++++L+ s g++ +
CP000362_0 415 LATVHKNLYQTENLDRVDAGKLLEEIIGQLLTMGLSASAGVQ----V 457

CP000362_2293: domain 1 of 1, from 158 to 228: score 78.6, E = 3.5e-22
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+I S++++ r +k++e+ + + + q+RV++
CP000362_2 158 EVHHRVKNNLQLINSIINMILRGAKSPET-----RTVVKRLQDRVMA 199

mAliHEeLYksedldtvdfseYlekLten<-*
A +H+ Y+ ++d+vd se +++++++
CP000362_2 200 LASVHRTIYQAQSMDRVDASEIVREIVNQ 228


Histogram of all scores:
score obs exp (one = represents 18 sequences)
----- --- ---
-15 17 0|=
-14 29 0|==
-13 73 24|=*===
-12 205 259|============ *
-11 1060 721|========================================*==================
-10 879 933|================================================= *
-9 648 788|==================================== *
-8 447 529|========================= *
-7 239 314|============== *
-6 193 175|=========*=
-5 60 94|==== *
-4 39 49|==*
-3 31 26|=*
-2 8 13|*
-1 10 7|*
0 3 3|*
1 2 1|*
2 0 1|*
3 0 0|
> 4 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 344.5954
P(chi-square) = 0

Total sequences searched: 3960

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: