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:
76 projects found  

3 accessions found for Polaromonas sp. JS666  

Data for CP000316  

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: CP000316.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
-------- ----------- ----- ------- ---
CP000316_3450 CDS_3710257-3711576 154.5 1.1e-43 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000316_3450 1/1 241 326 .. 1 94 [] 154.5 1.1e-43

Alignments of top-scoring domains:
CP000316_3450: domain 1 of 1, from 241 to 326: score 154.5, E = 1.1e-43
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ+I+SLL+LQ+ +++d+ + l ++Esq+R++S
CP000316_3 241 EIHHRVKNNLQIIASLLSLQSGYIRDPRT-----LMQFQESQGRIRS 282

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAliHE+LY+se l tvd+++Y++ L++ L+++y+ ++ +kl++
CP000316_3 283 MALIHEKLYQSETLATVDLADYVQTLVSILMRTYTANAK---VKLEC 326


Histogram of all scores:
score obs exp (one = represents 22 sequences)
----- --- ---
-15 3 0|=
-14 20 0|=
-13 65 30|=*=
-12 336 316|==============*=
-11 1256 880|=======================================*==================
-10 1111 1140|===================================================*
-9 774 962|==================================== *
-8 606 645|============================ *
-7 256 383|============ *
-6 211 213|=========*
-5 81 115|==== *
-4 44 60|==*
-3 28 31|=*
-2 14 16|*
-1 4 8|*
0 2 4|*
1 3 2|*
2 0 1|*
3 1 0|=
> 4 2 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 299.6223
P(chi-square) = 0

Total sequences searched: 4817

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: