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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
35 projects found  

2 accessions found for Desulfovibrio vulgaris DP4  

Data for CP000527  

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: CP000527.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
-------- ----------- ----- ------- ---
CP000527_2088 CDS_2438056-2436476 130.5 4.5e-37 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000527_2088 1/1 333 416 .. 1 94 [] 130.5 4.5e-37

Alignments of top-scoring domains:
CP000527_2088: domain 1 of 1, from 333 to 416: score 130.5, E = 4.5e-37
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ++ SLL+LQa ++ d +++L +s+nR++S
CP000527_2 333 EVHHRVKNNLQLVVSLLNLQASSVYDVRD-----RALLLDSRNRIAS 374

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAl+HEeLY+s+dl+ vdf++Yl +L++ L +++ i+++lDl
CP000527_2 375 MALVHEELYRSDDLSGVDFADYLPRLARKLQSAF-----VIDVELDL 416


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-15 2 0|=
-14 6 0|=
-13 43 18|=*==
-12 179 193|==============*
-11 727 537|=========================================*==============
-10 665 696|==================================================== *
-9 488 587|====================================== *
-8 368 394|============================= *
-7 183 234|=============== *
-6 148 130|=========*==
-5 53 70|=====*
-4 36 37|==*
-3 19 19|=*
-2 12 10|*
-1 5 5|*
0 4 2|*
1 1 1|*
2 0 0|
3 0 0|
> 4 2 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 138.6931
P(chi-square) = 1.099e-23

Total sequences searched: 2941

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: