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 Parvibaculum lavamentivorans DS-1  

Data for CP000774  

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: CP000774.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
-------- ----------- ----- ------- ---
CP000774_0051 CDS_57325-55568 80.4 9.7e-23 1
CP000774_2015 CDS_2212737-2211244 59.9 6.8e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000774_0051 1/1 391 459 .. 1 74 [. 80.4 9.7e-23
CP000774_2015 1/1 279 362 .. 1 94 [] 59.9 6.8e-17

Alignments of top-scoring domains:
CP000774_0051: domain 1 of 1, from 391 to 459: score 80.4, E = 9.7e-23
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV+NNLQv+ SLL+LQ+r++k +e +++ + q+R +
CP000774_0 391 EVNHRVRNNLQVMNSLLNLQSRRAKTPEQ-----MAIFLDIQRRLNA 432

mAliHEeLYksedldtvdfseYlekLt<-*
++H LYk++d+ vd++ l+ L+
CP000774_0 433 LGIVHAALYKGDDFRAVDLGVLLKDLC 459

CP000774_2015: domain 1 of 1, from 279 to 362: score 59.9, E = 6.8e-17
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
+ HRV NNL+++SSLLr+Q k+ d e+ + aL+ +++R+++
CP000774_2 279 DVTHRVGNNLAMVSSLLRMQQSKVNDGEA-----RSALETARGRIQT 320

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+++ +++L + dl + +e le ++++L +s ++++ + +
CP000774_2 321 ISTAQRRLRLGADLQSTRADELLEAVVSDLADST-LENGTLT----I 362


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-15 2 0|=
-14 14 0|=
-13 43 22|=*=
-12 180 238|=========== *
-11 946 664|=======================================*================
-10 807 860|================================================ *
-9 610 726|==================================== *
-8 463 487|============================*
-7 252 289|=============== *
-6 181 161|=========*=
-5 60 86|==== *
-4 26 46|==*
-3 23 24|=*
-2 13 12|*
-1 5 6|*
0 1 3|*
1 1 1|*
2 2 0|=
3 2 0|=
> 4 5 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 199.3207
P(chi-square) = 4.504e-36

Total sequences searched: 3636

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: