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
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Data for CP001968  

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: CP001968.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
-------- ----------- ----- ------- ---
CP001968_0169 CDS_172971-170602 120.6 2.9e-34 1
CP001968_1603 CDS_1724546-1723209 43.5 2.5e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001968_0169 1/1 597 678 .. 1 94 [] 120.6 2.9e-34
CP001968_1603 1/1 255 337 .. 1 94 [] 43.5 2.5e-12

Alignments of top-scoring domains:
CP001968_0169: domain 1 of 1, from 597 to 678: score 120.6, E = 2.9e-34
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+I SLL+LQ+++ +d++ + L +s+ R++S
CP001968_0 597 EVHHRVKNNLQIICSLLSLQSESLEDQKQ-----YNYLSDSIARIKS 638

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
m+liHE LY++ +ld + +++YlekLt +L+ ++v +d +
CP001968_0 639 MSLIHELLYQTQGLDVLSIKDYLEKLTFDLKYMFAVNDD-------I 678

CP001968_1603: domain 1 of 1, from 255 to 337: score 43.5, E = 2.5e-12
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HR+KNNLQ+ISS+++ + +k+ + e+L++ q+R +S
CP001968_1 255 EFNHRIKNNLQIISSIIDVHMEKSCTHDK-----NEVLQDIQDRMIS 296

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mA H + + + +d Y++k+ ++ +q++++g++ D+
CP001968_1 297 MAHMHSMFASGSS-TGIDSEKYISKIYKSFCQTHSLGRN-----SDV 337


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 2 0|=
-14 8 0|=
-13 27 18|=*=
-12 102 194|=========== *
-11 576 542|======================================================*===
-10 561 701|========================================================= *
-9 588 592|==========================================================*
-8 422 397|=======================================*===
-7 261 236|=======================*===
-6 217 131|=============*========
-5 82 70|======*==
-4 49 37|===*=
-3 31 19|=*==
-2 9 10|*
-1 18 5|*=
0 5 2|*
1 1 1|*
2 2 0|=
> 3 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 179.8680
P(chi-square) = 4.541e-32

Total sequences searched: 2964

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: