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 CP001079  

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_1.hmm [HisKA]
Sequence database: CP001079.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP001079_0218 CDS_276281-277705 93.6 8e-27 1
CP001079_0334 CDS_451205-448722 46.5 1.8e-13 1
CP001079_0098 CDS_125915-128002 35.2 2.8e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001079_0218 1/1 238 307 .. 1 87 [] 93.6 8e-27
CP001079_0334 1/1 437 503 .. 1 87 [] 46.5 1.8e-13
CP001079_0098 1/1 466 537 .. 1 87 [] 35.2 2.8e-10

Alignments of top-scoring domains:
CP001079_0218: domain 1 of 1, from 238 to 307: score 93.6, E = 8e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+flan+sHELRTPL++I+g++e+++ e+ ++ ++e+
CP001079_0 238 SKSQFLANVSHELRTPLNSIIGFSEIIQSES------LGPIGSEE-- 276

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+ey++ i++++ +ll+Lind+Ld+s++ea+
CP001079_0 277 ---------YKEYINDIHQSGVHLLSLINDILDFSKAEAN 307

CP001079_0334: domain 1 of 1, from 437 to 503: score 46.5, E = 1.8e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ LtaI+g+++lLl ++++++
CP001079_0 437 AIGQLAGGIAHDFNNILTAIIGFCDLLLI--------QHPATDPS-- 473

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + i++ a+r +Li +l+ +sr ++
CP001079_0 474 ----------FRDIMQIKQNANRATNLIKQLMAFSRKQTL 503

CP001079_0098: domain 1 of 1, from 466 to 537: score 35.2, E = 2.8e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a s+ ++ ++HE+++P+t I ++ae L+ ++ ++ s ++
CP001079_0 466 AWSDVARRIAHEIKNPVTPIYLAAERLRSKYA-----EQIVSGRET- 506

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +y++ti + + +++++++++ ++r+ +
CP001079_0 507 ---------FLKYTDTITKHVSSISEIVDEFAKFARMPSA 537


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 1 0|=
-13 16 0|====
-12 53 21|=====*========
-11 86 111|====================== *
-10 152 207|====================================== *
-9 185 213|=============================================== *
-8 161 160|=======================================*=
-7 115 100|========================*====
-6 70 58|==============*===
-5 45 31|=======*====
-4 25 17|====*==
-3 11 9|==*
-2 9 4|*==
-1 4 2|*
0 2 1|*
1 2 0|=
> 2 5 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 84.4488
P(chi-square) = 2.102e-14

Total sequences searched: 942

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: