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 CP000235  

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: CP000235.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
-------- ----------- ----- ------- ---
CP000235_0875 CDS_1008980-1007568 90.6 7.6e-26 1
CP000235_0533 CDS_611050-608606 46.3 2.7e-13 1
CP000235_0122 CDS_139419-141521 33.0 1.6e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000235_0875 1/1 234 303 .. 1 87 [] 90.6 7.6e-26
CP000235_0533 1/1 422 488 .. 1 87 [] 46.3 2.7e-13
CP000235_0122 1/1 481 552 .. 1 87 [] 33.0 1.6e-09

Alignments of top-scoring domains:
CP000235_0875: domain 1 of 1, from 234 to 303: score 90.6, E = 7.6e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+flan+sHELRTPL++I+g++e+ ++e+ ++l+ q
CP000235_0 234 SKSQFLANVSHELRTPLNSIIGFSEIVQRES------LGPLGNAQ-- 272

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+ey++ i +++ +ll+Lind+Ld+s++ea+
CP000235_0 273 ---------YKEYIKEINHAGVHLLSLINDILDFSKAEAN 303

CP000235_0533: domain 1 of 1, from 422 to 488: score 46.3, E = 2.7e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ LtaI+g+++lLl ++++++
CP000235_0 422 AIGQLTGGIAHDFNNILTAIIGFCDLLLI--------QHPATDPS-- 458

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + i++ a+r +Li++l+ +sr ++
CP000235_0 459 ----------FRDIMQIKQNANRAANLIRQLMAFSRKQTL 488

CP000235_0122: domain 1 of 1, from 481 to 552: score 33.0, E = 1.6e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a s+ ++ ++HE+++P+t I ++ae L ++ ++ s ++
CP000235_0 481 AWSDVARRIAHEIKNPITPIYLAAERLGSKYA-----EQIVSGRET- 521

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +y++ti++ + ++ +++++ +++r+ ++
CP000235_0 522 ---------FLRYTDTIIKHVSNISCIVDEFAQFARMPSP 552


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-15 13 0|====
-14 62 0|================
-13 88 0|======================
-12 121 28|======*========================
-11 147 149|=====================================*
-10 192 277|================================================ *
-9 183 287|============================================== *
-8 150 214|====================================== *
-7 134 135|=================================*
-6 78 77|===================*
-5 35 42|========= *
-4 28 22|=====*=
-3 17 12|==*==
-2 7 6|=*
-1 1 3|*
0 3 1|*
> 1 5 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 382.2704
P(chi-square) = 0

Total sequences searched: 1264

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: