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 CP000409  

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: CP000409.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
-------- ----------- ----- ------- ---
CP000409_0257 CDS_301577-303070 83.0 9.4e-24 1
CP000409_0627 CDS_668740-670146 60.6 2.1e-17 1
CP000409_0333 CDS_383944-385746 45.2 4.7e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000409_0257 1/1 268 333 .. 1 87 [] 83.0 9.4e-24
CP000409_0627 1/1 211 269 .. 1 87 [] 60.6 2.1e-17
CP000409_0333 1/1 371 441 .. 1 87 [] 45.2 4.7e-13

Alignments of top-scoring domains:
CP000409_0257: domain 1 of 1, from 268 to 333: score 83.0, E = 9.4e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+an+sHELRTPL++I+g++e+L + e+
CP000409_0 268 SNTKFFANISHELRTPLNSIIGFSEILMS---------ERDAEKS-- 303

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y++ i +++++ll++ind+Ldls++ a
CP000409_0 304 ----------KNYIKDINDAGKHLLSMINDILDLSKASAD 333

CP000409_0627: domain 1 of 1, from 211 to 269: score 60.6, E = 2.1e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +la++sH+LRTPLt +++ +el++e
CP000409_0 211 KRTTMLAMISHDLRTPLTRMKLQLELMEE------------------ 239

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e ++ +++++ ++++in Ld+++ e+
CP000409_0 240 ----------NEEIKGLKQDILTMQQMINSYLDFAKGEST 269

CP000409_0333: domain 1 of 1, from 371 to 441: score 45.2, E = 4.7e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
s+ + ++HE+++PLt I++++e L + + s+e +
CP000409_0 371 VWSDVAKKVAHEIKNPLTPILLASERLFK----------KFSPEIK- 406

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e e++ yl+ i+r ++ + ++++++ ++r+ a+
CP000409_0 407 -----ERTEFENYLKMIIRHTNDIKSIVSEFVLFARLPAP 441


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-15 3 0|=
-14 20 0|=====
-13 58 0|===============
-12 119 24|=====*========================
-11 142 129|================================*===
-10 185 240|=============================================== *
-9 173 248|============================================ *
-8 138 185|=================================== *
-7 83 117|===================== *
-6 85 67|================*=====
-5 37 36|========*=
-4 17 19|====*
-3 14 10|==*=
-2 5 5|=*
-1 3 2|*
0 3 1|*
1 2 0|=
2 0 0|
> 3 6 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 419.0672
P(chi-square) = 0

Total sequences searched: 1093

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: