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:
106 projects found  

6 accessions found for Rhodococcus opacus B4  

Data for AP011116  

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: AP011116.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
AP011116_0181 CDS_173628-172192 47.8 5e-14 1
AP011116_0234 CDS_219447-218320 45.7 1.9e-13 1
AP011116_0345 CDS_334314-335732 42.9 1.2e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP011116_0181 1/1 244 309 .. 1 87 [] 47.8 5e-14
AP011116_0234 1/1 144 208 .. 1 87 [] 45.7 1.9e-13
AP011116_0345 1/1 247 312 .. 1 87 [] 42.9 1.2e-12

Alignments of top-scoring domains:
AP011116_0181: domain 1 of 1, from 244 to 309: score 47.8, E = 5e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f+a++sHELR PL+++ +++e+ ++ + ++
AP011116_0 244 AQRRFVADASHELRSPLSTVTTALEIGRD---------RPELLDT-- 279

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +t+l ea r+ +Li+dlL l+r+++
AP011116_0 280 ----------ALVEHTLLPEAARMHHLIDDLLLLARADEH 309

AP011116_0234: domain 1 of 1, from 144 to 208: score 45.7, E = 1.9e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++l +l+HE+RTP++++ +y e+L++++ ++l++++
AP011116_0 144 TRRQLLGDLAHEIRTPVSVLEAYMEALEDGV-------ETLDADT-- 181

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++++++rl r +d+ ls +e+
AP011116_0 182 -------------IGMLRDQTRRLVRFSDDVNALSHAEES 208

AP011116_0345: domain 1 of 1, from 247 to 312: score 42.9, E = 1.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f+ ++sHELR PL++I +++el++ + ++
AP011116_0 247 AQRRFVGDASHELRSPLATITAALELAQS---------RPELIDT-- 282

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e++l ea+r+ +L++dlL l+r+++
AP011116_0 283 ----------ALVDESLLPEARRMHALLEDLLLLARADED 312


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-14 4 0|==
-13 12 0|====
-12 34 13|====*=======
-11 84 70|=======================*====
-10 114 130|====================================== *
-9 121 134|========================================= *
-8 89 100|============================== *
-7 42 63|============== *
-6 49 36|===========*=====
-5 18 20|======*
-4 10 10|===*
-3 7 5|=*=
-2 2 2|*
-1 2 1|*
> 0 5 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 50.4606
P(chi-square) = 8.824e-08

Total sequences searched: 593

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: