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:
264 projects found  

1 accessions found for Haemophilus parasuis SH0165  

Data for CP001321  

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: CP001321.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
-------- ----------- ----- ------- ---
CP001321_0441 CDS_517893-515659 82.7 2.1e-23 1
CP001321_0318 CDS_369305-367929 55.1 1.4e-15 1
CP001321_1808 CDS_2012754-2014154 51.6 1.4e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001321_0441 1/1 240 305 .. 1 87 [] 82.7 2.1e-23
CP001321_0318 1/1 237 299 .. 1 87 [] 55.1 1.4e-15
CP001321_1808 1/1 240 306 .. 1 87 [] 51.6 1.4e-14

Alignments of top-scoring domains:
CP001321_0441: domain 1 of 1, from 240 to 305: score 82.7, E = 2.1e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks ++a++sHELRTPL++I+g++ +Lle +els++q
CP001321_0 240 DKSTLMATISHELRTPLNGIIGLSRILLE---------GELSAQQ-- 275

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
reyl+ti +a +l ++ +d+ dl++i++
CP001321_0 276 ----------REYLKTINISAVSLGHIFSDIIDLEKIDSR 305

CP001321_0318: domain 1 of 1, from 237 to 299: score 55.1, E = 1.4e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++l+++sHEL+TPLt ++++++lLl+ + + +
CP001321_0 237 YQHRLLSDISHELKTPLTRMQLALSLLLR---------RNGESSE-- 272

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +i+ e+ l+ +i dlL lsr +a+
CP001321_0 273 -------------ITRIEGEITKLDTMIHDLLVLSRKQAN 299

CP001321_1808: domain 1 of 1, from 240 to 306: score 51.6, E = 1.4e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+++++HELR PL+a++ +e+++ ++ ++
CP001321_1 240 RERRFTSDAAHELRSPLAALKIQTEIAQL--------AGDDTALR-- 276

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l+ + + ++r +Li++lL+lsr+++
CP001321_1 277 ----------EKALHNLTQGINRATQLIEQLLTLSRLDNL 306


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-15 2 0|=
-14 16 0|===
-13 35 1|*====
-12 115 46|======*==========
-11 212 239|=============================== *
-10 374 444|====================================================== *
-9 344 458|================================================== *
-8 321 343|============================================== *
-7 251 216|==============================*=====
-6 171 124|=================*=======
-5 75 68|=========*=
-4 56 36|=====*==
-3 10 19|==*
-2 12 10|=*
-1 9 5|*=
0 6 2|*
1 4 1|*
2 1 0|=
3 3 0|=
> 4 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 188.2123
P(chi-square) = 2.059e-34

Total sequences searched: 2021

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: