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  

4 accessions found for Actinobacillus pleuropneumoniae serovar 7 str. AP76  

Data for CP001091  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP001091.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
-------- ----------- ----- ------- ---
CP001091_0993 CDS_1110164-1108314 81.2 6e-23 1
CP001091_1305 CDS_1464489-1463197 75.6 2.3e-21 1
CP001091_1122 CDS_1266065-1267441 55.6 1.1e-15 1
CP001091_0673 CDS_749800-748400 50.5 3e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001091_0993 1/1 114 179 .. 1 87 [] 81.2 6e-23
CP001091_1305 1/1 203 268 .. 1 87 [] 75.6 2.3e-21
CP001091_1122 1/1 239 305 .. 1 87 [] 55.6 1.1e-15
CP001091_0673 1/1 245 307 .. 1 87 [] 50.5 3e-14

Alignments of top-scoring domains:
CP001091_0993: domain 1 of 1, from 114 to 179: score 81.2, E = 6e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks ++a++sHELRTPL++I+g++ +Lle +el+++q
CP001091_0 114 DKSVLMATISHELRTPLNGIIGLSRILLE---------GELTDQQ-- 149

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
reyl+ti +a +l ++ +d+ dl++i++
CP001091_0 150 ----------REYLKTINISAVSLGHIFSDIIDLEKIDSR 179

CP001091_1305: domain 1 of 1, from 203 to 268: score 75.6, E = 2.3e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ fl n+ HELRTPLt++rgy+elL+ ++ +e q
CP001091_1 203 SRQMFLTNMNHELRTPLTVLRGYLELLEG---------QAETELQ-- 238

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ ++ ++++a+r+ +L+++l l++ie+
CP001091_1 239 ----------QKSIHAMQSQAKRMGNLLDQLNLLAKIETS 268

CP001091_1122: domain 1 of 1, from 239 to 305: score 55.6, E = 1.1e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+++++HELR PL+++r +e++++ t +++++
CP001091_1 239 RERRFTSDAAHELRSPLAGLRIQTEIAQM---------TLDDPDTH- 275

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l+ + + ++r+ +Li++lL+lsr+e+
CP001091_1 276 ----------LSALNNLTHGIDRIAQLIEQLLTLSRLENL 305

CP001091_0673: domain 1 of 1, from 245 to 307: score 50.5, E = 3e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++++sHEL+TPL+ + +++ l+++ + +++
CP001091_0 245 HQQRLVSDISHELKTPLARLHLATALIRR---------RNGESPE-- 280

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l +i+++++ l+ ++ dlL lsr + +
CP001091_0 281 -------------LTRIENQIQKLDTMVHDLLVLSRQQVN 307


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-14 2 0|=
-13 21 1|*==
-12 100 48|=====*=======
-11 219 252|============================ *
-10 343 468|=========================================== *
-9 428 483|====================================================== *
-8 374 362|=============================================*=
-7 276 228|============================*======
-6 156 131|================*===
-5 81 72|========*==
-4 50 38|====*==
-3 40 20|==*==
-2 10 10|=*
-1 11 5|*=
0 12 2|*=
1 2 1|*
2 0 0|
3 0 0|
> 4 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 142.2136
P(chi-square) = 5.773e-25

Total sequences searched: 2131

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: