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 Dickeya dadantii Ech703  

Data for CP001654  

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_3.hmm [HisKA_3]
Sequence database: CP001654.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP001654_1744 CDS_2103819-2102005 75.6 5.4e-22 1
CP001654_2443 CDS_2906506-2908050 53.8 1.4e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001654_1744 1/1 394 462 .. 1 70 [] 75.6 5.4e-22
CP001654_2443 1/1 321 385 .. 2 70 .] 53.8 1.4e-15

Alignments of top-scoring domains:
CP001654_1744: domain 1 of 1, from 394 to 462: score 75.6, E = 5.4e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ + +++l ++
CP001654_1 394 ERATIARELHDSIAQSLSCLKIQVSCLQMQH--DTLTPDMQQQLSAM 438

relarealaevRrllgdLR.paal<-*
r+ +++a++++R+ll+++R +
CP001654_1 439 RDEINTAYRQLRELLTTFRlKLSE 462

CP001654_2443: domain 1 of 1, from 321 to 385: score 53.8, E = 1.4e-15
*->RaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdeir
R+ IARELHD +gQ+++ai +q+ l+ r + p+ a a+++i
CP001654_2 321 RKDIARELHDDIGQNITAIQIQARLIDR----APSPPLAHSAAAQIT 363

elarealaevRrllgdLRpaal<-*
ela++ +R+ll++LRp++l
CP001654_2 364 ELAQRIHHTTRQLLRQLRPPVL 385


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 19 0|==
-13 66 0|======
-12 100 44|===*=====
-11 198 363|================= *
-10 544 844|============================================== *
-9 706 958|==========================================================*
-8 623 738|==================================================== *
-7 575 464|======================================*=========
-6 366 262|=====================*=========
-5 348 141|===========*=================
-4 161 73|======*=======
-3 101 37|===*=====
-2 66 19|=*====
-1 33 9|*==
0 33 5|*==
1 15 2|*=
2 9 1|*
3 2 0|=
4 0 0|
5 2 0|=
> 6 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1240.0554
P(chi-square) = 0

Total sequences searched: 3970

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: