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Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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264 projects found  

1 accessions found for Pectobacterium wasabiae WPP163  

Data for CP001790  

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_3.hmm [HisKA_3]
Sequence database: CP001790.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]
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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
-------- ----------- ----- ------- ---
CP001790_2458 CDS_2803426-2805297 81.2 1.4e-23 1
CP001790_2597 CDS_2970928-2969210 77.4 1.8e-22 1
CP001790_1691 CDS_1923768-1922209 57.9 9.8e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001790_2458 1/1 414 482 .. 1 70 [] 81.2 1.4e-23
CP001790_2597 1/1 360 427 .. 1 70 [] 77.4 1.8e-22
CP001790_1691 1/1 314 379 .. 1 70 [] 57.9 9.8e-17

Alignments of top-scoring domains:
CP001790_2458: domain 1 of 1, from 414 to 482: score 81.2, E = 1.4e-23
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ + p++ ++ l+e+
CP001790_2 414 ERATIARELHDSIAQSLSCLKIQVSCLQMQG--GDLPPASQQLLTEM 458

relarealaevRrllgdLR.paal<-*
re +++a+ ++R+ll+++R +
CP001790_2 459 REELNTAYGQLRELLTTFRlKLSE 482

CP001790_2597: domain 1 of 1, from 360 to 427: score 77.4, E = 1.8e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++q+ l++r++ + ++++ar+ ++
CP001790_2 360 ERATIARELHDSLAQVLSYLNIQMTLLKRAV--AQENAQARQIITDF 404

relarealaevRrllgdLRpaal<-*
++++++a++++R+llg++R +
CP001790_2 405 EQALSDAYRQLRELLGTFRLTLQ 427

CP001790_1691: domain 1 of 1, from 314 to 379: score 57.9, E = 9.8e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ IARELHD +gQ+++ai +q+ l+++ + +++ +a+ a+ +i
CP001790_1 314 VRKDIARELHDDIGQNITAIQIQAMLVKHSA--PAE--AAQHAAGQI 356

relarealaevRrllgdLRpaal<-*
el+r+ +R+ll++LRp++l
CP001790_1 357 SELSRRIHHTTRQLLRQLRPPVL 379


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-15 1 0|=
-14 34 0|===
-13 123 0|=========
-12 169 49|===*=========
-11 254 406|=================== *
-10 727 943|==================================================== *
-9 825 1071|==========================================================*
-8 675 825|================================================= *
-7 543 519|=====================================*=
-6 383 293|====================*=======
-5 313 157|===========*===========
-4 161 82|=====*======
-3 91 42|==*====
-2 59 21|=*===
-1 30 11|*==
0 20 5|*=
1 13 2|*
2 4 1|*
3 4 0|=
4 2 0|=
5 2 0|=
6 0 0|
7 0 0|
> 8 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 926.3389
P(chi-square) = 0

Total sequences searched: 4437

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: 21K


Acknowledgements:

This research is funded by:

Developed by: