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:
76 projects found  

2 accessions found for Burkholderia pseudomallei 668  

Data for CP000570  

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: CP000570.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
-------- ----------- ----- ------- ---
CP000570_2599 CDS_2603644-2605578 58.5 5.7e-17 1
CP000570_1333 CDS_1311047-1312774 57.1 1.5e-16 1
CP000570_0230 CDS_224004-223156 36.6 1.6e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000570_2599 1/1 439 507 .. 1 70 [] 58.5 5.7e-17
CP000570_1333 1/1 366 429 .. 1 70 [] 57.1 1.5e-16
CP000570_0230 1/1 61 129 .. 1 70 [] 36.6 1.6e-10

Alignments of top-scoring domains:
CP000570_2599: domain 1 of 1, from 439 to 507: score 58.5, E = 5.7e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+ A+ LHDs++QsL ++lq++++ ++ + d+ are + +
CP000570_2 439 ERNLVAQGLHDSIAQSLNFVNLQTQMLGDAI--AHDNLaDAREIVPM 483

irelarealaevRrllgdLRpaal<-*
+++ +++++a+vR+ll ++R+
CP000570_2 484 LKHGVEQGYADVRELLLNFRTRLT 507

CP000570_1333: domain 1 of 1, from 366 to 429: score 57.1, E = 1.5e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RIARELHD+++Q+L++++l le++ + e++ + e+
CP000570_1 366 ERGRIARELHDELAQTLAMLRLDLERVSTTG--N----ELAGSFMEM 406

relarealaevRrllgdLRpaal<-*
r+l++ a a +Rr+++dLRp l
CP000570_1 407 RGLLDGAVAATRRIASDLRPLML 429

CP000570_0230: domain 1 of 1, from 61 to 129: score 36.6, E = 1.6e-10
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
R+++A ELHD++g L+a++ l +++ l ++d++++ar+al+
CP000570_0 61 ARRHLAGELHDGLGADLTAARFALANVETWL--PDDAPdAARRALAL 105

irelarealaevRrllgdLRpaal<-*
++++++ a a Rrl+ +LR++al
CP000570_0 106 AQQALDAATAANRRLIDGLRTPAL 129


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 25 0|===
-13 81 0|=======
-12 175 44|===*===========
-11 194 362|================= *
-10 456 840|====================================== *
-9 672 954|======================================================== *
-8 532 735|============================================= *
-7 476 462|======================================*=
-6 419 261|=====================*=============
-5 384 140|===========*====================
-4 192 73|======*=========
-3 138 37|===*========
-2 77 19|=*=====
-1 40 9|*===
0 25 4|*==
1 25 2|*==
2 16 1|*=
3 9 0|=
4 3 0|=
5 2 0|=
6 1 0|=
7 3 0|=
8 2 0|=
9 0 0|
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2025.3634
P(chi-square) = 0

Total sequences searched: 3951

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: