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  

3 accessions found for Escherichia coli APEC O1  

Data for DQ517526  

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: DQ517526.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]
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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
-------- ----------- ----- ------- ---
DQ517526_0124 CDS_140105-141505 60.8 3.7e-18 1
DQ517526_0109 CDS_123031-121550 59.2 1.1e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
DQ517526_0124 1/1 247 313 .. 1 87 [] 60.8 3.7e-18
DQ517526_0109 1/1 262 328 .. 1 87 [] 59.2 1.1e-17

Alignments of top-scoring domains:
DQ517526_0124: domain 1 of 1, from 247 to 313: score 60.8, E = 3.7e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s+f ++++HELRTP++ +++ ++ +l+ e++ +
DQ517526_0 247 KLSDFSSDIAHELRTPVSNLMMQTQFALA---------KERDVSH-- 282

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
yre+l l+e++rl+r+ +d+L l+r e+g
DQ517526_0 283 ---------YREILFANLEELKRLSRMTSDMLFLARSEHG 313

DQ517526_0109: domain 1 of 1, from 262 to 328: score 59.2, E = 1.1e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ f a+++HE+RTP+t + + +e++l ++++ ++
DQ517526_0 262 RQANFSADIAHEIRTPITNLVTQTEIALS---------QDRTQREL- 298

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ l + l+e +r+ ++++d+L l++++++
DQ517526_0 299 ----------EDVLYSSLEEYNRMTKMVSDMLFLAQADNN 328


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 1 0|=
-12 13 5|====*========
-11 25 26|=========================*
-10 38 49|====================================== *
-9 40 50|======================================== *
-8 37 38|=====================================*
-7 23 24|=======================*
-6 21 13|============*========
-5 12 7|======*=====
-4 9 4|===*=====
-3 2 2|=*
> -2 3 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 23.5083
P(chi-square) = 0.00139

Total sequences searched: 224

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: