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:
32 projects found  

1 accessions found for Helicobacter pylori 26695  

Data for AE000511  

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: AE000511.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
-------- ----------- ----- ------- ---
AE000511_0240 CDS_254057-252912 43.5 2.1e-12 1
AE000511_1345 CDS_1426988-1425795 31.5 5.3e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE000511_0240 1/1 170 234 .. 1 87 [] 43.5 2.1e-12
AE000511_1345 1/1 190 248 .. 1 87 [] 31.5 5.3e-09

Alignments of top-scoring domains:
AE000511_0240: domain 1 of 1, from 170 to 234: score 43.5, E = 2.1e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ a+l+HE+R+P+ +I+++a++Ll+ +++e++
AE000511_0 170 SMGKISAHLAHEIRNPVGSISLLASVLLK----------HANEKT-- 204

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ +++++ r +r+i L +s+ +
AE000511_0 205 ----------KPIVVELQKALWRVERIIKATLLFSKGIQA 234

AE000511_1345: domain 1 of 1, from 190 to 248: score 31.5, E = 5.3e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + fl n HEL+TP++a+ + +++L++
AE000511_1 190 RIDHFLKNTTHELNTPMSALVLSLKTLED------------------ 218

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++i+ +++r++ L + l l + +
AE000511_1 219 ----------NQQHRRIKIAIQRMSFLYRSLSYLVMQDIE 248


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 1 0|=
-14 15 0|===
-13 27 1|*====
-12 79 35|=====*========
-11 160 185|=========================== *
-10 274 344|============================================== *
-9 310 355|==================================================== *
-8 241 266|========================================= *
-7 175 167|===========================*==
-6 123 96|===============*=====
-5 65 52|========*==
-4 40 28|====*==
-3 22 14|==*=
-2 10 7|=*
-1 11 4|*=
0 6 2|*
1 2 1|*
> 2 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 97.2693
P(chi-square) = 1.915e-16

Total sequences searched: 1566

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: