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 J99  

Data for AE001439  

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_1.hmm [HisKA]
Sequence database: AE001439.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
AE001439_0228 CDS_250963-249818 43.5 2e-12 1
AE001439_1278 CDS_1403541-1402507 31.5 5e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE001439_0228 1/1 170 234 .. 1 87 [] 43.5 2e-12
AE001439_1278 1/1 137 195 .. 1 87 [] 31.5 5e-09

Alignments of top-scoring domains:
AE001439_0228: domain 1 of 1, from 170 to 234: score 43.5, E = 2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ a+l+HE+R+P+ +I+++a++Ll+ +++e++
AE001439_0 170 SMGKISAHLAHEIRNPVGSISLLASVLLK----------HANEKT-- 204

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ +++++ r +r+i L +s+ +
AE001439_0 205 ----------KPIVVELQKALWRVERIIKATLLFSKGIQA 234

AE001439_1278: domain 1 of 1, from 137 to 195: score 31.5, E = 5e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + fl n HEL+TP++a+ + +++L++
AE001439_1 137 RIDHFLKNTTHELNTPMSALVLSLKTLED------------------ 165

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++i+ +++r++ L + l l + +
AE001439_1 166 ----------NQQHRRIKIAIQRMSFLYRSLSYLVMQDIE 195


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 6 0|=
-13 19 1|*===
-12 70 34|=====*======
-11 154 176|========================== *
-10 260 327|============================================ *
-9 300 338|================================================== *
-8 255 253|==========================================*
-7 169 159|==========================*==
-6 110 91|===============*===
-5 66 50|========*==
-4 38 26|====*==
-3 15 14|==*
-2 11 7|=*
-1 6 3|*
0 3 2|*
1 2 1|*
2 3 0|=
3 0 0|
> 4 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 74.3159
P(chi-square) = 6.464e-12

Total sequences searched: 1491

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: