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  

2 accessions found for Helicobacter acinonychis str. Sheeba  

Data for AM260522  

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: AM260522.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
-------- ----------- ----- ------- ---
AM260522_1239 CDS_1184002-1185129 43.5 2.2e-12 1
AM260522_0173 CDS_159479-160591 31.1 7e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM260522_1239 1/1 164 228 .. 1 87 [] 43.5 2.2e-12
AM260522_0173 1/1 163 221 .. 1 87 [] 31.1 7e-09

Alignments of top-scoring domains:
AM260522_1239: domain 1 of 1, from 164 to 228: score 43.5, E = 2.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ a+l+HE+R+P+ +I+++a++Ll+ +++e++
AM260522_1 164 SMGKISAHLAHEIRNPVGSISLLASVLLK----------HANEKT-- 198

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ +++++ r +r+i L +s+ +
AM260522_1 199 ----------KPIVVELQKALWRVERIIKATLLFSKGIQA 228

AM260522_0173: domain 1 of 1, from 163 to 221: score 31.1, E = 7e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + fl n HEL+TP++a+ + +++L++
AM260522_0 163 RIDHFLKNTTHELNTPMSALVLSLKTLED------------------ 191

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++i+ +++r++ L + l l + g
AM260522_0 192 ----------NQKHRRIKIAIQRMSFLYRSLSYLVMQDIG 221


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 1 0|=
-14 15 0|===
-13 49 1|*========
-12 117 36|=====*==============
-11 203 191|===============================*==
-10 284 354|================================================ *
-9 302 366|=================================================== *
-8 244 274|========================================= *
-7 164 172|============================*
-6 93 99|================*
-5 61 54|========*==
-4 31 29|====*=
-3 15 15|==*
-2 12 8|=*
-1 10 4|*=
0 4 2|*
1 1 1|*
2 2 0|=
3 0 0|
> 4 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 207.3018
P(chi-square) = 9.143e-309

Total sequences searched: 1612

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: