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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  

1 accessions found for Shewanella violacea DSS12  

Data for AP011177  

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: AP011177.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
-------- ----------- ----- ------- ---
AP011177_0762 CDS_900720-899017 63.1 2.8e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP011177_0762 1/1 364 433 .. 1 70 [] 63.1 2.8e-18

Alignments of top-scoring domains:
AP011177_0762: domain 1 of 1, from 364 to 433: score 63.1, E = 2.8e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q++l+ + l d++ +++++ ++
AP011177_0 364 ERGVIARELHDSLGQILSFLKIQVSLLSKGL--DSACRnpQVEHQIS 408

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
AP011177_0 409 EINEGVNTAYVQLRELLSTFRLTIK 433


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-15 3 0|=
-14 94 0|=======
-13 232 0|================
-12 260 48|===*==============
-11 388 398|==========================*
-10 803 924|====================================================== *
-9 829 1049|======================================================== *
-8 609 808|========================================= *
-7 429 508|============================= *
-6 265 287|================== *
-5 203 154|==========*===
-4 100 80|=====*=
-3 57 41|==*=
-2 30 21|=*
-1 17 10|*=
0 8 5|*
1 8 2|*
2 4 1|*
3 2 0|=
4 0 0|
5 3 0|=
> 6 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1081.4933
P(chi-square) = 0

Total sequences searched: 4346

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: