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:
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2 accessions found for Shewanella oneidensis MR-1  

Data for AE014299  

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: AE014299.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
-------- ----------- ----- ------- ---
AE014299_0350 CDS_360253-359174 83.8 2.4e-24 1
AE014299_3868 CDS_4117886-4119643 70.6 1.9e-20 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE014299_0350 1/1 171 239 .. 1 70 [] 83.8 2.4e-24
AE014299_3868 1/1 351 420 .. 1 70 [] 70.6 1.9e-20

Alignments of top-scoring domains:
AE014299_0350: domain 1 of 1, from 171 to 239: score 83.8, E = 2.4e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD g+sLs+i+l++ela++ll +k + a ++l+e
AE014299_0 171 ERERIARDLHDIMGHSLSSIALKAELAEKLL--AKQEYqLATTQLQE 215

irelarealaevRrllgdLRpaal<-*
+ ++are+l+++R+++ d+++ +l
AE014299_0 216 LGQIARESLSQIRHTVCDYKHKGL 239

AE014299_3868: domain 1 of 1, from 351 to 420: score 70.6, E = 1.9e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q++l+r+ l d +++++ +l+
AE014299_3 351 ERGVIARELHDSLGQVLSFLKIQISLLRKNL--DHSCRspAVEVQLT 395

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
AE014299_3 396 EINEGVSTAYVQLRELLSTFRLTIK 420


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-15 4 0|=
-14 113 0|========
-13 213 0|==============
-12 274 51|===*==============
-11 330 424|===================== *
-10 853 984|====================================================== *
-9 888 1118|======================================================== *
-8 640 861|======================================== *
-7 468 541|============================== *
-6 309 306|===================*
-5 266 164|==========*======
-4 106 85|=====*=
-3 70 44|==*==
-2 35 22|=*=
-1 33 11|*==
0 8 5|*
1 6 2|*
2 6 1|*
> 3 8 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1238.9403
P(chi-square) = 0

Total sequences searched: 4630

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: