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:
264 projects found  

3 accessions found for Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67  

Data for AE017220  

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: AE017220.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
-------- ----------- ----- ------- ---
AE017220_1760 CDS_1877262-1879058 74.3 1.4e-21 1
AE017220_3709 CDS_3930260-3928719 65.1 7.6e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE017220_1760 1/1 390 458 .. 1 70 [] 74.3 1.4e-21
AE017220_3709 1/1 317 383 .. 1 70 [] 65.1 7.6e-19

Alignments of top-scoring domains:
AE017220_1760: domain 1 of 1, from 390 to 458: score 74.3, E = 1.4e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d pe re l +i
AE017220_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DVLPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
AE017220_1 435 RNELNCSWAQLRELLTTFRlQLTE 458

AE017220_3709: domain 1 of 1, from 317 to 383: score 65.1, E = 7.6e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
AE017220_3 317 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNGGVKQSGQLI 360

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
AE017220_3 361 EQLSLGVYDAVRRLLGRLRPRQL 383


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-15 1 0|=
-14 49 0|====
-13 151 0|===========
-12 212 49|===*============
-11 296 407|====================== *
-10 746 945|====================================================== *
-9 798 1073|========================================================= *
-8 635 827|============================================== *
-7 514 520|=====================================*
-6 400 294|====================*========
-5 298 157|===========*==========
-4 136 82|=====*====
-3 81 42|==*===
-2 56 21|=*==
-1 28 11|*=
0 19 5|*=
1 10 2|*
2 4 1|*
3 4 0|=
4 1 0|=
5 3 0|=
> 6 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1063.5953
P(chi-square) = 0

Total sequences searched: 4445

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: