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  

2 accessions found for Escherichia coli O55:H7 str. CB9615  

Data for CP001846  

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_3.hmm [HisKA_3]
Sequence database: CP001846.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP001846_1424 CDS_1540388-1538592 82.2 7.4e-24 1
CP001846_2864 CDS_3042926-3044626 76.1 4.7e-22 1
CP001846_0446 CDS_484988-483447 68.0 1.1e-19 1
CP001846_4267 CDS_4524764-4523259 63.7 2.2e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001846_1424 1/1 390 458 .. 1 70 [] 82.2 7.4e-24
CP001846_2864 1/1 361 428 .. 1 70 [] 76.1 4.7e-22
CP001846_0446 1/1 315 380 .. 1 70 [] 68.0 1.1e-19
CP001846_4267 1/1 305 371 .. 1 70 [] 63.7 2.2e-18

Alignments of top-scoring domains:
CP001846_1424: domain 1 of 1, from 390 to 458: score 82.2, E = 7.4e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
CP001846_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
CP001846_1 435 RNELNASWAQLRELLTTFRlQLTE 458

CP001846_2864: domain 1 of 1, from 361 to 428: score 76.1, E = 4.7e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r + ++d++ a+ ++
CP001846_2 361 ERATIARELHDSLAQVLSYLRIQLTLLKRSI--PEDNATAQSIMADF 405

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
CP001846_2 406 SQALNDAYRQLRELLTTFRLTLQ 428

CP001846_0446: domain 1 of 1, from 315 to 380: score 68.0, E = 1.1e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ +ARELHD++gQ+++ai +q++l++r ++dp++++ a+ +i
CP001846_0 315 TRKNLARELHDEIGQNITAIQIQSQLVKR----ARDPAQIQSAASQI 357

relarealaevRrllgdLRpaal<-*
elar+ +R+ll++LRp+al
CP001846_0 358 NELARRIHLSTRQLLRQLRPPAL 380

CP001846_4267: domain 1 of 1, from 305 to 371: score 63.7, E = 2.2e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CP001846_4 305 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 348

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP001846_4 349 EQLSLGVYDAVRRLLGRLRPRQL 371


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-16 1 0|=
-15 2 0|=
-14 45 0|===
-13 159 0|==========
-12 188 56|===*========
-11 329 459|==================== *
-10 828 1066|================================================= *
-9 954 1210|========================================================= *
-8 768 933|============================================== *
-7 612 586|==================================*=
-6 402 332|===================*====
-5 329 178|==========*=========
-4 175 92|=====*=====
-3 94 47|==*===
-2 57 24|=*==
-1 26 12|*=
0 22 6|*=
1 10 3|*
2 5 1|*
> 3 8 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 842.9199
P(chi-square) = 0

Total sequences searched: 5014

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: