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 UTI89  

Data for CP000243  

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: CP000243.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
-------- ----------- ----- ------- ---
CP000243_1390 CDS_1351866-1350070 79.6 4.5e-23 1
CP000243_2745 CDS_2735342-2737057 76.1 4.8e-22 1
CP000243_4141 CDS_4116156-4114654 63.7 2.2e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000243_1390 1/1 390 458 .. 1 70 [] 79.6 4.5e-23
CP000243_2745 1/1 366 433 .. 1 70 [] 76.1 4.8e-22
CP000243_4141 1/1 304 370 .. 1 70 [] 63.7 2.2e-18

Alignments of top-scoring domains:
CP000243_1390: domain 1 of 1, from 390 to 458: score 79.6, E = 4.5e-23
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
CP000243_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + ++R+ll+++R ++
CP000243_1 435 RNELNASWVQLRELLTTFRlQLTE 458

CP000243_2745: domain 1 of 1, from 366 to 433: score 76.1, E = 4.8e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r + ++d++ a+ ++
CP000243_2 366 ERATIARELHDSLAQVLSYLRIQLTLLKRSI--PEDNATAQSIMADF 410

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
CP000243_2 411 SQALNDAYRQLRELLTTFRLTLQ 433

CP000243_4141: domain 1 of 1, from 304 to 370: score 63.7, E = 2.2e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CP000243_4 304 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 347

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP000243_4 348 EQLSLGVYDAVRRLLGRLRPRQL 370


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-15 2 0|=
-14 56 0|====
-13 169 0|==========
-12 261 56|===*============
-11 338 464|==================== *
-10 840 1077|================================================== *
-9 950 1223|======================================================== *
-8 755 942|============================================= *
-7 614 592|==================================*==
-6 395 335|===================*====
-5 312 179|==========*========
-4 171 93|=====*=====
-3 80 48|==*==
-2 56 24|=*==
-1 28 12|*=
0 18 6|*=
1 7 3|*
2 4 1|*
3 3 0|=
4 0 0|
5 0 0|
6 1 0|=
7 1 0|=
8 0 0|
9 1 0|=
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1195.6584
P(chi-square) = 0

Total sequences searched: 5066

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: