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:
41 projects found  

1 accessions found for Cytophaga hutchinsonii ATCC 33406  

Data for CP000383  

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: CP000383.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
-------- ----------- ----- ------- ---
CP000383_1294 CDS_1528673-1530250 66.4 2.7e-19 1
CP000383_0105 CDS_129776-127878 59.7 2.4e-17 1
CP000383_1243 CDS_1476087-1477844 53.6 1.6e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000383_1294 1/1 324 388 .. 1 70 [] 66.4 2.7e-19
CP000383_0105 1/1 440 499 .. 1 70 [] 59.7 2.4e-17
CP000383_1243 1/1 386 449 .. 1 70 [] 53.6 1.6e-15

Alignments of top-scoring domains:
CP000383_1294: domain 1 of 1, from 324 to 388: score 66.4, E = 2.7e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ IARELHD++gQ+L+a+k +++ + + + +++++ i
CP000383_1 324 ERRKIARELHDGLGQMLTALKFNIQGMK-----TPSTKKEQAHVEGI 365

relarealaevRrllgdLRpaal<-*
++l++e++ evRr+ dL p++l
CP000383_1 366 KQLIQETILEVRRISFDLMPSVL 388

CP000383_0105: domain 1 of 1, from 440 to 499: score 59.7, E = 2.4e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+ARELHD++gQ+L+ai+l +++++ d++ + + +ei
CP000383_0 440 ERERLARELHDGLGQMLTAIRLRIGMLQ-----DEH--KSK---KEI 476

relarealaevRrllgdLRpaal<-*
+++++++++e+Rr+ + pa+l
CP000383_0 477 QQIIDDTIKELRRISNNVVPAVL 499

CP000383_1243: domain 1 of 1, from 386 to 449: score 53.6, E = 1.6e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIA E+HD++gQ+L+++++++e+++ k+ + ++e+
CP000383_1 386 ERTRIAAEIHDGIGQMLTSLRMKMEMIE-----NKNT-HLGSDITEL 426

relarealaevRrllgdLRpaal<-*
+l++ ++e+ + +dL p++l
CP000383_1 427 TDLLQMVINETKKICSDLLPSVL 449


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-15 1 0|=
-14 51 0|====
-13 199 0|==============
-12 297 42|==*=================
-11 362 346|=======================*=
-10 850 804|=====================================================*===
-9 834 914|======================================================== *
-8 501 704|================================== *
-7 314 442|===================== *
-6 146 250|========== *
-5 121 134|========*
-4 48 70|====*
-3 32 36|==*
-2 15 18|=*
-1 7 9|*
0 2 4|*
1 0 2|*
2 1 1|*
3 0 0|
> 4 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1694.9088
P(chi-square) = 0

Total sequences searched: 3785

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: