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:
132 projects found  

6 accessions found for Gluconobacter oxydans 621H  

Data for CP000009  

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_2.hmm [HisKA_2]
Sequence database: CP000009.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
CP000009_2340 CDS_2617623-2619380 108.6 6.4e-31 1
CP000009_1583 CDS_1799619-1797385 107.5 1.3e-30 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000009_2340 1/1 360 449 .. 1 94 [] 108.6 6.4e-31
CP000009_1583 1/1 534 612 .. 1 84 [. 107.5 1.3e-30

Alignments of top-scoring domains:
CP000009_2340: domain 1 of 1, from 360 to 449: score 108.6, E = 6.4e-31
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQv++SLL+LQa ++++ e+ +e +r ++RV++
CP000009_2 360 EIHHRVKNNLQVVASLLNLQASRIRSHEA-----REEFRLVRDRVRA 401

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsd.gisLklDl<-
A++H++LY +l+ +d+ ++le+L++ L+++ g ++++i+L lD+
CP000009_2 402 LATLHRYLYSESGLSALDVQSFLEELCSILLSANGMNAQtRIRLQLDI 449

*

CP000009_2 - -

CP000009_1583: domain 1 of 1, from 534 to 612: score 107.5, E = 1.3e-30
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV N+LQ+++S L LQar++++ee+ aL E+q+R+++
CP000009_1 534 EVNHRVQNSLQMVASFLKLQARSASNEET-----TTALTEAQHRIAA 575

mAliHEeLYksedldtvdfseYlekLtenLfqsygvg<-*
+ l+H++LY+ e ++ vd++ Yle+L e+L++s g++
CP000009_1 576 IGLVHRRLYRDEHFGIVDLGRYLEELMEELCSSLGGD 612


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-15 3 0|=
-14 13 0|==
-13 36 15|=*==
-12 145 159|==============*
-11 612 444|========================================*===============
-10 591 575|====================================================*=
-9 406 486|===================================== *
-8 290 326|=========================== *
-7 128 193|============ *
-6 126 107|=========*==
-5 37 58|==== *
-4 17 30|==*
-3 9 16|=*
-2 5 8|*
-1 8 4|*
0 1 2|*
1 1 1|*
> 2 4 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 153.9079
P(chi-square) = 2.368e-27

Total sequences searched: 2432

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: