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  

3 accessions found for Rhizobium sp. NGR234  

Data for CP000874  

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: CP000874.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
-------- ----------- ----- ------- ---
CP000874_1182 CDS_1172032-1170272 52.9 1.5e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000874_1182 1/1 380 446 .. 1 70 [] 52.9 1.5e-15

Alignments of top-scoring domains:
CP000874_1182: domain 1 of 1, from 380 to 446: score 52.9, E = 1.5e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RI R++HD+v Q+L++ +lql+++r +++p+e++++l +i
CP000874_1 380 ERIRIGRDIHDGVLQTLAGTALQLQALR-SS--KAEPAEIDRRLMAI 423

relarealaevRrllgdLRpaal<-*
++++ e ++++R+l+++L p+ +
CP000874_1 424 QAMLFEEQRDLRALIRALEPGSD 446


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-14 6 0|=
-13 15 0|==
-12 45 26|===*==
-11 108 213|============== *
-10 290 495|===================================== *
-9 435 562|======================================================= *
-8 356 433|============================================= *
-7 282 272|=================================*==
-6 247 154|===================*===========
-5 230 82|==========*==================
-4 125 43|=====*==========
-3 68 22|==*======
-2 44 11|=*====
-1 32 5|*===
0 17 2|*==
1 8 1|*
2 5 0|=
3 6 0|=
4 3 0|=
5 0 0|
6 1 0|=
7 0 0|
> 8 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 974.8040
P(chi-square) = 0

Total sequences searched: 2328

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: