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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  

7 accessions found for Rhodobacter sphaeroides 2.4.1  

Data for CP000143  

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_2.hmm [HisKA_2]
Sequence database: CP000143.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]
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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
-------- ----------- ----- ------- ---
CP000143_2882 CDS_3040972-3039191 96.4 2.3e-27 1
CP000143_1752 CDS_1862717-1861665 93.1 1.9e-26 1
CP000143_2249 CDS_2382164-2384014 82.1 2.6e-23 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000143_2882 1/1 376 460 .. 1 94 [] 96.4 2.3e-27
CP000143_1752 1/1 155 238 .. 1 94 [] 93.1 1.9e-26
CP000143_2249 1/1 425 510 .. 1 94 [] 82.1 2.6e-23

Alignments of top-scoring domains:
CP000143_2882: domain 1 of 1, from 376 to 460: score 96.4, E = 2.3e-27
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+I+S+ ++Q r+++ +e+ + +++ q+RV+S
CP000143_2 376 EVHHRVKNNLQLIASIMNMQMRQARTPEA-----KGLMKGLQDRVMS 417

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
A+iH+ LY++ +l ++ +e l+ ++++ +++++ + +i +
CP000143_2 418 LATIHRGLYQTTGLTDIRADELLSDIVRQVVNLATGPGRRIA----V 460

CP000143_1752: domain 1 of 1, from 155 to 238: score 93.1, E = 1.9e-26
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRV N+L+++ SLLrLQa+ + +eev + aL E+q+R+ +
CP000143_1 155 EVHHRVANSLAMVQSLLRLQAQASGSEEV-----KTALAEAQGRIGA 196

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +H+ LY + + +v+++ Yl+ ++++ + g +klD+
CP000143_1 197 VAAVHRSLYLGNEGRQVELGTYLRTMLADFTATLPPG-----VKLDV 238

CP000143_2249: domain 1 of 1, from 425 to 510: score 82.1, E = 2.6e-23
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+ISSL+ LQ r +++++ +e + q+ + +
CP000143_2 425 EVHHRVKNNLQLISSLVALQRRGVQEPAM-----RERMARIQGQIGA 466

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +++ L++ + +tvdf++++ L++ + + g+++ ++++l
CP000143_2 467 IAKTYDLLHQFGASETVDFGPFVPALCAAIEGAEGGRAR---IEAEL 510


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-15 4 0|=
-14 10 0|=
-13 49 18|=*==
-12 180 198|============*
-11 897 552|==================================*======================
-10 671 715|========================================== *
-9 433 604|============================ *
-8 344 405|====================== *
-7 150 240|========== *
-6 157 134|========*=
-5 45 72|=== *
-4 34 38|==*
-3 15 20|=*
-2 9 10|*
-1 9 5|*
0 3 2|*
1 3 1|*
2 2 0|=
3 1 0|=
4 1 0|=
> 5 5 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 377.0804
P(chi-square) = 0

Total sequences searched: 3022

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: 22K


Acknowledgements:

This research is funded by:

Developed by: