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  

1 accessions found for Nitrobacter winogradskyi Nb-255  

Data for CP000115  

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: CP000115.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
-------- ----------- ----- ------- ---
CP000115_1749 CDS_1925655-1926743 105.1 7.9e-30 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000115_1749 1/1 159 244 .. 1 94 [] 105.1 7.9e-30

Alignments of top-scoring domains:
CP000115_1749: domain 1 of 1, from 159 to 244: score 105.1, E = 7.9e-30
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HR+ N+LQ+I+SLL LQa ++ +e++ ++aL + +RV++
CP000115_1 159 EVNHRIGNSLQIIASLLHLQANSSPEEDI-----KAALTNAMGRVAA 200

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++LY+s dl++v + +Yle L+e+L++s ++ + L+ l
CP000115_1 201 VAQVHRRLYTSHDLKSVLLNQYLEALLEDLRRSTEGNRMSR-LD--L 244


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-15 2 0|=
-14 10 0|=
-13 59 19|=*===
-12 227 205|==============*==
-11 818 570|========================================*==================
-10 694 738|================================================== *
-9 521 624|====================================== *
-8 338 418|========================= *
-7 178 248|============= *
-6 167 138|=========*==
-5 48 74|==== *
-4 27 39|==*
-3 16 20|=*
-2 6 10|*
-1 4 5|*
0 4 2|*
1 0 1|*
> 2 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 266.7540
P(chi-square) = 0

Total sequences searched: 3122

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: