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:
19 projects found  

1 accessions found for Borrelia hermsii DAH  

Data for CP000048  

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_1.hmm [HisKA]
Sequence database: CP000048.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000048_0402 CDS_438316-433844 76.1 6.5e-22 1
CP000048_0735 CDS_818404-817244 41.0 5.6e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000048_0402 1/1 764 829 .. 1 87 [] 76.1 6.5e-22
CP000048_0735 1/1 152 222 .. 1 87 [] 41.0 5.6e-12

Alignments of top-scoring domains:
CP000048_0402: domain 1 of 1, from 764 to 829: score 76.1, E = 6.5e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak+ fla++sH++RTP+++I++++elL++ t+l q
CP000048_0 764 AKTIFLASMSHDIRTPINGIIAATELLEN---------TDLLGIQ-- 799

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ey++ i ++ +ll+Li+++L +s+i+ +
CP000048_0 800 ----------KEYVQMINYSSISLLSLIDEILYISKIDMN 829

CP000048_0735: domain 1 of 1, from 152 to 222: score 41.0, E = 5.6e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++ ++n++HE+++PL aI +++lL++eld + + +s +
CP000048_0 152 AFTRHARNIAHEIKNPLGAIDINLQLLKKELD----RQGIKSIKA-- 192

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+++i++e++r+++ + d+L r
CP000048_0 193 ----------NNYFKIIKEEINRMDKTVTDFLLTVRPIKI 222


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-14 2 0|=
-13 9 0|===
-12 46 18|=====*==========
-11 79 97|=========================== *
-10 116 180|======================================= *
-9 139 185|=============================================== *
-8 153 139|==============================================*====
-7 112 87|============================*=========
-6 62 50|================*====
-5 38 27|========*====
-4 31 14|====*======
-3 15 7|==*==
-2 9 4|=*=
-1 3 2|*
> 0 5 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 116.5097
P(chi-square) = 6.913e-21

Total sequences searched: 819

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: