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 Rickettsia rickettsii str. 'Sheila Smith'  

Data for CP000848  

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: CP000848.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
-------- ----------- ----- ------- ---
CP000848_0325 CDS_318077-319570 84.4 4.7e-24 1
CP000848_0768 CDS_731081-730683 75.3 1.7e-21 1
CP000848_0601 CDS_584787-583357 62.3 8.6e-18 1
CP000848_0939 CDS_881085-879286 50.7 1.7e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000848_0325 1/1 268 333 .. 1 87 [] 84.4 4.7e-24
CP000848_0768 1/1 1 69 [. 1 87 [] 75.3 1.7e-21
CP000848_0601 1/1 269 327 .. 1 87 [] 62.3 8.6e-18
CP000848_0939 1/1 371 441 .. 1 87 [] 50.7 1.7e-14

Alignments of top-scoring domains:
CP000848_0325: domain 1 of 1, from 268 to 333: score 84.4, E = 4.7e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+an+sHELRTPL+aI+g++e+L e++ee+
CP000848_0 268 SNTKFFANISHELRTPLNAIIGFSEILMS----------ERDEEKS- 303

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y++ i +++++ll++ind+Ldls++ a
CP000848_0 304 ----------KNYIKDINDAGKHLLSMINDILDLSKASAD 333

CP000848_0768: domain 1 of 1, from 1 to 69: score 75.3, E = 1.7e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k efl+n+ HE++TPLt+I+ + e+L +++ ++ +e+qr
CP000848_0 1 MKHEFLRNINHEINTPLTGIISLGETLWANY-------DKFNEDQR- 39

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r ++e+i +++ l++Lin++Ld+s++ +
CP000848_0 40 ----------RNAVEVIAKSSIKLNSLINNILDFSKLSSL 69

CP000848_0601: domain 1 of 1, from 269 to 327: score 62.3, E = 8.6e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ +la++sH+LRTPLt +++ +el++e +e+
CP000848_0 269 KKTTMLAMISHDLRTPLTRMKLQLELMEE-------------SEE-- 300

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e +++++ ++++in Ld+++ e+
CP000848_0 301 -------------IEGLKQDILTMQQMINSYLDFAKGEST 327

CP000848_0939: domain 1 of 1, from 371 to 441: score 50.7, E = 1.7e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a s+ + ++HE+++PLt I++++e Ll+ + s+e +
CP000848_0 371 AWSDVAKKVAHEIKNPLTPILLASERLLK----------KFSPEIK- 406

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e e++ yl+ i+r ++ + ++++++ ++r+ a+
CP000848_0 407 -----ERVEFENYLKMIIRHTNDIKNIVSEFVLFARLPAP 441


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-15 4 0|=
-14 30 0|========
-13 75 1|*==================
-12 150 30|=======*==============================
-11 186 159|=======================================*=======
-10 226 295|========================================================= *
-9 227 305|========================================================= *
-8 156 228|======================================= *
-7 108 144|=========================== *
-6 83 82|====================*
-5 42 45|===========*
-4 19 24|=====*
-3 14 12|==*=
-2 12 6|=*=
-1 5 3|*=
0 1 1|*
1 0 0|
2 0 0|
3 2 0|=
4 0 0|
> 5 5 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 541.4811
P(chi-square) = 0

Total sequences searched: 1345

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: