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  

2 accessions found for Rickettsia africae ESF-5  

Data for CP001612  

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: CP001612.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP001612_0247 CDS_317195-318688 80.7 3.9e-23 1
CP001612_0474 CDS_581843-580404 62.3 6.6e-18 1
CP001612_0729 CDS_897741-895942 50.7 1.3e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001612_0247 1/1 268 333 .. 1 87 [] 80.7 3.9e-23
CP001612_0474 1/1 272 330 .. 1 87 [] 62.3 6.6e-18
CP001612_0729 1/1 371 441 .. 1 87 [] 50.7 1.3e-14

Alignments of top-scoring domains:
CP001612_0247: domain 1 of 1, from 268 to 333: score 80.7, E = 3.9e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+ n+sHELRTPL+aI+g++e+L + e+
CP001612_0 268 SNTKFFTNISHELRTPLNAIIGFSEILMS---------ERDAEKS-- 303

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y++ i +++++ll++ind+Ldls++ a
CP001612_0 304 ----------KNYIKDINDAGKHLLSMINDILDLSKASAD 333

CP001612_0474: domain 1 of 1, from 272 to 330: score 62.3, E = 6.6e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ +la++sH+LRTPLt +++ +el++e +e+
CP001612_0 272 KKTTMLAMISHDLRTPLTRMKLQLELMEE-------------SEE-- 303

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e +++++ ++++in Ld+++ e+
CP001612_0 304 -------------IEGLKQDILTMQQMINSYLDFAKGEST 330

CP001612_0729: domain 1 of 1, from 371 to 441: score 50.7, E = 1.3e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a s+ + ++HE+++PLt I++++e Ll+ + s+e +
CP001612_0 371 AWSDVAKKVAHEIKNPLTPILLASERLLK----------KFSPEIK- 406

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e e++ yl+ i+r ++ + ++++++ ++r+ a+
CP001612_0 407 -----ERVEFENYLKMIIRHTNDIKNIVSEFVLFARLPAP 441


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 8 0|==
-13 22 0|======
-12 57 23|=====*=========
-11 142 122|==============================*=====
-10 181 226|============================================== *
-9 206 233|==================================================== *
-8 139 175|=================================== *
-7 100 110|========================= *
-6 79 63|===============*====
-5 39 34|========*=
-4 19 18|====*
-3 15 9|==*=
-2 10 5|=*=
-1 5 2|*=
0 1 1|*
1 1 0|=
2 1 0|=
3 0 0|
4 1 0|=
> 5 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 83.1862
P(chi-square) = 1.188e-13

Total sequences searched: 1030

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: