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  

3 accessions found for Borrelia garinii PBi  

Data for CP000013  

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: CP000013.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
-------- ----------- ----- ------- ---
CP000013_0414 CDS_435747-431257 82.3 1.1e-23 1
CP000013_0751 CDS_808797-807649 33.3 8.8e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000013_0414 1/1 763 828 .. 1 87 [] 82.3 1.1e-23
CP000013_0751 1/1 152 222 .. 1 87 [] 33.3 8.8e-10

Alignments of top-scoring domains:
CP000013_0414: domain 1 of 1, from 763 to 828: score 82.3, E = 1.1e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak+ f+an+sH++RTP+++I++++elL + t l++ q
CP000013_0 763 AKTIFIANISHDIRTPINGIMAATELLDT---------TILTDVQ-- 798

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y++ i ++++ll+Li+d+L ls+i+ +
CP000013_0 799 ----------KDYVRMINYSSDSLLSLIDDILYLSQIDVN 828

CP000013_0751: domain 1 of 1, from 152 to 222: score 33.3, E = 8.8e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++ ++n++HE+++PL aI +++lL++e k ++ ++
CP000013_0 152 SFTRHARNIAHEIKNPLGAIDINLQLLKKEIKK-----QKIKNGKA- 192

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y+++i++e++r ++++ ++L r
CP000013_0 193 ----------ENYFKVIKEEINRVDKIVTEFLLTVRPIKI 222


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-14 9 0|===
-13 11 0|====
-12 42 19|======*=======
-11 92 98|=============================== *
-10 128 182|=========================================== *
-9 157 188|===================================================== *
-8 143 141|==============================================*=
-7 105 89|=============================*=====
-6 57 51|================*==
-5 30 28|=========*
-4 24 15|====*===
-3 16 7|==*===
-2 7 4|=*=
-1 3 2|*
0 3 1|*
1 1 0|=
> 2 4 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 67.1593
P(chi-square) = 5.475e-11

Total sequences searched: 832

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: