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  

12 accessions found for Borrelia afzelii PKo  

Data for CP000395  

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: CP000395.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
-------- ----------- ----- ------- ---
CP000395_0425 CDS_437303-432822 79.8 5.9e-23 1
CP000395_0772 CDS_810400-809639 34.7 3.5e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000395_0425 1/1 763 828 .. 1 87 [] 79.8 5.9e-23
CP000395_0772 1/1 152 222 .. 1 87 [] 34.7 3.5e-10

Alignments of top-scoring domains:
CP000395_0425: domain 1 of 1, from 763 to 828: score 79.8, E = 5.9e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak+ f+an+sH++RTP+++I++++elL + t l++ q
CP000395_0 763 AKTIFIANVSHDIRTPINGIMAATELLDT---------TILTDVQ-- 798

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y++ i ++++ll+Li+d+L ls+i +
CP000395_0 799 ----------KDYVRMINYSSDSLLSLIDDILYLSQINVN 828

CP000395_0772: domain 1 of 1, from 152 to 222: score 34.7, E = 3.5e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++ ++n++HE+++PL aI +++lL++e + ++++
CP000395_0 152 SFTRHARNIAHEIKNPLGAIDINLQLLKKEI----KKQKIKNDKA-- 192

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y+++i++e++r ++++ ++L r
CP000395_0 193 ----------ENYFKVIKEEINRVDKIVTEFLLTVRPIKI 222


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-15 2 0|=
-14 10 0|====
-13 19 0|=======
-12 45 19|======*========
-11 87 101|============================= *
-10 138 188|============================================== *
-9 153 194|=================================================== *
-8 138 145|============================================== *
-7 114 91|==============================*=======
-6 70 52|=================*======
-5 37 28|=========*===
-4 22 15|====*===
-3 6 8|==*
-2 6 4|=*
-1 5 2|*=
0 0 1|*
1 0 0|
2 1 0|=
3 0 0|
4 0 0|
> 5 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 74.3116
P(chi-square) = 2.161e-12

Total sequences searched: 856

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: