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:
14 projects found  

2 accessions found for Thermomicrobium roseum DSM 5159  

Data for CP001275  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP001275.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
-------- ----------- ----- ------- ---
CP001275_1543 CDS_1592306-1591041 83.9 9e-24 1
CP001275_1223 CDS_1263600-1265033 75.3 2.5e-21 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001275_1543 1/1 197 264 .. 1 87 [] 83.9 9e-24
CP001275_1223 1/1 248 315 .. 1 87 [] 75.3 2.5e-21

Alignments of top-scoring domains:
CP001275_1543: domain 1 of 1, from 197 to 264: score 83.9, E = 9e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+an+sH+LRTPL+a+++++e+Ll+ ++l ++ ++
CP001275_1 197 IRRDFVANVSHDLRTPLAALQALVETLLD---------GALADPAVA 234

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l++i e+e++ rL+n+lL+l+++e+g
CP001275_1 235 ----------EDFLRRIAVEVEHMTRLVNQLLELTKAESG 264

CP001275_1223: domain 1 of 1, from 248 to 315: score 75.3, E = 2.5e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +lan++HELRTPLt+I+gya++L+e+l + +e
CP001275_1 248 GQRNLLANVAHELRTPLTVIQGYAHALREGL-------LTEAPER-- 285

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l++i +e+er rL+ +lL l+r+e+g
CP001275_1 286 ----------EEALQVIASESERAARLLTQLLHLTRLETG 315


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 1 0|=
-14 11 0|==
-13 45 1|*=======
-12 72 43|=======*====
-11 156 227|========================== *
-10 279 422|=============================================== *
-9 326 436|======================================================= *
-8 316 326|===================================================== *
-7 259 205|==================================*=========
-6 177 118|===================*==========
-5 111 65|==========*========
-4 65 34|=====*=====
-3 40 18|==*====
-2 20 9|=*==
-1 15 5|*==
0 8 2|*=
1 5 1|*
2 8 0|==
3 5 0|=
> 4 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 275.2151
P(chi-square) = 0

Total sequences searched: 1922

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: