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  

6 accessions found for Dinoroseobacter shibae DFL 12  

Data for CP000831  

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: CP000831.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
-------- ----------- ----- ------- ---
CP000831_0177 CDS_171951-173417 47.3 2.3e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000831_0177 1/1 256 314 .. 1 87 [] 47.3 2.3e-14

Alignments of top-scoring domains:
CP000831_0177: domain 1 of 1, from 256 to 314: score 47.3, E = 2.3e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++la+l H+LR PLta+r ael e
CP000831_0 256 DRTRMLAALGHDLRSPLTAMRVRAELVDE------------------ 284

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e ++++ ++e ++++++ L+++r +g
CP000831_0 285 ----------EETRDSLIASVEEMQSMVEATLTFARGLTG 314


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 4 0|====
-12 5 4|===*=
-11 16 23|================ *
-10 31 42|=============================== *
-9 40 44|======================================== *
-8 33 33|================================*
-7 28 20|===================*========
-6 10 12|========== *
-5 15 6|=====*=========
-4 3 3|==*
-3 5 1|*====
-2 1 0|=
> -1 4 -|====


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 19.3564
P(chi-square) = 0.003602

Total sequences searched: 195

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: