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 CP000833  

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: CP000833.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
-------- ----------- ----- ------- ---
CP000833_0118 CDS_108530-109996 47.3 1.6e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000833_0118 1/1 256 314 .. 1 87 [] 47.3 1.6e-14

Alignments of top-scoring domains:
CP000833_0118: domain 1 of 1, from 256 to 314: score 47.3, E = 1.6e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++la+l H+LR PLta+r ael e
CP000833_0 256 DRTRMLAALGHDLRSPLTAMRVRAELVDE------------------ 284

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e ++++ ++e ++++++ L+++r +g
CP000833_0 285 ----------EETRDSLIASVEEMQSMVEATLTFARGLTG 314


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 2 0|==
-12 3 3|==*
-11 14 16|============== *
-10 17 29|================= *
-9 29 30|=============================*
-8 20 22|==================== *
-7 25 14|=============*===========
-6 8 8|=======*
-5 8 4|===*====
-4 2 2|=*
-3 1 1|*
-2 3 0|===
-1 1 0|=
> 0 2 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 13.8252
P(chi-square) = 0.01676

Total sequences searched: 135

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: