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  

3 accessions found for Ruegeria sp. TM1040  

Data for CP000375  

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: CP000375.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
-------- ----------- ----- ------- ---
CP000375_0028 CDS_47667-45670 43.3 1.6e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000375_0028 1/1 438 509 .. 1 87 [] 43.3 1.6e-13

Alignments of top-scoring domains:
CP000375_0028: domain 1 of 1, from 438 to 509: score 43.3, E = 1.6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f+a ++H+LR PL+ I ++e + e+ld +++ +q+
CP000375_0 438 RLESFAAIAAHDLRSPLSRIAPLVEFIIEDLD-----EAKIQVPQQ- 478

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++eyl + ++a+ ++ L++dlL+++ ++++
CP000375_0 479 ---------VEEYLGLLTQQADAMSTLVEDLLTYASAGTQ 509


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-12 2 2|=*
-11 12 12|===========*
-10 18 23|================== *
-9 19 24|=================== *
-8 16 18|================ *
-7 18 11|==========*=======
-6 8 6|=====*==
-5 5 3|==*==
-4 2 1|*=
-3 2 1|*=
-2 2 0|==
> -1 2 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 6.7413
P(chi-square) = 0.2406

Total sequences searched: 106

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: