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  

7 accessions found for Rhizobium etli CFN 42  

Data for CP000134  

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: CP000134.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
-------- ----------- ----- ------- ---
CP000134_0042 CDS_45179-47689 55.2 1.2e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000134_0042 1/1 467 533 .. 1 87 [] 55.2 1.2e-16

Alignments of top-scoring domains:
CP000134_0042: domain 1 of 1, from 467 to 533: score 55.2, E = 1.2e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++ +++HE+++ L aI+g+ae++++ + +s+
CP000134_0 467 AVGTLAGGIAHEFNNILGAIIGHAEMAQN--------SLRRSSVA-- 503

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+y+e i+++++r + +i+++L+lsr ++
CP000134_0 504 ----------RKYIEHIISSGDRARLIIDQILTLSRKRER 533


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 3 0|===
-12 11 3|==*========
-11 18 20|================== *
-10 24 38|======================== *
-9 30 39|============================== *
-8 33 29|============================*====
-7 14 18|============== *
-6 14 10|=========*====
-5 9 5|====*====
-4 6 3|==*===
-3 3 1|*==
-2 1 0|=
-1 3 0|===
0 0 0|
1 4 0|====
> 2 2 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 12.3168
P(chi-square) = 0.05526

Total sequences searched: 182

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: