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:
76 projects found  

4 accessions found for Cupriavidus metallidurans CH34  

Data for CP000354  

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: CP000354.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
-------- ----------- ----- ------- ---
CP000354_0169 CDS_161102-159711 66.1 1.2e-19 1
CP000354_0036 CDS_36140-34710 64.0 5e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000354_0169 1/1 238 304 .. 1 87 [] 66.1 1.2e-19
CP000354_0036 1/1 235 301 .. 1 87 [] 64.0 5e-19

Alignments of top-scoring domains:
CP000354_0169: domain 1 of 1, from 238 to 304: score 66.1, E = 1.2e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++sef ++l+HELRTP+t +++ +++ l +++++ +
CP000354_0 238 RLSEFSSDLAHELRTPITNLMTQTHVVLS---------QPRDAAK-- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
yr+ l + +e++rl r+++d+L l+++e+g
CP000354_0 274 ---------YRDVLTSNAEELQRLGRMVSDMLYLAKMEHG 304

CP000354_0036: domain 1 of 1, from 235 to 301: score 64.0, E = 5e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s+f a+l+H+LRTPL+ ++g+ae++l +++ ++
CP000354_0 235 KLSRFSADLAHDLRTPLNNLIGHAEVALS---------RDRTGPE-- 270

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y ++e l e +rl r+i+ +L l+r+++
CP000354_0 271 ---------YVALVEESLVEYQRLARMIDAMLFLARADSA 301


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-14 1 0|=
-13 6 0|======
-12 16 5|====*===========
-11 25 28|========================= *
-10 39 52|======================================= *
-9 53 54|=====================================================*
-8 28 40|============================ *
-7 31 25|========================*======
-6 20 14|=============*======
-5 7 8|=======*
-4 4 4|===*
-3 4 2|=*==
> -2 7 -|=======


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 31.2673
P(chi-square) = 5.55e-05

Total sequences searched: 241

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: