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 CP000137  

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: CP000137.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
-------- ----------- ----- ------- ---
CP000137_0263 CDS_297010-294302 78.2 9e-23 1
CP000137_0024 CDS_31787-33724 35.2 1.4e-10 1
CP000137_0175 CDS_202207-204315 31.4 1.7e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000137_0263 1/1 669 737 .. 1 87 [] 78.2 9e-23
CP000137_0024 1/1 281 347 .. 1 87 [] 35.2 1.4e-10
CP000137_0175 1/1 472 542 .. 1 87 [] 31.4 1.7e-09

Alignments of top-scoring domains:
CP000137_0263: domain 1 of 1, from 669 to 737: score 78.2, E = 9e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s +l ++sH+L+TPL+aI+g+a +L++++ + ++ee+r
CP000137_0 669 LRSALLTSISHDLKTPLAAILGAAGTLRDYF-------ASMPEEDR- 707

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l+t+ +e+erl+r i +lLd+++ie+g
CP000137_0 708 ----------SDLLSTVVDESERLNRFIANLLDMTKIESG 737

CP000137_0024: domain 1 of 1, from 281 to 347: score 35.2, E = 1.4e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ L a++g +e+L++ + +++
CP000137_0 281 AIGQLTGGIAHDFNNLLMAVLGSLEILKK--------RMPQDLSL-- 317

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + + a+r +L +++L +sr ++
CP000137_0 318 ----------TSLVDNAMQGAQRGAALTQRMLAFSRRQEL 347

CP000137_0175: domain 1 of 1, from 472 to 542: score 31.4, E = 1.7e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e++ +++HE ++PL aI ++a ++l++l + ++ + eq+
CP000137_0 472 ATGELAVSIAHEVNQPLMAIVTNAGTCLRWL-----QPGHTDIEQA- 512

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r + e+i ++++r ++i ++ +++
CP000137_0 513 ----------RLAAERIVKDGHRAGDIIASIRAMAQKSPA 542


Histogram of all scores:
score obs exp (one = represents 2 sequences)
----- --- ---
-12 12 10|====*=
-11 32 53|================ *
-10 91 100|============================================== *
-9 95 103|================================================ *
-8 88 77|======================================*=====
-7 56 48|=======================*====
-6 43 28|=============*========
-5 20 15|=======*==
-4 5 8|===*
-3 6 4|=*=
-2 1 2|*
> -1 6 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 23.8064
P(chi-square) = 0.002469

Total sequences searched: 459

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: