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  

4 accessions found for Rhizobium etli CIAT 652  

Data for CP001075  

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: CP001075.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
-------- ----------- ----- ------- ---
CP001075_0208 CDS_227730-225022 78.8 5.1e-23 1
CP001075_0024 CDS_32537-34471 35.2 1.2e-10 1
CP001075_0168 CDS_189502-186731 28.8 7.7e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001075_0208 1/1 669 737 .. 1 87 [] 78.8 5.1e-23
CP001075_0024 1/1 281 347 .. 1 87 [] 35.2 1.2e-10
CP001075_0168 1/1 409 475 .. 1 87 [] 28.8 7.7e-09

Alignments of top-scoring domains:
CP001075_0208: domain 1 of 1, from 669 to 737: score 78.8, E = 5.1e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s +l ++sH+L+TPL+aI+g+a +L++++ + ++ee+r
CP001075_0 669 LRSALLTSISHDLKTPLAAILGAAGTLRDYF-------ASMPEEDR- 707

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l+t+ +e+erl+r i +lLd+++ie+g
CP001075_0 708 ----------ADLLSTVVDESERLNRFIANLLDMTKIESG 737

CP001075_0024: domain 1 of 1, from 281 to 347: score 35.2, E = 1.2e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ L a++g +e+L++ + +++
CP001075_0 281 AIGQLTGGIAHDFNNLLMAVLGSLEILKK--------RMPQDLSL-- 317

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + + a+r +L +++L +sr ++
CP001075_0 318 ----------TSLVDNAMQGAQRGAALTQRMLAFSRRQEL 347

CP001075_0168: domain 1 of 1, from 409 to 475: score 28.8, E = 7.7e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++++ +++H++++ L +I+g+++lL + + + +
CP001075_0 409 SIGKLTGGVAHDFNNLLQVISGNLQLLGK---------DVAENGRA- 445

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e + +l ++er +rL ++lL + r +
CP001075_0 446 ----------KERIANALVAVERGSRLASQLLAFGRRQPL 475


Histogram of all scores:
score obs exp (one = represents 2 sequences)
----- --- ---
-13 3 0|==
-12 14 8|===*===
-11 32 45|================ *
-10 72 83|==================================== *
-9 59 86|============================== *
-8 75 64|===============================*======
-7 55 40|===================*========
-6 25 23|===========*=
-5 19 12|=====*====
-4 12 6|==*===
-3 6 3|=*=
-2 2 1|*
-1 1 0|=
0 1 0|=
1 0 0|
2 1 0|=
> 3 4 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 30.7650
P(chi-square) = 0.0001547

Total sequences searched: 383

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: