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:
19 projects found  

3 accessions found for Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'  

Data for CP000778  

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: CP000778.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
-------- ----------- ----- ------- ---
CP000778_0198 CDS_207449-209110 74.7 5.2e-22 1
CP000778_0147 CDS_148883-150877 72.3 2.5e-21 1
CP000778_0008 CDS_10639-8315 52.7 8.7e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000778_0198 1/1 180 245 .. 1 87 [] 74.7 5.2e-22
CP000778_0147 1/1 333 399 .. 1 87 [] 72.3 2.5e-21
CP000778_0008 1/1 546 614 .. 1 87 [] 52.7 8.7e-16

Alignments of top-scoring domains:
CP000778_0198: domain 1 of 1, from 180 to 245: score 74.7, E = 5.2e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak++f+a++sH++R+PL++++g++e++++ ++ +e
CP000778_0 180 AKRDFIAAISHDIRNPLNSLLGMSEMIKD---------QPITEVV-- 215

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y++ i++++e +l+L+nd +lsr+e++
CP000778_0 216 ----------HSYVDHIKNAGEVILNLVNDTIELSRLEEN 245

CP000778_0147: domain 1 of 1, from 333 to 399: score 72.3, E = 2.5e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks f++ + HELRTPL+a++g++++L + d++l+e
CP000778_0 333 SKSVFFSKITHELRTPLHAVIGFSQILGK--------DPNLPEHL-- 369

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++++ + +ll +ind+Ldls+ieag
CP000778_0 370 ----------KGFVNSLYENGVHLLGMINDILDLSKIEAG 399

CP000778_0008: domain 1 of 1, from 546 to 614: score 52.7, E = 8.7e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ef++n+sHELR P+t Irgy+e + ++ + + + e++
CP000778_0 546 LQHEFISNVSHELRSPMTNIRGYLEFFKSDS------SLPFNKEHI- 585

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+le+i++ a+rl+ Li++lL l+ ++
CP000778_0 586 -----------NMLEVIDKNAKRLSFLIENLLKLTTSREK 614


Histogram of all scores:
score obs exp (one = represents 2 sequences)
----- --- ---
-13 3 0|==
-12 10 6|==*==
-11 20 31|========== *
-10 61 58|============================*==
-9 56 60|============================ *
-8 50 45|======================*==
-7 29 28|=============*=
-6 14 16|=======*
-5 8 8|===*
-4 9 4|=*===
-3 0 2|*
-2 1 1|*
-1 1 0|=
> 0 4 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 8.1497
P(chi-square) = 0.3196

Total sequences searched: 266

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: