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:
264 projects found  

1 accessions found for Francisella novicida U112  

Data for CP000439  

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: CP000439.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
-------- ----------- ----- ------- ---
CP000439_1661 CDS_1841282-1838601 59.6 6.2e-17 1
CP000439_1565 CDS_1726414-1727841 57.0 3.4e-16 1
CP000439_1410 CDS_1541523-1542560 32.7 2.7e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000439_1661 1/1 664 732 .. 1 87 [] 59.6 6.2e-17
CP000439_1565 1/1 249 314 .. 1 87 [] 57.0 3.4e-16
CP000439_1410 1/1 131 192 .. 1 87 [] 32.7 2.7e-09

Alignments of top-scoring domains:
CP000439_1661: domain 1 of 1, from 664 to 732: score 59.6, E = 6.2e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +l+++sH+L+TPL++I+g+++ ++ + + ++eq+
CP000439_1 664 LQKSMLSSVSHDLKTPLASIMGALSSIKSYK-------DSFNPEQQ- 702

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+l+ +l e++rl++ i+++ ++ + ++g
CP000439_1 703 ----------VEMLDLALTESKRLDSYIDNIIQMLKVDSG 732

CP000439_1565: domain 1 of 1, from 249 to 314: score 57.0, E = 3.4e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +f +++HEL+TP++++++++e++l+ + +++
CP000439_1 249 REKRFSGDAAHELKTPIAGVKTLVEIALA----------SDDIDEI- 284

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ le+i+++++r +++i++lL+lsri+ +
CP000439_1 285 ----------KQKLERIKSSTNRYSHIIDQLLTLSRIQPN 314

CP000439_1410: domain 1 of 1, from 131 to 192: score 32.7, E = 2.7e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
n++H+L+TPLt ++ +e L+ t+ + +
CP000439_1 131 DIKSVSNNIAHDLKTPLTRLKNKLEDLEQ---------TNPTKDS-- 166

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l e ++ll++ n lL l r+e+g
CP000439_1 167 --------------SDALAECNQLLDIFNSLLRLNRLEHG 192


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 3 0|=
-13 27 1|*====
-12 79 39|======*=======
-11 205 203|=================================*=
-10 328 378|======================================================= *
-9 342 390|========================================================= *
-8 263 292|============================================ *
-7 197 184|==============================*==
-6 124 106|=================*===
-5 70 58|=========*==
-4 30 31|=====*
-3 18 16|==*
-2 8 8|=*
-1 10 4|*=
0 5 2|*
1 5 1|*
2 1 0|=
> 3 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 62.2794
P(chi-square) = 1.339e-09

Total sequences searched: 1719

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: