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:
39 projects found  

1 accessions found for Prochlorococcus marinus str. MIT 9312  

Data for CP000111  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000111.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000111_1438 CDS_1352052-1354121 82.8 1.8e-23 1
CP000111_0717 CDS_667004-668164 61.6 1.9e-17 2
CP000111_0271 CDS_259288-260424 27.3 9.7e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000111_1438 1/1 415 483 .. 1 87 [] 82.8 1.8e-23
CP000111_0717 2/2 161 225 .. 1 87 [] 59.2 8.4e-17
CP000111_0271 1/1 131 194 .. 1 87 [] 27.3 9.7e-08

Alignments of top-scoring domains:
CP000111_1438: domain 1 of 1, from 415 to 483: score 82.8, E = 1.8e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f++n+sHELRTPL I+ y+e+L + ++d+ +eeq
CP000111_1 415 AQNRFISNVSHELRTPLFNIKSYVETLHD------LKDQLSNEEQ-- 453

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+l ++ +e++rl rL+nd+Ldlsr+e+g
CP000111_1 454 ----------LEFLGIANSETDRLTRLVNDVLDLSRLESG 483

CP000111_0717: domain 2 of 2, from 161 to 225: score 59.2, E = 8.4e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++ ++sHEL+TPLt++++ e L+ s ++
CP000111_0 161 RQNQLINDVSHELKTPLTSLILIGERLES----------VVSKKD-- 195

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +++++++e++rl+++ ++ L+ls++e++
CP000111_0 196 ----------RYLVKRLKKESKRLRKMAEETLELSKLESN 225

CP000111_0271: domain 1 of 1, from 131 to 194: score 27.3, E = 9.7e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + + H+LR+PL+a+r+ya+lL ++l + ++
CP000111_0 131 YLKNQVNVIIHQLRNPLAALRTYAKLLIKKL-------GSDDDSI-- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e++e+++ e +++++ + + +++ +
CP000111_0 169 -----------EIVERMIIEQKQINQYMDSF---AKLNTS 194


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 10 0|==
-13 51 1|*========
-12 127 41|======*===============
-11 242 214|===================================*=====
-10 341 397|========================================================= *
-9 324 410|====================================================== *
-8 235 307|======================================== *
-7 192 193|================================*
-6 138 111|==================*====
-5 67 61|==========*=
-4 33 32|=====*
-3 13 17|==*
-2 13 9|=*=
-1 4 4|*
0 6 2|*
1 5 1|*
2 2 0|=
3 0 0|
> 4 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 234.1710
P(chi-square) = 2.122e-314

Total sequences searched: 1809

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: