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:
76 projects found  

1 accessions found for Neisseria meningitidis FAM18  

Data for AM421808  

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: AM421808.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
-------- ----------- ----- ------- ---
AM421808_0408 CDS_448715-449965 51.6 1.4e-14 1
AM421808_1401 CDS_1547734-1549251 44.9 1e-12 1
AM421808_0507 CDS_569921-568515 44.8 1.2e-12 1
AM421808_0099 CDS_109421-111538 36.9 2e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM421808_0408 1/1 193 258 .. 1 87 [] 51.6 1.4e-14
AM421808_1401 1/1 312 381 .. 1 87 [] 44.9 1e-12
AM421808_0507 1/1 236 299 .. 1 87 [] 44.8 1.2e-12
AM421808_0099 1/1 482 554 .. 1 87 [] 36.9 2e-10

Alignments of top-scoring domains:
AM421808_0408: domain 1 of 1, from 193 to 258: score 51.6, E = 1.4e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+a+++HELRTP+ta+++ ae L + l+++
AM421808_0 193 HRQRFVADAAHELRTPMTALSLQAERLNN---------MSLPPDA-- 228

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +++++++r +L+++lL l+r ++
AM421808_0 229 ----------ARQPAVLQQSIRRNKHLLEQLLALARSQSD 258

AM421808_1401: domain 1 of 1, from 312 to 381: score 44.9, E = 1e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++anl+HE+R+P++aIr + +lL+e+++ +++++
AM421808_1 312 ALGQLTANLAHEIRNPMSAIRHANDLLRENME-----AGAADPFN-- 351

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++i+ + r++++++d+ l +
AM421808_1 352 ----------AKLCKIIDGNVCRIDKMLEDISSLNKRNKT 381

AM421808_0507: domain 1 of 1, from 236 to 299: score 44.8, E = 1.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +l ++sHE+R PL+ +++ + l+++ ++ +q
AM421808_0 236 KERHLLHHVSHEMRSPLARMQAIVGLIQA-----------QPQKQ-- 269

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl++++ e+ r++ L +lL+lsr+e+
AM421808_0 270 ----------EQYLKRLEGELTRMDTLAGELLTLSRLETS 299

AM421808_0099: domain 1 of 1, from 482 to 554: score 36.9, E = 2e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e + l+HE+R+PLt I++ ae L +l ++l+e++++
AM421808_0 482 AWGEVAKRLAHEIRNPLTPIQLSAERLAWKLG------GKLDEQDAQ 522

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ti +++ l ++++ ++ ++r +
AM421808_0 523 IL--------TRSTDTIVKQVAALKEMVEAFRNYARSPSL 554


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 8 0|==
-13 27 1|*===
-12 100 43|======*========
-11 225 227|================================*
-10 362 421|==================================================== *
-9 379 435|======================================================= *
-8 300 325|=========================================== *
-7 200 205|=============================*
-6 147 118|================*====
-5 66 64|=========*
-4 44 34|====*==
-3 31 18|==*==
-2 7 9|=*
-1 8 5|*=
0 2 2|*
1 2 1|*
2 3 0|=
3 0 0|
4 1 0|=
5 0 0|
> 6 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 110.7301
P(chi-square) = 1.309e-18

Total sequences searched: 1975

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: