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 gonorrhoeae FA 1090  

Data for AE004969  

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: AE004969.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
-------- ----------- ----- ------- ---
AE004969_0099 CDS_124550-125800 59.7 6.8e-17 1
AE004969_0158 CDS_180045-178639 43.0 3.6e-12 1
AE004969_1714 CDS_1839566-1837446 38.2 8.5e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE004969_0099 1/1 193 258 .. 1 87 [] 59.7 6.8e-17
AE004969_0158 1/1 236 299 .. 1 87 [] 43.0 3.6e-12
AE004969_1714 1/1 483 555 .. 1 87 [] 38.2 8.5e-11

Alignments of top-scoring domains:
AE004969_0099: domain 1 of 1, from 193 to 258: score 59.7, E = 6.8e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+a+++HELRTP+ta+++ ae L + +l+++
AE004969_0 193 RRQRFVADAAHELRTPMTALSLQAERLNN---------MPLPPDA-- 228

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++++r +L+++lL l+r ++
AE004969_0 229 ----------GRQSAVLQQSIRRNKHLLEQLLALARSQSD 258

AE004969_0158: domain 1 of 1, from 236 to 299: score 43.0, E = 3.6e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +l ++sHE+R PL+ +++ + l+++ +++r
AE004969_0 236 KERYLLHHVSHEMRSPLARMQAIVGLIQA------------QPQKR- 269

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl++++ e+ r++ L +lL+lsr+e+
AE004969_0 270 ----------EQYLKRLEGELTRMDTLAGELLTLSRLETS 299

AE004969_1714: domain 1 of 1, from 483 to 555: score 38.2, E = 8.5e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e + l+HE+R+PLt I++ ae L +l ++l++++++
AE004969_1 483 AWGEVAKRLAHEIRNPLTPIQLSAERLAWKLG------GKLDDQDAQ 523

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ti++++ l ++++ ++ ++r+ +
AE004969_1 524 IL--------TRSTDTIIKQVAALKEMVEAFRNYARAPSL 555


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-15 1 0|=
-14 13 0|==
-13 61 1|*========
-12 131 45|======*============
-11 216 237|=============================== *
-10 372 440|====================================================== *
-9 387 454|======================================================== *
-8 317 340|============================================== *
-7 209 214|==============================*
-6 145 123|=================*===
-5 53 67|======== *
-4 39 36|=====*
-3 25 19|==*=
-2 10 10|=*
-1 10 5|*=
0 6 2|*
1 2 1|*
2 0 0|
> 3 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 196.3736
P(chi-square) = 4.203e-36

Total sequences searched: 2002

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: