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  

2 accessions found for Neisseria gonorrhoeae NCCP11945  

Data for CP001050  

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: CP001050.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
-------- ----------- ----- ------- ---
CP001050_0157 CDS_124187-125506 59.7 9e-17 1
CP001050_0230 CDS_180825-179419 43.0 4.8e-12 1
CP001050_2402 CDS_1999430-2001550 38.2 1.1e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001050_0157 1/1 216 281 .. 1 87 [] 59.7 9e-17
CP001050_0230 1/1 236 299 .. 1 87 [] 43.0 4.8e-12
CP001050_2402 1/1 483 555 .. 1 87 [] 38.2 1.1e-10

Alignments of top-scoring domains:
CP001050_0157: domain 1 of 1, from 216 to 281: score 59.7, E = 9e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+a+++HELRTP+ta+++ ae L + +l+++
CP001050_0 216 RRQRFVADAAHELRTPMTALSLQAERLNN---------MPLPPDA-- 251

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++++r +L+++lL l+r ++
CP001050_0 252 ----------GRQSAVLQQSIRRNKHLLEQLLALARSQSD 281

CP001050_0230: domain 1 of 1, from 236 to 299: score 43.0, E = 4.8e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +l ++sHE+R PL+ +++ + l+++ +++r
CP001050_0 236 KERYLLHHVSHEMRSPLARMQAIVGLIQA------------QPQKR- 269

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl++++ e+ r++ L +lL+lsr+e+
CP001050_0 270 ----------EQYLKRLEGELTRMDTLAGELLTLSRLETS 299

CP001050_2402: domain 1 of 1, from 483 to 555: score 38.2, E = 1.1e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e + l+HE+R+PLt I++ ae L +l ++l++++++
CP001050_2 483 AWGEVAKRLAHEIRNPLTPIQLSAERLAWKLG------GKLDDQDAQ 523

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ti++++ l ++++ ++ ++r+ +
CP001050_2 524 IL--------TRSTDTIIKQVAALKEMVEAFRNYARAPSL 555


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 4 0|=
-14 63 0|========
-13 161 1|*====================
-12 271 60|=======*==========================
-11 352 315|=======================================*====
-10 461 585|==========================================================*
-9 432 604|====================================================== *
-8 355 452|============================================= *
-7 238 285|============================== *
-6 161 164|====================*
-5 61 90|======== *
-4 44 48|=====*
-3 28 25|===*
-2 8 13|=*
-1 10 6|*=
0 6 3|*
1 2 1|*
2 0 0|
> 3 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 848.1772
P(chi-square) = 0

Total sequences searched: 2662

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: