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:
132 projects found  

1 accessions found for Granulibacter bethesdensis CGDNIH1  

Data for CP000394  

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_3.hmm [HisKA_3]
Sequence database: CP000394.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000394_0354 CDS_402864-404198 35.3 2.4e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000394_0354 1/1 229 299 .. 1 70 [] 35.3 2.4e-10

Alignments of top-scoring domains:
CP000394_0354: domain 1 of 1, from 229 to 299: score 35.3, E = 2.4e-10
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ER+ +ARELHD g +L++++ l +++ + ++ + ++++ e++
CP000394_0 229 ERRELARELHDDFGATLFGARAELATLLLEA--RRQGDagqPIIERA 273

deirelarealaevRrllgdLRpaal<-*
+++++l+++ +++ r+l +LRp+al
CP000394_0 274 HAVARLIDQIQQQNGRILERLRPMAL 299


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 9 0|==
-13 35 0|=====
-12 58 27|===*=====
-11 85 223|============= *
-10 273 518|======================================= *
-9 380 588|======================================================= *
-8 372 453|====================================================== *
-7 313 285|========================================*====
-6 303 161|======================*=====================
-5 248 86|============*=======================
-4 132 45|======*============
-3 90 23|===*=========
-2 64 11|=*========
-1 25 6|*===
0 17 3|*==
1 11 1|*=
2 9 0|==
3 3 0|=
4 4 0|=
> 5 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1399.9286
P(chi-square) = 0

Total sequences searched: 2437

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: