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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 Rhodopseudomonas palustris BisB18  

Data for CP000301  

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: CP000301.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
-------- ----------- ----- ------- ---
CP000301_3737 CDS_4207624-4208757 51.2 1e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000301_3737 1/1 176 242 .. 1 70 [] 51.2 1e-14

Alignments of top-scoring domains:
CP000301_3737: domain 1 of 1, from 176 to 242: score 51.2, E = 1e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RI RELHD +gQs +++ l+l+ ++r + p+ ea+e +d
CP000301_3 176 ERRRITRELHDNIGQSVTLLLLGLGSLAR----CTVPGcEAAEKVDG 218

irelarealaevRrllgdLRpaal<-*
++++ar+ ++ rl++++Rpa l
CP000301_3 219 LKDIARRMSMDLHRLAWEIRPAML 242


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-15 1 0|=
-14 8 0|=
-13 43 0|===
-12 105 54|===*===
-11 176 447|=========== *
-10 630 1039|======================================== *
-9 890 1179|======================================================== *
-8 711 909|============================================= *
-7 690 571|===================================*========
-6 500 323|====================*===========
-5 466 173|==========*===================
-4 230 90|=====*=========
-3 165 46|==*========
-2 103 23|=*=====
-1 69 12|*====
0 37 6|*==
1 14 3|*
2 15 1|*
3 13 0|=
4 5 0|=
5 7 0|=
6 1 0|=
7 3 0|=
8 0 0|
9 1 0|=
10 0 0|
11 0 0|
> 12 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2300.5449
P(chi-square) = 0

Total sequences searched: 4886

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: