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 Rhodopseudomonas palustris TIE-1  

Data for CP001096  

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_3.hmm [HisKA_3]
Sequence database: CP001096.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP001096_3366 CDS_3668806-3669942 61.0 1.4e-17 1
CP001096_1642 CDS_1798642-1796330 56.3 3.5e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001096_3366 1/1 176 242 .. 1 70 [] 61.0 1.4e-17
CP001096_1642 1/1 573 639 .. 1 70 [] 56.3 3.5e-16

Alignments of top-scoring domains:
CP001096_3366: domain 1 of 1, from 176 to 242: score 61.0, E = 1.4e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARELHD +gQ+ +++ +l++++r + p+ ++e ++ +
CP001096_3 176 ERKRIARELHDNLGQMVTLVQFGLDALARGT---PSPANLAEKVASL 219

relarealaevRrllgdLRpaal<-*
++++++ + + r++++ Rp+al
CP001096_3 220 KHIVNDLSTSLHRVAWEVRPTAL 242

CP001096_1642: domain 1 of 1, from 573 to 639: score 56.3, E = 3.5e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RIARELHD++gQsL+++ l+ + + ++ + d++e++++++e+
CP001096_1 573 ERLRIARELHDTLGQSLTLLQLGFDKLG-QA--AGDNPELQQRIAEM 616

relarealaevRrllgdLRpaal<-*
+ l + +++ rl++++Rp+al
CP001096_1 617 KSLTADVGRQANRLAWEIRPTAL 639


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-14 10 0|=
-13 82 0|======
-12 135 58|===*=====
-11 227 480|=============== *
-10 593 1115|====================================== *
-9 926 1266|==========================================================*
-8 818 976|==================================================== *
-7 722 613|======================================*=======
-6 539 347|=====================*============
-5 516 186|===========*=====================
-4 254 97|======*=========
-3 157 50|===*======
-2 98 25|=*=====
-1 71 13|*====
0 36 6|*==
1 27 3|*=
2 17 1|*=
3 7 0|=
4 4 0|=
5 3 0|=
6 0 0|
7 1 0|=
> 8 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2379.1299
P(chi-square) = 0

Total sequences searched: 5246

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: