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 Comamonas testosteroni CNB-1  

Data for CP001220  

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: CP001220.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
-------- ----------- ----- ------- ---
CP001220_3894 CDS_4369176-4370525 56.4 3e-16 1
CP001220_0472 CDS_516137-515055 54.5 1.1e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001220_3894 1/1 250 317 .. 1 70 [] 56.4 3e-16
CP001220_0472 1/1 161 226 .. 1 70 [] 54.5 1.1e-15

Alignments of top-scoring domains:
CP001220_3894: domain 1 of 1, from 250 to 317: score 56.4, E = 3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa++ARELHD++g L+a+kl + +++ + d+ + + e+++ +
CP001220_3 250 ERAHLARELHDELGSLLTAAKLDVARLKSKI--DTSTPDVSERITHL 294

relarealaevRrllgdLRpaal<-*
e+++ ++a Rr++ dLRp+ l
CP001220_3 295 IETLNSGIALKRRIIEDLRPSSL 317

CP001220_0472: domain 1 of 1, from 161 to 226: score 54.5, E = 1.1e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ERa I+RE+HD +g sL+a+k l ++ + pe++ re+++
CP001220_0 161 ERANISREIHDDIGGSLTAVKFDLAWLI-----RNSPEgKQREHARS 202

irelarealaevRrllgdLRpaal<-*
+ e++++al r+ ++LRp++l
CP001220_0 203 ALEMLEHALGASQRIMQNLRPPVL 226


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-14 14 0|=
-13 56 0|====
-12 110 53|===*====
-11 175 440|============= *
-10 607 1021|============================================ *
-9 820 1159|==========================================================*
-8 748 893|====================================================== *
-7 677 562|========================================*========
-6 520 318|======================*===============
-5 422 170|============*==================
-4 242 89|======*===========
-3 165 45|===*========
-2 88 23|=*=====
-1 60 11|*====
0 34 6|*==
1 27 3|*=
2 10 1|*
3 6 0|=
4 7 0|=
5 3 0|=
6 3 0|=
7 0 0|
8 1 0|=
9 0 0|
> 10 8 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2106.7554
P(chi-square) = 0

Total sequences searched: 4803

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: