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:
35 projects found  

2 accessions found for Desulfovibrio vulgaris DP4  

Data for CP000528  

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: CP000528.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
-------- ----------- ----- ------- ---
CP000528_0015 CDS_25887-27971 38.1 2.3e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000528_0015 1/1 478 543 .. 1 70 [] 38.1 2.3e-12

Alignments of top-scoring domains:
CP000528_0015: domain 1 of 1, from 478 to 543: score 38.1, E = 2.3e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI+ ELHD++ Q L++++l ++ + ++l + +++d +
CP000528_0 478 ERRRISHELHDGLCQKLTGARLRASILSKRL--AGT--DDSTTMDSL 520

relarealaevRrllgdLRpaal<-*
++l++ + +++ r+ ++L p ++
CP000528_0 521 AALLDASTDDAYRTSRGLWPVEH 543


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 1 0|=
-12 4 1|*===
-11 5 13|===== *
-10 14 31|============== *
-9 19 36|=================== *
-8 21 27|===================== *
-7 23 17|================*======
-6 27 9|========*==================
-5 14 5|====*=========
-4 7 2|=*=====
-3 4 1|*===
-2 1 0|=
-1 4 0|====
0 2 0|==
1 0 0|
> 2 4 -|====


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 70.6379
P(chi-square) = 3.025e-13

Total sequences searched: 150

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: