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  

7 accessions found for Agrobacterium vitis S4  

Data for CP000636  

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_1.hmm [HisKA]
Sequence database: CP000636.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000636_0058 CDS_73929-70492 88.0 5.8e-26 1
CP000636_0055 CDS_69096-67960 74.5 4e-22 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000636_0058 1/1 475 543 .. 1 87 [] 88.0 5.8e-26
CP000636_0055 1/1 152 217 .. 1 87 [] 74.5 4e-22

Alignments of top-scoring domains:
CP000636_0058: domain 1 of 1, from 475 to 543: score 88.0, E = 5.8e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks+flan+sHELRTPL++ + +a+lL +++d ++l++eq
CP000636_0 475 YKSDFLANMSHELRTPLNSSLILAKLLADNAD------ENLTAEQ-- 513

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +ti+++++ ll+Lind+Ldls+ieag
CP000636_0 514 ----------VKFAQTIQSSGNDLLNLINDILDLSKIEAG 543

CP000636_0055: domain 1 of 1, from 152 to 217: score 74.5, E = 4e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k++fla l+HELR+PL+a++g ++lL++ +eeq+
CP000636_0 152 RKDQFLAVLAHELRNPLAALQGGLSLLKK----------VNGEEQT- 187

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++++ +l++L++dlLd sri +g
CP000636_0 188 ----------AKIGKLMQEQITHLSHLVDDLLDVSRITQG 217


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-12 5 4|===*=
-11 22 21|====================*=
-10 30 39|============================== *
-9 36 40|==================================== *
-8 27 30|=========================== *
-7 21 19|==================*==
-6 15 10|=========*=====
-5 8 6|=====*==
-4 5 3|==*==
-3 2 1|*=
-2 2 0|==
-1 1 0|=
> 0 4 -|====


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 5.3293
P(chi-square) = 0.5023

Total sequences searched: 178

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: