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 CP000637  

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_1.hmm [HisKA]
Sequence database: CP000637.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000637_0143 CDS_186821-184278 42.3 6e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000637_0143 1/1 470 536 .. 1 87 [] 42.3 6e-13

Alignments of top-scoring domains:
CP000637_0143: domain 1 of 1, from 470 to 536: score 42.3, E = 6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++ +++HE+++ L a++gyae++ + r+
CP000637_0 470 AVGTLAGGIAHEFNNILGAVLGYAEMAHN-------------VLRRR 503

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + r+y++ i++e++r + ++n++L lsr +
CP000637_0 504 THA-------RDYIDHIISEGNRARLIVNQILALSRKRDR 536


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 3 0|===
-12 5 4|===*=
-11 17 24|================= *
-10 32 45|================================ *
-9 47 46|=============================================*=
-8 41 34|=================================*=======
-7 24 21|====================*===
-6 10 12|========== *
-5 9 6|=====*===
-4 7 3|==*====
-3 1 1|*
-2 2 1|*=
-1 3 0|===
0 0 0|
1 1 0|=
2 1 0|=
> 3 2 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 8.4317
P(chi-square) = 0.2082

Total sequences searched: 205

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: