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 CP000638  

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: CP000638.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
-------- ----------- ----- ------- ---
CP000638_0373 CDS_447102-448373 48.5 2.7e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000638_0373 1/1 202 265 .. 1 87 [] 48.5 2.7e-14

Alignments of top-scoring domains:
CP000638_0373: domain 1 of 1, from 202 to 265: score 48.5, E = 2.7e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++ ++sHELR PL+ +++ + +L + ++ +
CP000638_0 202 AQQRLFHDVSHELRSPLSRLQAVLGMLDK------------NPGRI- 235

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++ re+ rl++L++++L+l+ri ++
CP000638_0 236 ----------DMIASRMGREVMRLDALVDEILTLARISSP 265


Histogram of all scores:
score obs exp (one = represents 2 sequences)
----- --- ---
-13 2 0|=
-12 11 12|=====*
-11 39 62|==================== *
-10 107 116|====================================================== *
-9 112 120|======================================================== *
-8 106 89|============================================*========
-7 56 56|===========================*
-6 46 32|===============*=======
-5 24 17|========*===
-4 12 9|====*=
-3 4 5|==*
-2 4 2|*=
-1 1 1|*
0 3 0|==
1 0 0|
> 2 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 21.4173
P(chi-square) = 0.006118

Total sequences searched: 529

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: