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  

3 accessions found for Ralstonia eutropha H16  

Data for AY305378  

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: AY305378.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
-------- ----------- ----- ------- ---
AY305378_0022 CDS_19533-20933 45.3 1.8e-13 1
AY305378_0181 CDS_203989-204915 35.8 8.8e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AY305378_0022 1/1 210 291 .. 1 87 [] 45.3 1.8e-13
AY305378_0181 1/1 80 145 .. 1 87 [] 35.8 8.8e-11

Alignments of top-scoring domains:
AY305378_0022: domain 1 of 1, from 210 to 291: score 45.3, E = 1.8e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldk....v.lagdtels
++++++a+++HEL++P++ ++g++++L++++++ v l++++e +
AY305378_0 210 SLGRLVAGVAHELNNPISFVLGNVHALKRYSERlaayVaLLHSGEDG 256

eeqrlpeLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e e +++ +i++ ++ + +Li+ L+ ++ a
AY305378_0 257 AEA----------ERQRIRLRIDHILQDMPSLIEGTLEGAQRTAD 291

AY305378_0181: domain 1 of 1, from 80 to 145: score 35.8, E = 8.8e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + +l +l H+LR PL +I+++a+ L + +++e+
AY305378_0 80 SHNLLLGMLGHDLRSPLQTIQMTASYLAA---------LNAGEKV-- 115

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+ +++r++ ++++L++dl d+ r
AY305378_0 116 ----------SEAAARLIRSGASMNSLLDDLCDFNRTKLS 145


Histogram of all scores:
score obs exp (one = represents 2 sequences)
----- --- ---
-14 4 0|==
-13 2 0|=
-12 12 9|====*=
-11 49 49|========================*
-10 73 92|===================================== *
-9 72 95|==================================== *
-8 91 71|===================================*==========
-7 42 45|===================== *
-6 31 25|============*===
-5 17 14|======*==
-4 11 7|===*==
-3 11 4|=*====
-2 0 2|*
> -1 5 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 19.0472
P(chi-square) = 0.01461

Total sequences searched: 420

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: