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:
41 projects found  

1 accessions found for Chlorobium chlorochromatii CaD3  

Data for CP000108  

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: CP000108.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
-------- ----------- ----- ------- ---
CP000108_0430 CDS_510426-512213 95.6 4.7e-27 1
CP000108_0433 CDS_515913-514411 57.1 3.8e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000108_0430 1/1 366 433 .. 1 87 [] 95.6 4.7e-27
CP000108_0433 1/1 276 342 .. 1 87 [] 57.1 3.8e-16

Alignments of top-scoring domains:
CP000108_0430: domain 1 of 1, from 366 to 433: score 95.6, E = 4.7e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+a++sHELRTPLt+I+gy+e+Lle ++l ++ ++
CP000108_0 366 IRRDFVASVSHELRTPLTVISGYTETLLE---------GALHDPAHA 403

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l+til+++++l +L+nd+Ldlsrie+g
CP000108_0 404 ----------VPFLKTILQASQQLTALVNDVLDLSRIESG 433

CP000108_0433: domain 1 of 1, from 276 to 342: score 57.1, E = 3.8e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +f+a++sHEL+TPL++++g++e+L + ++ e+
CP000108_0 276 REKQFTADASHELKTPLSVVKGTLEVLVR---------KPREREH-- 311

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+ ++ l+e++r+ +i++lL l+r e+
CP000108_0 312 ---------YETRIHFCLQELNRMALMIDQLLMLARYESS 342


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 4 0|=
-13 24 1|*===
-12 78 45|=======*=====
-11 230 237|=======================================*
-10 336 440|======================================================== *
-9 349 454|==========================================================*
-8 340 340|========================================================*
-7 259 214|===================================*========
-6 154 123|====================*=====
-5 89 67|===========*===
-4 61 36|=====*=====
-3 41 19|===*===
-2 13 10|=*=
-1 10 5|*=
0 5 2|*
1 5 1|*
2 0 0|
> 3 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 142.6639
P(chi-square) = 4.674e-25

Total sequences searched: 2002

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: