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 Croceibacter atlanticus HTCC2559  

Data for CP002046  

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_2.hmm [HisKA_2]
Sequence database: CP002046.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_2
Accession: PF07568.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP002046_1712 CDS_1895388-1897340 136.8 6.5e-39 1
CP002046_2225 CDS_2451110-2449236 136.3 9e-39 1
CP002046_1177 CDS_1329969-1332986 65.1 1.6e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP002046_1712 1/1 458 539 .. 1 94 [] 136.8 6.5e-39
CP002046_2225 1/1 432 513 .. 1 94 [] 136.3 9e-39
CP002046_1177 1/1 816 894 .. 1 94 [] 65.1 1.6e-18

Alignments of top-scoring domains:
CP002046_1712: domain 1 of 1, from 458 to 539: score 136.8, E = 6.5e-39
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQv+SSLL+LQ+ ++++ v +eaL + q RV+S
CP002046_1 458 EIHHRVKNNLQVVSSLLSLQSNNISSTVV-----REALLDGQARVRS 499

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAl+H++LY++++++++ f +Y+ L+ nL+ +y+v+++ +
CP002046_1 500 MALVHQRLYETDNYKDIVFNDYIGQLVQNLIATYRVDNK-------V 539

CP002046_2225: domain 1 of 1, from 432 to 513: score 136.3, E = 9e-39
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+ISSLL LQ+ ++de++ ++a+ E qnRV S
CP002046_2 432 EVHHRVKNNLQTISSLLGLQSNTVEDEAT-----KKAFLEGQNRVHS 473

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAliH++LY+s+ ++ + f++Y+e L++nL++s+g+ + +
CP002046_2 474 MALIHKRLYESDQFGEITFKDYVEQLCSNLISSFGKTDV-------T 513

CP002046_1177: domain 1 of 1, from 816 to 894: score 65.1, E = 1.6e-18
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HRVKNNLQ+ISSLL++Q+ +++++ ++ L + nR+l+
CP002046_1 816 ELNHRVKNNLQIISSLLNIQSATVDSQA------KDSLLIAKNRILA 856

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A i++e ++++++ ++e+ + ++q+ ++++ +
CP002046_1 857 IAYIQNEIQID-Q-KKINVKKFIEEFVPRILQLLADDGL-------M 894


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 4 0|=
-14 6 0|=
-13 39 16|=*==
-12 115 177|============ *
-11 584 494|=================================================*=========
-10 530 639|===================================================== *
-9 529 540|=====================================================*
-8 380 362|====================================*=
-7 180 215|================== *
-6 194 119|===========*========
-5 66 64|======*
-4 40 34|===*
-3 12 17|=*
-2 5 9|*
-1 5 4|*
0 3 2|*
1 6 1|*
> 2 4 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 143.6126
P(chi-square) = 2.996e-25

Total sequences searched: 2702

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: