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:
106 projects found  

1 accessions found for Thermobifida fusca YX  

Data for CP000088  

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_2.hmm [HisKA_2]
Sequence database: CP000088.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]
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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
-------- ----------- ----- ------- ---
CP000088_0553 CDS_630975-632540 121.7 1.5e-34 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000088_0553 1/1 309 394 .. 1 94 [] 121.7 1.5e-34

Alignments of top-scoring domains:
CP000088_0553: domain 1 of 1, from 309 to 394: score 121.7, E = 1.5e-34
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar+ +++e ++aL+E+++RV S
CP000088_0 309 EIHHRVKNNLQTVAALLRLQARRLQNPEG-----RAALEEAVRRVGS 350

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++HE+L+ + d +tvdf++ ++++e + + ++ + L+
CP000088_0 351 IAIVHEMLSHTPD-ETVDFDDIADRVIEMAAEVSSTDKAVVGLR--R 394


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-15 3 0|=
-14 16 0|==
-13 72 19|=*===
-12 194 204|=============*
-11 836 568|=====================================*==================
-10 677 736|============================================== *
-9 498 621|================================== *
-8 349 417|======================== *
-7 180 247|============ *
-6 160 137|=========*=
-5 64 74|====*
-4 27 39|==*
-3 15 20|=*
-2 10 10|*
-1 6 5|*
0 0 2|*
> 1 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 337.1718
P(chi-square) = 0

Total sequences searched: 3110

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: