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:
35 projects found  

1 accessions found for Syntrophobacter fumaroxidans MPOB  

Data for CP000478  

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: CP000478.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
-------- ----------- ----- ------- ---
CP000478_2612 CDS_3258795-3262535 98.7 6.7e-28 1
CP000478_2603 CDS_3246456-3248822 97.9 1.2e-27 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000478_2612 1/1 1042 1123 .. 1 94 [] 98.7 6.7e-28
CP000478_2603 1/1 584 665 .. 1 94 [] 97.9 1.2e-27

Alignments of top-scoring domains:
CP000478_2612: domain 1 of 1, from 1042 to 1123: score 98.7, E = 6.7e-28
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ I+ L++ ++++++d+ v L+E + R ++
CP000478_2 1042 EVHHRVKNNLQAIIYLIDSETDQTRDPQV-----YQFLKELEERART 1083

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAl++E+LY+s++l +++ +Yl+ L +nL q++g g+d +
CP000478_2 1084 MALVYEQLYQSDNLAHIEMVQYLSDLGSNLVQAFGAGRD-------I 1123

CP000478_2603: domain 1 of 1, from 584 to 665: score 97.9, E = 1.2e-27
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ I+ L+r +a++ +d+ L E + R ++
CP000478_2 584 EVHHRVKNNLQAIIYLIRSEADQCEDKRG-----SRFLGELEERART 625

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAl++E+LY+se+l ++++ +Yl+ L++nL q++g ++d +
CP000478_2 626 MALVYEQLYQSENLARIEMVQYLSDLAANLAQAFGADRD-------I 665


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-14 15 0|=
-13 50 25|=*=
-12 203 266|============ *
-11 966 743|===========================================*=============
-10 831 961|================================================= *
-9 740 812|============================================ *
-8 527 545|=============================== *
-7 259 323|================ *
-6 252 180|==========*====
-5 96 97|=====*
-4 50 51|==*
-3 42 26|=*=
-2 13 14|*
-1 10 7|*
0 2 3|*
1 5 1|*
> 2 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 181.5094
P(chi-square) = 2.09e-32

Total sequences searched: 4064

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: