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:
132 projects found  

1 accessions found for Rhodopseudomonas palustris HaA2  

Data for CP000250  

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/HWE_HK.hmm [HWE_HK]
Sequence database: CP000250.Gprot.fsa
per-sequence score cutoff: >= 60.0 [TC1]
per-domain score cutoff: >= 60.0 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HWE_HK
Accession: PF07536.4
Description: HWE 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
-------- ----------- ----- ------- ---
CP000250_1383 CDS_1576607-1578271 127.2 4.3e-43 1
CP000250_2154 CDS_2450594-2449803 122.3 2e-41 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000250_1383 1/1 351 429 .. 1 85 [] 127.2 4.3e-43
CP000250_2154 1/1 69 151 .. 1 85 [] 122.3 2e-41

Alignments of top-scoring domains:
CP000250_1383: domain 1 of 1, from 351 to 429: score 127.2, E = 4.3e-43
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
ELnHRVKN+LAv+QSi++ TlR+ ++d ++e ++gR++A+s++ +L
CP000250_1 351 ELNHRVKNILAVIQSIVTRTLRHGSDVDVARELLIGRIHAMSNVVSL 397

VpLtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
L++s+W+g++L+ L ea P+ a+Ri + GPd
CP000250_1 398 --LSESQWQGVMLKGLFEARAIPH----ADRIAVNGPD 429

CP000250_2154: domain 1 of 1, from 69 to 151: score 122.3, E = 2e-41
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
EL+HR+KN LA+V +i+ Q+lR+ ++ +++++a++gRL+AL+ aHdL
CP000250_2 69 ELHHRIKNMLATVLAIVSQSLRGVTEAEHARQAIEGRLMALGKAHDL 115

VpLtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
L +++W+ AdL+++++ ++ P++ ++a Ri ++GPd
CP000250_2 116 --LLQERWSNADLGQIVRGAIMPFDNPQASRIAIEGPD 151


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-17 1 0|=
-16 0 0|
-15 1 0|=
-14 11 0|=
-13 60 0|====
-12 316 0|====================
-11 410 38|==*=======================
-10 675 484|==============================*============
-9 912 1198|========================================================= *
-8 819 1244|==================================================== *
-7 572 835|==================================== *
-6 305 456|==================== *
-5 255 226|==============*=
-4 134 107|======*==
-3 82 49|===*==
-2 59 22|=*==
-1 28 10|*=
0 14 4|*
1 10 2|*
2 9 0|=
3 2 0|=
4 0 0|
5 2 0|=
6 0 0|
7 1 0|=
8 0 0|
> 9 5 -|=


% Statistical details of theoretical EVD fit:
mu = -7.9989
lambda = 0.7843
chi-sq statistic = 4150.7109
P(chi-square) = 0

Total sequences searched: 4683

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: