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 Nitrobacter winogradskyi Nb-255  

Data for CP000115  

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: CP000115.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
-------- ----------- ----- ------- ---
CP000115_2759 CDS_3014964-3013306 123.4 5.5e-42 1
CP000115_0558 CDS_629112-628099 74.5 2.5e-25 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000115_2759 1/1 347 425 .. 1 85 [] 123.4 5.5e-42
CP000115_0558 1/1 147 223 .. 1 85 [] 74.5 2.5e-25

Alignments of top-scoring domains:
CP000115_2759: domain 1 of 1, from 347 to 425: score 123.4, E = 5.5e-42
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
ELnHRVKN+LAv+QSi++ TlR+ +++ ++e ++gR++A+s++ +L
CP000115_2 347 ELNHRVKNILAVIQSIVTRTLRHGSDIEVARELLIGRIHAMSNVVSL 393

VpLtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
L++s+W+g+ Lr L ea P+ +Ri ++GPd
CP000115_2 394 --LSESQWQGVKLRGLFEARAIPH----VDRIAIHGPD 425

CP000115_0558: domain 1 of 1, from 147 to 223: score 74.5, E = 2.5e-25
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
EL HR KN LA+V+++ Q l+ +e++++++g + AL+ + dL
CP000115_0 147 ELRHRLKNKLATVHAVTKQALH---NYPEARTKIDGCINALATTDDL 190

VpLtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
+ r++ +g+d+ eLl++eL+Pyg + R+tl G++
CP000115_0 191 --IARTDDRGCDILELLRSELGPYG---HVRFTLNGDS 223


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-15 1 0|=
-14 5 0|=
-13 54 0|=====
-12 243 0|=======================
-11 341 25|==*============================
-10 469 322|=============================*=============
-9 495 799|============================================= *
-8 603 829|======================================================= *
-7 341 557|=============================== *
-6 213 304|==================== *
-5 144 150|=============*
-4 99 71|======*==
-3 53 33|==*==
-2 22 15|=*
-1 15 6|*=
0 10 3|*
1 2 1|*
2 6 0|=
3 1 0|=
4 2 0|=
> 5 3 -|=


% Statistical details of theoretical EVD fit:
mu = -7.9989
lambda = 0.7843
chi-sq statistic = 4291.0483
P(chi-square) = 0

Total sequences searched: 3122

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: