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  

4 accessions found for Agrobacterium tumefaciens str. C58  

Data for AE007870  

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: AE007870.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
-------- ----------- ----- ------- ---
AE007870_0726 CDS_794024-793035 149.2 5.4e-51 1
AE007870_0725 CDS_791035-792774 60.0 1.2e-20 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE007870_0726 1/1 139 221 .. 1 85 [] 149.2 5.4e-51
AE007870_0725 1/1 382 463 .. 1 85 [] 60.0 1.2e-20

Alignments of top-scoring domains:
AE007870_0726: domain 1 of 1, from 139 to 221: score 149.2, E = 5.4e-51
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
E++HR+KN+LA++QS+a QT+R++ ++d+f+++F+gRL+AL++++dL
AE007870_0 139 EVSHRSKNLLAIIQSLAGQTARFSLTKDDFLRKFRGRLHALAQSQDL 185

VpLtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
+t+s+W+gA+++eLl+++++ y +e++ i+++G++
AE007870_0 186 --ITDSDWRGARIFELLRQQFDLYVPEYPNLIHIEGEN 221

AE007870_0725: domain 1 of 1, from 382 to 463: score 60.0, E = 1.2e-20
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
EL HR+KN+L++VQ+++rQ R s++ef ++ RL+ L+ +
AE007870_0 382 ELVHRSKNILTLVQAMIRQLGRENKSIPEFQKEVDHRLRGLG----M 424

V.p.LtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
+ L + +W+g +r+L+e L+ +g+ eR++l+G+d
AE007870_0 425 SiRaLAEVQWQGLPIRKLIETHLDVFGTV-VERFRLEGDD 463


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 2 0|=
-13 19 0|===
-12 110 0|================
-11 169 14|=*=======================
-10 289 189|==========================*===============
-9 360 469|==================================================== *
-8 341 487|================================================= *
-7 224 327|================================ *
-6 130 178|=================== *
-5 79 88|============*
-4 48 41|=====*=
-3 30 19|==*==
-2 9 8|=*
-1 6 4|*
0 7 1|*
1 6 0|=
2 1 0|=
> 3 4 -|=


% Statistical details of theoretical EVD fit:
mu = -7.9989
lambda = 0.7843
chi-sq statistic = 1757.5293
P(chi-square) = 0

Total sequences searched: 1834

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: