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:
76 projects found  

2 accessions found for Verminephrobacter eiseniae EF01-2  

Data for CP000542  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: CP000542.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_3
Accession: PF07730.2
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
-------- ----------- ----- ------- ---
CP000542_0031 CDS_44071-42665 55.4 5.8e-16 1
CP000542_2134 CDS_2472559-2473716 49.0 4.4e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000542_0031 1/1 268 335 .. 1 70 [] 55.4 5.8e-16
CP000542_2134 1/1 179 244 .. 1 70 [] 49.0 4.4e-14

Alignments of top-scoring domains:
CP000542_0031: domain 1 of 1, from 268 to 335: score 55.4, E = 5.8e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER ++ARELHD++g L+a+kl + +++ l d++++ ++e+l+ +
CP000542_0 268 ERGHLARELHDELGALLTAAKLDVARLKSKL--DAAAPDIAERLAHL 312

relarealaevRrllgdLRpaal<-*
++++ ++a Rr++ dLRp+ l
CP000542_0 313 TQTLNSGIALKRRIIEDLRPSSL 335

CP000542_2134: domain 1 of 1, from 179 to 244: score 49.0, E = 4.4e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARE+HD +g +L+a+++ + ++ r+ ++ ++ e+++ +
CP000542_2 179 ERAAIAREIHDDIGGALTAVRVAVAWIGRHG--SDP--ALLEHARSA 221

relarealaevRrllgdLRpaal<-*
+e++++a+ r+ +LRp++l
CP000542_2 222 AEMLQHAIGASQRIMMNLRPPIL 244


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-14 2 0|=
-13 26 0|==
-12 76 54|===*==
-11 149 449|=========== *
-10 498 1043|==================================== *
-9 803 1185|==========================================================*
-8 769 913|======================================================= *
-7 688 574|========================================*=========
-6 590 325|=======================*===================
-5 542 174|============*==========================
-4 280 90|======*=============
-3 192 46|===*==========
-2 103 23|=*======
-1 87 12|*======
0 46 6|*===
1 20 3|*=
2 15 1|*=
3 8 0|=
4 4 0|=
5 4 0|=
> 6 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 3474.9963
P(chi-square) = 0

Total sequences searched: 4908

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: