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  

9 accessions found for Methylobacterium radiotolerans JCM 2831  

Data for CP001001  

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: CP001001.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
-------- ----------- ----- ------- ---
CP001001_0318 CDS_353540-352110 42.7 3.7e-12 1
CP001001_2996 CDS_3203317-3205392 41.9 6.4e-12 1
CP001001_3345 CDS_3603952-3602471 39.4 3.6e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001001_0318 1/1 264 331 .. 1 70 [] 42.7 3.7e-12
CP001001_2996 1/1 479 547 .. 1 70 [] 41.9 6.4e-12
CP001001_3345 1/1 281 352 .. 1 70 [] 39.4 3.6e-11

Alignments of top-scoring domains:
CP001001_0318: domain 1 of 1, from 264 to 331: score 42.7, E = 3.7e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ ++ ELHD v+Q+L+a++l + ++ + +++++ + ++ +e+
CP001001_0 264 ERRWLSLELHDDVAQRLTALSLLARSIQDGA--RSAAPSVSTESAEL 308

relarealaevRrllgdLRpaal<-*
+ +a++a + +R +l LRp++
CP001001_0 309 ASMASDAVRALRITLASLRPPEI 331

CP001001_2996: domain 1 of 1, from 479 to 547: score 41.9, E = 6.4e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
E +RIARELHD vgQ+ ++++l+l +rll ++ + ea ++++
CP001001_2 479 EQRRIARELHDQVGQTVTGLSLGLKSMERLL--ARGATaEAGRQVEW 523

irelarealaevRrllgdLRpaal<-*
++ la e +++ r++ dLRp+al
CP001001_2 524 LQSLAGEIGRDIHRAAVDLRPTAL 547

CP001001_3345: domain 1 of 1, from 281 to 352: score 39.4, E = 3.6e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
ER+R A ELHD+ g L+a+ + + r++ ++e+++++++++
CP001001_3 281 ERRRTALELHDEFGPCLFALEANAASIGRIA--SGAAEpsreKLAAR 325

ldeirelarealaevRrllgdLRpaal<-*
++ei +++ + ++ R+ll +LRp +l
CP001001_3 326 AAEISAIVGQVQTVNRELLNRLRPHGL 352


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-14 10 0|=
-13 60 0|====
-12 91 63|===*==
-11 179 521|============ *
-10 535 1209|================================== *
-9 901 1373|========================================================= *
-8 797 1058|================================================== *
-7 809 665|=========================================*=========
-6 628 376|=======================*================
-5 656 201|============*============================
-4 340 105|======*===============
-3 242 54|===*============
-2 151 27|=*========
-1 104 14|*======
0 73 7|*====
1 30 3|*=
2 41 1|*==
3 4 0|=
4 9 0|=
5 8 0|=
6 3 0|=
7 5 0|=
8 2 0|=
9 0 0|
10 3 0|=
11 1 0|=
> 12 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 4956.7305
P(chi-square) = 0

Total sequences searched: 5686

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: