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  

6 accessions found for Burkholderia glumae BGR1  

Data for CP001504  

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/HisKA_3.hmm [HisKA_3]
Sequence database: CP001504.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
-------- ----------- ----- ------- ---
CP001504_2065 CDS_2806581-2807978 63.8 8.5e-19 1
CP001504_1132 CDS_1600156-1602465 61.9 3.1e-18 1
CP001504_1845 CDS_2510384-2512447 53.6 8.3e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001504_2065 1/1 253 323 .. 1 70 [] 63.8 8.5e-19
CP001504_1132 1/1 555 627 .. 1 70 [] 61.9 3.1e-18
CP001504_1845 1/1 471 547 .. 1 70 [] 53.6 8.3e-16

Alignments of top-scoring domains:
CP001504_2065: domain 1 of 1, from 253 to 323: score 63.8, E = 8.5e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ERaR++RELHD+++Q++ ++kl+le a+ ++ ++ p+++ +a+ l
CP001504_2 253 ERARLSRELHDGISQMMVSVKLMLESALERF--ERSPArdaAAEGVL 297

deirelarealaevRrllgdLRpaal<-*
+ + + + l+evRr+ ++LRpa l
CP001504_2 298 AKSVARLGDVLREVRRISHALRPAML 323

CP001504_1132: domain 1 of 1, from 555 to 627: score 61.9, E = 3.1e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
E +RIARELHD +gQ+L+a+k+ l++++++l ++ ++ + + e
CP001504_1 555 EKTRIARELHDDLGQQLTALKMDLSAVEHRLL-RDGTGeahaSVVEP 600

ldeirelarealaevRrllgdLRpaal<-*
l+e+r+l++ + a vRr++ dLRp l
CP001504_1 601 LREMRRLIDATVASVRRIAADLRPVML 627

CP001504_1845: domain 1 of 1, from 471 to 547: score 53.6, E = 8.3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrllds....dkdpe...ea
E +R+ARELHD +gQ+L+++ + +++a+++ld ++++dp+ + a
CP001504_1 471 EKTRLARELHDDLGQQLAVLEMEASAAAQALDRvldgARDPGlieTA 517

realdeirelarealaevRrllgdLRpaal<-*
l+ +r+l + a a vRr++ +LRp l
CP001504_1 518 VNKLHGMRRLTDSAVASVRRVAANLRPLML 547


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 1 0|=
-13 9 0|==
-12 29 23|===*=
-11 50 190|========= *
-10 214 442|==================================== *
-9 347 502|==========================================================*
-8 304 386|=================================================== *
-7 319 243|========================================*=============
-6 240 137|======================*=================
-5 222 73|============*========================
-4 120 38|======*=============
-3 75 19|===*=========
-2 53 10|=*=======
-1 28 5|*====
0 22 2|*===
1 17 1|*==
2 7 0|==
3 5 0|=
4 3 0|=
5 2 0|=
6 2 0|=
7 0 0|
8 1 0|=
9 3 0|=
10 1 0|=
> 11 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1293.5297
P(chi-square) = 0

Total sequences searched: 2079

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: