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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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76 projects found  

2 accessions found for Burkholderia thailandensis E264  

Data for CP000085  

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: CP000085.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
-------- ----------- ----- ------- ---
CP000085_2319 CDS_2858348-2859760 65.4 3.2e-19 1
CP000085_1242 CDS_1489562-1487499 61.0 6.5e-18 1
CP000085_1004 CDS_1195310-1196701 55.8 2.1e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000085_2319 1/1 257 327 .. 1 70 [] 65.4 3.2e-19
CP000085_1242 1/1 464 544 .. 1 70 [] 61.0 6.5e-18
CP000085_1004 1/1 256 324 .. 1 70 [] 55.8 2.1e-16

Alignments of top-scoring domains:
CP000085_2319: domain 1 of 1, from 257 to 327: score 65.4, E = 3.2e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ERaR+ARELHD+++Q++ ++kl+ e a+ ++ ++ p ++++a++al
CP000085_2 257 ERARLARELHDGISQMMVSAKLMFESALERF--ARLPTrenAAEAAL 301

deirelarealaevRrllgdLRpaal<-*
+ + ++l+evRr+ ++LRp+ l
CP000085_2 302 SKGIARLGDTLREVRRISHALRPTML 327

CP000085_1242: domain 1 of 1, from 464 to 544: score 61.0, E = 6.5e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.........
E +RIARELHD +gQ+L+a+k+ +++++ +l ++ +++ ++++++
CP000085_1 464 EKTRIARELHDDLGQQLTALKMDVSAIAIAL--ARYRDsqatsqtsp 508

....earealdeirelarealaevRrllgdLRpaal<-*
++ +++++l+ +r+l++ + a vRr++ dLRp l
CP000085_1 509 qpiaAVEQQLHGMRRLIDSTVASVRRIAADLRPVML 544

CP000085_1004: domain 1 of 1, from 256 to 324: score 55.8, E = 2.1e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
E +RIARELHD +gQ+L+a+k+ + l+ + e + + +
CP000085_1 256 EKTRIARELHDDLGQQLTALKMAVTLVD-----NELKEagwtSRPSR 297

ldeirelarealaevRrllgdLRpaal<-*
l ++ +l+++ l+ vRr++ dLRp l
CP000085_1 298 LPNVYALISQLLDSVRRIAADLRPVML 324


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 3 0|=
-13 19 0|===
-12 44 26|===*===
-11 76 216|=========== *
-10 233 501|================================== *
-9 396 569|========================================================= *
-8 337 438|================================================= *
-7 339 275|=======================================*=========
-6 240 156|======================*============
-5 268 83|===========*===========================
-4 138 43|======*=============
-3 85 22|===*=========
-2 51 11|=*======
-1 45 5|*======
0 25 2|*===
1 25 1|*===
2 9 0|==
3 5 0|=
4 4 0|=
5 4 0|=
6 5 0|=
7 1 0|=
8 2 0|=
9 0 0|
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1562.5280
P(chi-square) = 0

Total sequences searched: 2358

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: