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 Burkholderia pseudomallei 1106a  

Data for CP000573  

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: CP000573.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
-------- ----------- ----- ------- ---
CP000573_3118 CDS_3043238-3044638 62.6 3e-18 1
CP000573_1541 CDS_1496650-1498692 62.0 4.2e-18 1
CP000573_1833 CDS_1814503-1813025 54.6 6.4e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000573_3118 1/1 253 323 .. 1 70 [] 62.6 3e-18
CP000573_1541 1/1 461 537 .. 1 70 [] 62.0 4.2e-18
CP000573_1833 1/1 285 353 .. 1 70 [] 54.6 6.4e-16

Alignments of top-scoring domains:
CP000573_3118: domain 1 of 1, from 253 to 323: score 62.6, E = 3e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ERaR+ARELHD+++Q++ ++kl+ e a+ +l + p+++++a+ al
CP000573_3 253 ERARLARELHDGISQMMVSAKLMFESALERL--AHLPArenAAQVAL 297

deirelarealaevRrllgdLRpaal<-*
+ + ++l+evRr+ ++LRp+ l
CP000573_3 298 SKGIARLGDTLREVRRISHALRPTML 323

CP000573_1541: domain 1 of 1, from 461 to 537: score 62.0, E = 4.2e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds......dkdpe..e
E +RIARELHD +gQ+L+a+k+ +++++ +l + +++++++p+ +
CP000573_1 461 EKTRIARELHDDLGQQLTALKMDVSAVAIAL-AryrdtqADAPPiaA 506

arealdeirelarealaevRrllgdLRpaal<-*
++++l+ +r+l++ + a vRr++ dLRp l
CP000573_1 507 VEQQLHGMRRLIDSTVASVRRIAADLRPVML 537

CP000573_1833: domain 1 of 1, from 285 to 353: score 54.6, E = 6.4e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
E +RIARELHD +gQ+L+a+k+ + l+ l kd++ +l
CP000573_1 285 EKTRIARELHDDLGQQLTALKMAVTLVDNEL---KDAGwaSRTSRLP 328

eirelarealaevRrllgdLRpaal<-*
++ +l+ + l+ vRr++ dLRp l
CP000573_1 329 NVYALIGQLLDSVRRIAADLRPVML 353


Histogram of all scores:
score obs exp (one = represents 9 sequences)
----- --- ---
-15 1 0|=
-14 27 0|===
-13 73 0|=========
-12 136 35|===*============
-11 204 289|======================= *
-10 386 672|=========================================== *
-9 509 764|========================================================= *
-8 426 588|================================================ *
-7 398 370|=========================================*===
-6 272 209|=======================*=======
-5 299 112|============*=====================
-4 138 58|======*=========
-3 108 30|===*========
-2 55 15|=*=====
-1 54 7|*=====
0 21 3|*==
1 15 2|*=
2 9 1|*
3 8 0|=
4 6 0|=
5 3 0|=
6 8 0|=
7 0 0|
8 3 0|=
9 1 0|=
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1576.1768
P(chi-square) = 0

Total sequences searched: 3164

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: