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
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Data for CP001681  

Available Atlases
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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: CP001681.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]
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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
-------- ----------- ----- ------- ---
CP001681_2090 CDS_2435436-2437373 44.5 8.1e-13 1
CP001681_2933 CDS_3529732-3531669 41.7 5.6e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001681_2090 1/1 446 512 .. 1 70 [] 44.5 8.1e-13
CP001681_2933 1/1 446 512 .. 1 70 [] 41.7 5.6e-12

Alignments of top-scoring domains:
CP001681_2090: domain 1 of 1, from 446 to 512: score 44.5, E = 8.1e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+A +LHD++g +Ls+ik l+ ++ l + + a+++
CP001681_2 446 ERTRLAKDLHDGLGGMLSGIKFSLGSIKENL---IMTPDNAHAFERS 489

relarealaevRrllgdLRpaal<-*
++++ +++e+Rr+++++ p +l
CP001681_2 490 IDMLDSSIKEMRRVAHNMMPEIL 512

CP001681_2933: domain 1 of 1, from 446 to 512: score 41.7, E = 5.6e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+A +LHD++g +Ls+ik l+ + + p+ + a+++
CP001681_2 446 ERTRLAKDLHDGLGGMLSGIKFSLSNMKENM--VMTPDNVN-AFERS 489

relarealaevRrllgdLRpaal<-*
+++++ +++e+Rr+++++ p +l
CP001681_2 490 MDMLDSSIKEMRRVAHNMMPEIL 512


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-15 1 0|=
-14 42 0|===
-13 129 0|========
-12 217 47|==*==========
-11 330 389|==================== *
-10 882 904|==================================================== *
-9 996 1026|==========================================================*
-8 632 791|====================================== *
-7 412 497|========================= *
-6 247 281|=============== *
-5 178 151|========*==
-4 90 78|====*=
-3 43 40|==*
-2 17 20|=*
-1 16 10|*
0 6 5|*
1 5 2|*
2 3 1|*
> 3 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 676.7457
P(chi-square) = 0

Total sequences searched: 4252

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: