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:
106 projects found  

1 accessions found for Bifidobacterium dentium Bd1  

Data for CP001750  

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_1.hmm [HisKA]
Sequence database: CP001750.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP001750_0738 CDS_889385-891232 74.3 5.4e-21 1
CP001750_0846 CDS_1017965-1016889 66.3 1e-18 1
CP001750_0363 CDS_478645-480015 56.5 6e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001750_0738 1/1 312 381 .. 1 87 [] 74.3 5.4e-21
CP001750_0846 1/1 131 195 .. 1 87 [] 66.3 1e-18
CP001750_0363 1/1 184 250 .. 1 87 [] 56.5 6e-16

Alignments of top-scoring domains:
CP001750_0738: domain 1 of 1, from 312 to 381: score 74.3, E = 5.4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +f++++sHELRTPL+aI gyael ++ ++d + e +
CP001750_0 312 KMKQFVSDASHELRTPLAAIHGYAELYKM------QRDMPGALERA- 351

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e +e i+ ++ r+ L++dlL l+r+++g
CP001750_0 352 ----------DESIEHIEASSARMTVLVEDLLSLARLDEG 381

CP001750_0846: domain 1 of 1, from 131 to 195: score 66.3, E = 1e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++an+sHELRTP++a+++++e + +++ e ++
CP001750_0 131 MRRDMVANVSHELRTPVSALQAMVENMADGV-------VEPTPAN-- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le+il++++rl++Li lLdlsr+eag
CP001750_0 169 -------------LESILNQTHRLSDLIAFLLDLSRMEAG 195

CP001750_0363: domain 1 of 1, from 184 to 250: score 56.5, E = 6e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ n+sHEL+TP aI+++ae++ + ++ +++ +
CP001750_0 184 MRRDFVTNVSHELKTPAGAISLLAETIGD---------AADDPDAV- 220

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r + +i +e+erl +L+ +l dl ++++
CP001750_0 221 ----------RYFSGRISKESERLTELVHRLIDLQKAQSA 250


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-16 1 0|=
-15 3 0|=
-14 11 0|==
-13 27 1|*===
-12 88 48|=====*=====
-11 213 252|=========================== *
-10 333 468|========================================== *
-9 423 483|===================================================== *
-8 384 361|=============================================*==
-7 259 228|============================*====
-6 164 131|================*====
-5 89 72|========*===
-4 59 38|====*===
-3 27 20|==*=
-2 26 10|=*==
-1 9 5|*=
0 4 2|*
1 3 1|*
2 1 0|=
> 3 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 139.3012
P(chi-square) = 2.259e-24

Total sequences searched: 2129

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: 22K


Acknowledgements:

This research is funded by:

Developed by: