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 CP001213  

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: CP001213.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
-------- ----------- ----- ------- ---
CP001213_1169 CDS_1501709-1503430 79.4 1.4e-22 1
CP001213_1483 CDS_1866602-1867702 63.9 3.5e-18 1
CP001213_0321 CDS_424651-425874 57.0 3e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001213_1169 1/1 292 361 .. 1 87 [] 79.4 1.4e-22
CP001213_1483 1/1 134 198 .. 1 87 [] 63.9 3.5e-18
CP001213_0321 1/1 155 221 .. 1 87 [] 57.0 3e-16

Alignments of top-scoring domains:
CP001213_1169: domain 1 of 1, from 292 to 361: score 79.4, E = 1.4e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHELRTPL+aI gyael ++ ++d++ + e +
CP001213_1 292 KMRQFVSDASHELRTPLAAIHGYAELYKM------QRDAPGTLERA- 331

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ i++++ r+ L++dlL l+r+++g
CP001213_1 332 ----------DDAISHIESSSSRMTVLVEDLLSLARLDEG 361

CP001213_1483: domain 1 of 1, from 134 to 198: score 63.9, E = 3.5e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++an++HELRTP++a+++++e + +++ e +
CP001213_1 134 LRRDMIANVAHELRTPVSALQAMVENMADGV-----------VEPN- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e+il +++rl +Li+ lLdlsrieag
CP001213_1 169 ----------EKNMESILAQTHRLTDLISFLLDLSRIEAG 198

CP001213_0321: domain 1 of 1, from 155 to 221: score 57.0, E = 3e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+ n+sHEL+TP+ aI+++ae++ + + ++ +
CP001213_0 155 VRRDFVTNVSHELKTPVGAIMLLAETIDD----------AGDDVD-- 189

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++r + +i ea+rl+ L+++l +l r+
CP001213_0 190 --------MIRHFAARIGVEAKRLDGLVRRLIELGRMHGD 221


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-14 1 0|=
-13 19 1|*===
-12 54 34|======*====
-11 138 181|============================ *
-10 267 336|====================================================== *
-9 282 347|========================================================= *
-8 259 259|===================================================*
-7 191 163|================================*======
-6 131 94|==================*========
-5 73 51|==========*====
-4 45 27|=====*===
-3 26 14|==*===
-2 16 7|=*==
-1 8 4|*=
0 9 2|*=
1 2 1|*
2 1 0|=
3 1 0|=
4 1 0|=
5 0 0|
6 0 0|
> 7 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 103.5219
P(chi-square) = 1.073e-17

Total sequences searched: 1528

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: