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  

1 accessions found for Polynucleobacter necessarius subsp. necessarius STIR1  

Data for CP001010  

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: CP001010.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
-------- ----------- ----- ------- ---
CP001010_0980 CDS_997125-996193 79.7 1.2e-22 1
CP001010_1495 CDS_1545639-1543345 57.3 2.5e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001010_0980 1/1 209 275 .. 1 87 [] 79.7 1.2e-22
CP001010_1495 1/1 529 601 .. 1 87 [] 57.3 2.5e-16

Alignments of top-scoring domains:
CP001010_0980: domain 1 of 1, from 209 to 275: score 79.7, E = 1.2e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHE+RTPLt+++g++e+ ++ +l++ ++
CP001010_0 209 MRRDFVANVSHEMRTPLTVMMGFLETVQT---------LDLDAAKK- 245

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+eyl+ + +++r+ +L +dlL+l+ +ea+
CP001010_0 246 ----------KEYLDLMMVQGRRMKSLAEDLLTLANLEAN 275

CP001010_1495: domain 1 of 1, from 529 to 601: score 57.3, E = 2.5e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a se ++ l+HE+++PLt I++ ae L+ +l ++ls+eq
CP001010_1 529 AWSEVARRLAHEIKNPLTPIQLSAERLQHKLA------GKLSPEQ-- 567

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ + +eti+ +++ + +++nd++d+++ ++
CP001010_1 568 ------EEMINRSTETIIGQVQAMKEMVNDFRDFAKTPTP 601


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-14 12 0|===
-13 48 1|*=========
-12 102 34|======*==============
-11 180 178|===================================*
-10 293 331|==========================================================*
-9 245 342|================================================= *
-8 237 256|================================================ *
-7 168 161|================================*=
-6 92 92|==================*
-5 64 51|==========*==
-4 31 27|=====*=
-3 18 14|==*=
-2 8 7|=*
-1 6 3|*=
0 1 2|*
1 0 1|*
2 0 0|
> 3 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 171.0146
P(chi-square) = 1.71e-31

Total sequences searched: 1508

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: