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:
39 projects found  

1 accessions found for Prochlorococcus marinus str. NATL2A  

Data for CP000095  

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: CP000095.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000095_0911 CDS_864791-866860 81.5 4.4e-23 1
CP000095_0437 CDS_420014-421147 53.5 3.7e-15 1
CP000095_1631 CDS_1596470-1597591 32.4 3.6e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000095_0911 1/1 417 485 .. 1 87 [] 81.5 4.4e-23
CP000095_0437 1/1 150 214 .. 1 87 [] 53.5 3.7e-15
CP000095_1631 1/1 134 200 .. 1 87 [] 32.4 3.6e-09

Alignments of top-scoring domains:
CP000095_0911: domain 1 of 1, from 417 to 485: score 81.5, E = 4.4e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+ +f++n+sHELRTPL I+ y+e+L + + + l+ +++
CP000095_0 417 AQKRFISNVSHELRTPLFNIKSYVETLYDLG-------EQLTKDEQ- 455

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l ++ +e++rl rL+nd+Ldls++e+g
CP000095_0 456 ----------KEFLGVANSETDRLTRLVNDVLDLSKLESG 485

CP000095_0437: domain 1 of 1, from 150 to 214: score 53.5, E = 3.7e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++l +++HEL+TPLta++++ + L++ + ++
CP000095_0 150 LQERMLGDAAHELKTPLTALMLLGDRLEDLVK----------KKD-- 184

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +++++++e+ rl ++ndlL+lsr+ +
CP000095_0 185 ----------RPLIKRLRKEILRLKLMVNDLLELSRLVNS 214

CP000095_1631: domain 1 of 1, from 134 to 200: score 32.4, E = 3.6e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ e ++ + H+LR+PL+a+ +ya+lLl+ +e ++
CP000095_1 134 DQKEQISLMVHQLRNPLAALGTYAKLLLR---------KIGPESEN- 170

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++ + +e + ++ ++ l +ls+ +
CP000095_1 171 ----------ENLVKGLMNEQAQVNKYLSALDQLSQVKLP 200


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 1 0|=
-14 13 0|===
-13 39 1|*======
-12 151 43|=======*==================
-11 246 224|=====================================*===
-10 352 415|==========================================================*
-9 318 429|===================================================== *
-8 270 321|============================================= *
-7 193 202|=================================*
-6 121 116|===================*=
-5 75 63|==========*==
-4 55 34|=====*====
-3 30 18|==*==
-2 11 9|=*
-1 4 4|*
0 4 2|*
> 1 7 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 341.2062
P(chi-square) = 0

Total sequences searched: 1890

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: