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. MIT 9211  

Data for CP000878  

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: CP000878.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
-------- ----------- ----- ------- ---
CP000878_1396 CDS_1262329-1264389 73.9 6.2e-21 1
CP000878_0297 CDS_280195-281325 31.0 8.6e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000878_1396 1/1 413 481 .. 1 87 [] 73.9 6.2e-21
CP000878_0297 1/1 132 171 .. 1 61 [. 31.0 8.6e-09

Alignments of top-scoring domains:
CP000878_1396: domain 1 of 1, from 413 to 481: score 73.9, E = 6.2e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+s+f++n+sHELRTPL I+ y+e+L + l+ ++l+ee++
CP000878_1 413 AQSRFISNVSHELRTPLFNIKSYVETLHD-LN------DKLTEEEK- 451

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+l ++ +e++rl rL+nd+Ldls++e+
CP000878_1 452 ----------IEFLGIANSETDRLTRLVNDVLDLSKLETS 481

CP000878_0297: domain 1 of 1, from 132 to 171: score 31.0, E = 8.6e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e + +l H+L++PL+a+++ya+lLl+ +l++e
CP000878_0 132 QQREQIGMLVHQLKNPLAALKTYAQLLLR----------KLGPESS- 167

peLRledpeyreyl<-*
++ l
CP000878_0 168 ----------QRSL 171


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 2 0|=
-14 22 0|====
-13 47 1|*=======
-12 143 42|======*=================
-11 197 219|================================= *
-10 345 407|==========================================================*
-9 301 421|=================================================== *
-8 275 315|============================================== *
-7 206 198|================================*==
-6 123 114|==================*==
-5 83 62|==========*===
-4 48 33|=====*==
-3 30 17|==*==
-2 16 9|=*=
-1 7 4|*=
0 3 2|*
1 1 1|*
2 1 0|=
> 3 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 317.2273
P(chi-square) = 0

Total sequences searched: 1855

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: