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 9301  

Data for CP000576  

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: CP000576.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
-------- ----------- ----- ------- ---
CP000576_1528 CDS_1294533-1296599 79.9 1.2e-22 1
CP000576_1242 CDS_1055844-1054684 58.5 1.4e-16 1
CP000576_0293 CDS_268444-269580 30.1 1.6e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000576_1528 1/1 414 482 .. 1 87 [] 79.9 1.2e-22
CP000576_1242 1/1 161 225 .. 1 87 [] 58.5 1.4e-16
CP000576_0293 1/1 131 194 .. 1 87 [] 30.1 1.6e-08

Alignments of top-scoring domains:
CP000576_1528: domain 1 of 1, from 414 to 482: score 79.9, E = 1.2e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f++n+sHELRTPL I+ y+e+L + ++d+ +eeq+
CP000576_1 414 AQNRFISNVSHELRTPLFNIKSYVETLHD------LKDQLSDEEQI- 453

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+l ++ +e++rl rL+nd+Ldlsr+e+g
CP000576_1 454 -----------EFLGIANSETDRLTRLVNDVLDLSRLESG 482

CP000576_1242: domain 1 of 1, from 161 to 225: score 58.5, E = 1.4e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++ ++sHEL+TPLt++++ e L++ s ++
CP000576_1 161 RQNQLINDVSHELKTPLTSLILIGERLEA----------VVSKKD-- 195

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +++++++e++rl+++ ++ L+ls++e+
CP000576_1 196 ----------RYLVKRLKKESKRLRKMAEETLELSKLESS 225

CP000576_0293: domain 1 of 1, from 131 to 194: score 30.1, E = 1.6e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + ++ H+LR+PL+aIr+ya+lL ++l + ++
CP000576_0 131 YLKNQVNTIIHQLRNPLAAIRTYAKLLIKRL-------GSDDDSI-- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e++e+++ e +++++ + + +++ ++
CP000576_0 169 -----------EIVERLIIEQKQINQYMDSF---AQLNSP 194


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 1 0|=
-14 20 0|====
-13 81 1|*=============
-12 152 43|=======*==================
-11 259 226|=====================================*======
-10 350 419|==========================================================*
-9 329 433|======================================================= *
-8 267 324|============================================= *
-7 179 204|============================== *
-6 129 117|===================*==
-5 64 64|==========*
-4 24 34|==== *
-3 18 18|==*
-2 10 9|=*
-1 8 5|*=
0 6 2|*
1 2 1|*
2 1 0|=
3 0 0|
4 0 0|
5 1 0|=
> 6 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 330.3323
P(chi-square) = 0

Total sequences searched: 1907

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: