A Caltech Library Service

Absolute and arbitrary orientation of single molecule shapes

Gopinath, Ashwin and Thachuk, Chris and Mitskovets, Anya and Atwater, Harry A. and Kirkpatrick, David and Rothemund, Paul W. K. (2018) Absolute and arbitrary orientation of single molecule shapes. . (Submitted)

[img] PDF - Submitted Version
See Usage Policy.


Use this Persistent URL to link to this item:


DNA origami is a modular platform for the combination of molecular and colloidal components to create optical, electronic, and biological devices. Integration of such nanoscale devices with microfabricated connectors and circuits is challenging: large numbers of freely diffusing devices must be fixed at desired locations with desired alignment. We present a DNA origami molecule whose energy landscape on lithographic binding sites has a unique maximum. This property enables device alignment within 3.2∘ on SiO_2. Orientation is absolute (all degrees of freedom are specified) and arbitrary (every molecule's orientation is independently specified). The use of orientation to optimize device performance is shown by aligning fluorescent emission dipoles within microfabricated optical cavities. Large-scale integration is demonstrated via an array of 3,456 DNA origami with 12 distinct orientations, which indicates the polarization of excitation light.

Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription Paper
Atwater, Harry A.0000-0001-9435-0201
Kirkpatrick, David0000-0003-4269-260X
Rothemund, Paul W. K.0000-0002-1653-3202
Additional Information:We acknowledge funding from Office of Naval Research Award N000141410702, U.S. National Science Foundation grant Nos. 1636364 and 1317694 (Expedition in Computing, Molecular Programming Project,, Air Force Office of Scientific Research FA9550-16-1-0019 (A.M), the Natural Sciences and Engineering Research Council of Canada (D.K.), a Banting Fellowship (C.T.), the Orr Family Foundation, and the Abedin Institute. Fabrication was done at Caltech’s Kavli Nanoscience Institute. Author Contributions: A.G. and P.W.K.R. conceived the project. A.G. performed origami synthesis, nanofabrication, AFM, SEM, and fluorescence microscopy. C.T and D.K formalized proof for the deathstar origami design. A.G. and C.T. wrote the simulation code for surface reorientation model. All authors contributed to data interpretation and manuscript preparation.
Group:Kavli Nanoscience Institute
Funding AgencyGrant Number
Office of Naval Research (ONR)N000141410702
Air Force Office of Scientific Research (AFOSR)FA9550-16-1-0019
Natural Sciences and Engineering Research Council of Canada (NSERC)UNSPECIFIED
Banting FellowshipUNSPECIFIED
Orr Family FoundationUNSPECIFIED
Abedin InstituteUNSPECIFIED
Record Number:CaltechAUTHORS:20181029-101527551
Persistent URL:
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:90461
Deposited By: Tony Diaz
Deposited On:29 Oct 2018 17:33
Last Modified:03 Mar 2020 13:01

Repository Staff Only: item control page