We present a set of protocols showing how to use the 3DNA suite of programs to analyze,
rebuild and visualize three-dimensional nucleic-acid structures. The software determines a …

The w3DNA (web 3DNA) server is a user-friendly web-based interface to the 3DNA suite of
programs for the analysis, reconstruction, and visualization of three-dimensional (3D) …

We present a comprehensive software package, 3DNA, for the analysis, reconstruction and
visualization of three‐dimensional nucleic acid structures. Starting from a coordinate file in …

Abstract Web 3DNA (w3DNA) 2.0 is a significantly enhanced version of the widely used
w3DNA server for the analysis, visualization, and modeling of 3D nucleic-acid-containing …

We describe nab, a computer language that facilitates the construction of three-dimensional
molecular models. The language was designed to construct models of helical and non …

Although nucleic acid structures are contained within the Protein Data Bank (PDB)(6) and
the Cambridge Structural Database (7), no single database is devoted entirely to nucleic …

A new computer program to annotate DNA and RNA three-dimensional structures, MC-
Annotate, is introduced. The goals of annotation are to efficiently extract and manipulate …

Large biomolecular structures are being determined experimentally on a daily basis using
established techniques such as crystallography and electron microscopy. In addition …

Two-dimensional drawing of nucleic acid structures, particularly RNA structures, is
fundamental to the communication of nucleic acids research. However, manually drawing …

Abstract Our server, CLICK: http://mspc. bii. a-star. edu. sg/click, is capable of superimposing
the 3D structures of any pair of biomolecules (proteins, DNA, RNA, etc.). The server makes …