Published January 7, 2026
| Version v1
Dataset
Open
100 base pair DNA minicircle with 30 turns ΔLk -2 (100 ns)
Description
An all-atom implicit solvent simulation of a 339 base pair minicircle under negative supercoiling.
Files
snapshot.jpg
Files
(1.2 GB)
| Name | Size | Download all |
|---|---|---|
|
md5:13ca3541aa7eaa444fc664f0fe25e535
|
1.2 GB | Download |
|
md5:17f7b291f7ed376f3e4f03f2673a5ff3
|
8.8 MB | Download |
|
md5:276d4b062f811ee7d96f7ecd67299880
|
158.0 kB | Preview Download |
Additional details
Related works
- Is published in
- Thesis: https://etheses.whiterose.ac.uk/id/eprint/37866/1/Hill%2CVictoria%2C200203687_redacted.pdf (URL)
Dates
- Created
-
2022-11-23
Domain Specific Metadata
| Property | Value |
|---|---|
| Software | Amber |
| Software Version | 20 |
| Molecular Model | atomistic |
| Simulation Method | classical |
| Timestep | 2 fs |
| Framestep | 0.05 ns |
| Length | 100 ns |
| Temperature | 300 K |
| Trajectories | Cartesian co-ordinates |
| Force Fields | parmBSC1 |
| Membrane | No |
| Sequences | CGCTACACACATCGTACTGCAACTGCACCTAGCTGAGATGGTTCCATAGATGACTACGCATCCCTCTAGGCCTTACATGACCTGATACAGTGACTTTGACAGGTTTGCGAGGTACAGCAAGGACCTGCATGGCTGCGTACGGAGGAAGGAACTCTTGCGTGGTAGTATGTTGACCACTGTATCACGGATGCGGGTAGAAGATGTGAGCAGAGACACCCAGGTCAAGTTCTCGACCTTCTCGGAGGAGGTGTTCCAGTGCACCATGCGACCAGACCACTCGAGCATGGCACTGTGTACGCTGTCTCCAGTCTGGTAGTCATCATCCCTAGCACGGTCTCG |
| Long Range Cutoff | 100 Å |
| Thermostat | Langevin |
| Atom Count | 21514 |
| Wall Time | 730060 s |