8CRY

Crystal structure of alien DNA CTSZZPBSBSZPPBAG in an orthorhombic lattice

PDB DOI: https://doi.org/10.2210/pdb8CRY/pdb
NAKB: 8CRY

Classification: DNA
Organism(s): synthetic construct
Mutation(s): No

Deposited: 2022-05-12 Released: 2023-05-17
Deposition Author(s): Georgiadis, M.M.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.20 Å
R-Value Free: 0.237
R-Value Work: 0.214
R-Value Observed: 0.215

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Alien DNA visualized at high resolution in A- and B-forms

Georgiadis, M.M., Hoshika, S., Shukla, M., Benner, S.A.

To be published.

Macromolecule Content

Total Structure Weight: 10.19 kDa
Atom Count: 840
Modelled Residue Count: 32
Deposited Residue Count: 32
Unique nucleic acid chains: 1

Macromolecules

Find similar nucleic acids by: Sequence | 3D Structure

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(CPTP(JSP)P(1W5)P(1W5)P(1WA)P(IGU)P(JSP)P(IGU)P(JSP)P(1W5)P(1WA)P(1WA)P(IGU)PAPG)-3')	A, B	16	synthetic construct
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B]	C [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.20 Å
R-Value Free: 0.237
R-Value Work: 0.214
R-Value Observed: 0.215
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.052	α = 90
b = 45.799	β = 90
c = 50.55	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-05-17

Deposition Author(s):

Georgiadis, M.M.

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	193908

Revision History (Full details and data files)

Version 1.0: 2023-05-17
Type: Initial release

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.