3SJ2 | pdb_00003sj2

A Crystal Structure of a Model of the Repeating r(CGG) Transcript Found in Fragile X Syndrome

PDB DOI: https://doi.org/10.2210/pdb3SJ2/pdb
NAKB: 3SJ2

Classification: RNA
Mutation(s): No

Deposited: 2011-06-20 Released: 2011-08-03
Deposition Author(s): Kumar, A., Pengfei, F., Park, H., Nettles, K., Guo, M., Disney, M.D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.36 Å
R-Value Free:
0.185 (Depositor), 0.178 (DCC)
R-Value Work:
0.154 (Depositor), 0.152 (DCC)
R-Value Observed:
0.157 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3SJ2

This is version 1.2 of the entry. See complete history.

Literature

A Crystal Structure of a Model of the Repeating r(CGG) Transcript Found in Fragile X Syndrome.

Kumar, A., Fang, P., Park, H., Guo, M., Nettles, K.W., Disney, M.D.

(2011) Chembiochem 12: 2140-2142

PubMed: 21766409 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1002/cbic.201100337
Primary Citation Related Structures:
3SJ2

Organizational Affiliation

Department of Chemistry, The Scripps Research Institute, 130 Scripps Way, Jupiter, FL 33458, USA.

Macromolecule Content

Total Structure Weight: 11.82 kDa
Atom Count: 1,062
Modeled Residue Count: 36
Deposited Residue Count: 36
Unique nucleic acid chains: 2

Macromolecules

Find similar nucleic acids by: Sequence

Molecule	Chains	Length	Organism	Image
Entity ID: 1
RNA (5'-R(UPUPGPGPGPCPCPGPGPCPGPGPCPGPGPGPUPCP*C)-3')	A	19	N/A
Sequence Annotations Expand
Reference Sequence

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Molecule	Chains	Length	Organism	Image
Entity ID: 2
RNA (5'-R(PGPGPGPCPCPGPGPCPGPGPCPGPGPGPUPCP*C)-3')	B	17	N/A
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A]	C [auth A], D [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain C [auth A] Focus chain D [auth A] Interactions & Density Focus chain C [auth A] Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.36 Å
R-Value Free: 0.185 (Depositor), 0.178 (DCC)
R-Value Work: 0.154 (Depositor), 0.152 (DCC)
R-Value Observed: 0.157 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.66	α = 90
b = 32.32	β = 108.95
c = 69.442	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-08-03

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-08-03
Type: Initial release
Version 1.1: 2011-09-28
Changes: Database references
Version 1.2: 2024-02-28
Changes: Data collection, Database references, Derived calculations

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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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.