Macromolecule Content

Total Structure Weight: 16231.50
Atom Count: 1068
Residue Count: 46
Unique nucleic acid chains: 1

3C44

Crystal structure of HIV-1 subtype F DIS extended duplex RNA bound to paromomycin

DOI: 10.2210/pdb3C44/pdb
NDB: DR0042

Classification: RNA

Deposited: 2008-01-29 Released: 2008-05-06
Deposition Author(s): Freisz, S., Ennifar, E., Dumas, P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2 Å
R-Value Free: 0.247
R-Value Work: 0.224

wwPDB Validation3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Binding of aminoglycoside antibiotics to the duplex form of the HIV-1 genomic RNA dimerization initiation site.

Freisz, S., Lang, K., Micura, R., Dumas, P., Ennifar, E.

(2008) Angew.Chem.Int.Ed.Engl. 47: 4110-4113

PubMed: 18435520 Search on PubMed
DOI: 10.1002/anie.200800726
Primary Citation of Related Structures:
3C7R, 3C5D, 3C3Z, 2QEK

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Length	Organism
HIV-1 subtype F genomic RNA	A,B	23	N/A

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
K Query on K Download SDF File Download CCD File	A, B	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Ligand Interaction
CL Query on CL Download SDF File Download CCD File	A, B	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction
PAR Query on PAR Download SDF File Download CCD File	A, B	PAROMOMYCIN PAROMOMYCIN I, AMMINOSIDIN, CATENULIN, CRESTOMYCIN, MONOMYCIN A, NEOMYCIN E C₂₃ H₄₅ N₅ O₁₄ UOZODPSAJZTQNH-LSWIJEOBSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2 Å
R-Value Free: 0.247
R-Value Work: 0.224
Space Group: P 2₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 30.818	α = 90.00
b = 95.703	β = 90.00
c = 47.856	γ = 90.00

Software Package:

Software Name	Purpose
CNS	phasing
CNS	refinement
DNA	data collection
SCALEPACK	data scaling
DENZO	data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2008-01-29
Released Date: 2008-05-06
Deposition Author(s): Freisz, S., Ennifar, E., Dumas, P.

Revision History

Version 1.0: 2008-05-06
Type: Initial release
Version 1.1: 2011-07-13
Type: Version format compliance

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the National Institutes of Health, and the US Department of Energy (DE-SC0019749).