4GXY

RNA structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.208

Literature

Macromolecules
Sequence Display for 4GXY

Classification: RNA

Total Structure Weight: 61457.90

Macromolecule Entities
Molecule Chains Length Organism Details
Adenosylcobalamin riboswitch A 172 synthetic

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
B1Z
Query on B1Z

A Adenosylcobalamin
Cobamamide (Synonym)
C72 H101 Co N18 O17 P
NAGDYSDXWHSJMC-OUCXYWSSSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IRI
Query on IRI

A IRIDIUM HEXAMMINE ION
H18 Ir N6
CGMAOQLDNKCXGK-RIUFHJFFAL
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
GTP
Query on GTP
A NON-POLYMER C10 H16 N5 O14 P3 G
CCC
Query on CCC
A RNA LINKING C9 H13 N3 O10 P2 C

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.208
  • Space Group: P 31 2 1

Unit Cell:

Length (Å) Angle (°)
a = 96.63 α = 90.00
b = 96.63 β = 90.00
c = 132.68 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-09-04
  • Released Date: 2012-10-17
  • Deposition author(s): Serganov, A., Peselis, A.

Revision History

  • Version 1_0: 2012-10-17

    Type: Initial release

  • Version 1_1: 2012-11-21

    Type: Database references

  • Version 1_2: 2017-11-15

    Type: Refinement description