3F2Y

Crystal structure of the FMN riboswitch bound to FMN, Mn2+ soak.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 3F2Y

Classification: RNA

Total Structure Weight: 37473.07

Macromolecule Entities
Molecule Chains Length Organism Details
FMN riboswitch X 112 synthetic

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FMN
Query on FMN

X FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE (Synonym)
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

X MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

X POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

X 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
X NON-POLYMER C10 H16 N5 O14 P3 G
CCC
Query on CCC
X RNA LINKING C9 H13 N3 O10 P2 C

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.192
  • Space Group: P 31 2 1

Unit Cell:

Length (Å) Angle (°)
a = 70.99 α = 90.00
b = 70.99 β = 90.00
c = 140.00 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-10-30
  • Released Date: 2009-01-27
  • Deposition author(s): Serganov, A.A., Huang, L.

Revision History

  • Version 1_0: 2009-01-27

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Version format compliance