5KPY

Structure of a 5-hydroxytryptophan aptamer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.216

Literature

Macromolecules
Sequence Display for 5KPY

Classification: RNA

Total Structure Weight: 26732.40

Macromolecule Entities
Molecule Chains Length Organism Details
5-hydroxytryptophan RNA aptamer A 71 Unidentified

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

A IRIDIUM HEXAMMINE ION
H18 Ir N6
CGMAOQLDNKCXGK-RIUFHJFFAL
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
4PQ
Query on 4PQ

A 5-hydroxy-L-tryptophan
Oxitriptan (Synonym)
C11 H12 N2 O3
LDCYZAJDBXYCGN-VIFPVBQESA-N
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)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.216
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 127.55 α = 90.00
b = 26.59 β = 106.32
c = 63.37 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-07-05
  • Released Date: 2017-01-11
  • Deposition author(s): Batey, R.T., Porter, E., Merck, M.

Revision History

  • Version 1_0: 2017-01-11

    Type: Initial release

  • Version 1_1: 2017-02-01

    Type: Database references

  • Version 1_2: 2017-03-01

    Type: Database references

  • Version 1_3: 2017-09-27

    Type: Author supporting evidence