4KZE

Crystal structure of an RNA aptamer in complex with Fab

Structural Biology Knowledgebase: 4KZE SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.186

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KZE

Classification: immune system / rna

Total Structure Weight: 75570.60


Macromolecule Entities
Molecule Chains Length Organism Details
BL3-6 Fab antibody, heavy chain H 232 Mus musculus
BL3-6 Fab antibody, light chain L 215 Mus musculus
Macromolecule Entities
Molecule Chains Length Organism Details
RNA (84-MER) R 84 synthetic Spinach RNA aptamer

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

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

R MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
GTP
Query on GTP
R NON-POLYMER C10 H16 N5 O14 P3 G

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.186
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 146.94 α = 90.00
b = 80.10 β = 111.86
c = 94.52 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-29
  • Released Date: 2014-06-18
  • Deposition author(s): Huang, H., Suslov, N.B., Li, N., Koldobskaya, Y., Rice, P.A., Piccirilli, J.A.

Revision History

  • 2014-07-30
    Type: Citation | Details: Citation update
  • 2014-07-09
    Type: Citation | Details: Citation update