1YVP

Ro autoantigen complexed with RNAs

Structural Biology Knowledgebase: 1YVP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1YVP

Classification: RNA BINDING PROTEIN / RNA

Total Structure Weight: 142019.41


Macromolecule Entities
Molecule Chains Length Organism Details
60-kDa SS-A/Ro ribonucleoprotein A, B 538 Xenopus laevis Details: protein A binds RNA chain G, B binds H
Gene Name(s): trove2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
Y RNA sequence, first strand C, E, G, H 10 synthetic chains G and H are single strands bound by protein
Y RNA sequence, second strand D, F 10 synthetic

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

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B 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
IU
Query on IU
C, D, E, F, G, H RNA LINKING C9 H12 I N2 O9 P U

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.202
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 60.30 α = 90.00
b = 153.65 β = 92.80
c = 80.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-02-16
  • Released Date: 2005-06-07
  • Deposition author(s): Stein, A.J., Fuchs, G., Fu, C., Wolin, S.L., Reinisch, K.M.

Revision History

  • 2011-12-28
    Type: Advisory | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4