Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 24230.85 
• Atom Count: 1540 
• Residue Count: 198 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

2VOP

Crystal structure of N-terminal domains of Human La protein complexed with RNA oligomer AUUUU

• DOI: 10.2210/pdb2VOP/pdb
• NDB: NA0016

• Classification: RNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2008-02-19 Released: 2008-05-06 
• Deposition Author(s): Kotik-Kogan, O., Valentine, E.R., Sanfelice, D., Conte, M.R., Curry, S.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.290 
• R-Value Work: 0.261 

Literature

Structural Analysis Reveals Conformational Plasticity in the Recognition of RNA 3' Ends by the Human La Protein.

Kotik-Kogan, O., Valentine, E.R., Sanfelice, D., Conte, M.R., Curry, S.

(2008) Structure 16: 852

• PubMed: 18547518 
• Primary Citation of Related Structures:  
  2VOO, 2VON, 2VOD


• PubMed Abstract: 
  

The eukaryotic La protein recognizes the 3' poly(U) sequences of nascent RNA polymerase III transcripts to assist folding and maturation. The 3' ends of such RNAs are bound by the N-terminal domain of La (LaNTD). We have solved the crystal structures of four LaNTD:RNA complexes, each containing a different single-stranded RNA oligomer, and compared them to the structure of a previously published LaNTD:RNA complex containing partially duplex RNA. The presence of purely single-stranded RNA in the binding pocket at the interface between the La motif and RRM domains allows significantly closer contact with the 3' end of the RNA. Comparison of the different LaNTD:RNA complexes identifies a conserved set of interactions with the last two nucleotides at the 3' end of the RNA ligand that are key to binding. Strikingly, we also observe two alternative conformations of bound ssRNA, indicative of an unexpected degree of plasticity in the modes of RNA binding.

---

Organizational Affiliation: 

Biophysics Section, Blackett Laboratory, Imperial College, Exhibition Road, London, United Kingdom.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
LUPUS LA PROTEIN	A	193	Homo sapiens	Mutation(s): 0  Gene Names: SSB
Find proteins for P05455 (Homo sapiens) Go to Gene View: SSB Go to UniProtKB:  P05455

Entity ID: 2
Molecule	Chains	Length	Organism
5'-R(*AP*UP*UP*UP*UP)-3'	B	5	Homo sapiens

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.8 Å
• R-Value Free: 0.290 
• R-Value Work: 0.261 
• Space Group: C 2 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 96.070	α = 90.00
b = 116.690	β = 90.00
c = 63.510	γ = 90.00

Software Package:

Software Name	Purpose
SCALE	data scaling
CNS	refinement
MOSFLM	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-02-19 
• Released Date: 2008-05-06 
• Deposition Author(s): Kotik-Kogan, O., Valentine, E.R., Sanfelice, D., Conte, M.R., Curry, S.

Revision History 

• Version 1.0: 2008-05-06
  Type: Initial release
• Version 1.1: 2011-05-08
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance