3LLH | pdb_00003llh

Crystal structure of the first dsRBD of TAR RNA-binding protein 2

• PDB DOI: https://doi.org/10.2210/pdb3LLH/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-01-29 Released: 2010-12-08 
• Deposition Author(s): Yamashita, S., Kawazoe, M., Takemoto, C., Sekine, S., Wakiyama, M., Yokoyama, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.14 Å
• R-Value Free: 
  0.233 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.185 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Starting Model: experimental

Literature

The structures of dsRBDs of human TRBP

Yamashita, S., Nagata, T., Kawazoe, M., Takemoto, C., Muto, Y., Sekine, S., Wakiyama, M., Yokoyama, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 18.98 kDa 
• Atom Count: 1,023 
• Modeled Residue Count: 130 
• Deposited Residue Count: 180 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RISC-loading complex subunit TARBP2	A, B	90	Homo sapiens	Mutation(s): 0  Gene Names: 6895
UniProt & NIH Common Fund Data Resources
Find proteins for Q15633 (Homo sapiens) Explore Q15633  Go to UniProtKB:  Q15633
PHAROS:  Q15633 GTEx:  ENSG00000139546

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MLI	C [auth B]	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.14 Å
• R-Value Free:  0.233 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.185 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.184	α = 90
b = 51.184	β = 90
c = 42.828	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-12-08 
Deposition Author(s): Yamashita, S., Kawazoe, M., Takemoto, C., Sekine, S., Wakiyama, M., Yokoyama, S.

Revision History  

• Version 1.0: 2010-12-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description