4J5O | pdb_00004j5o

Room temperature crystal structure of a RNA binding motif protein 39 (Rbm39) from Mus musculus at 1.11 A resolution

• PDB DOI: https://doi.org/10.2210/pdb4J5O/pdb

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


• Deposited: 2013-02-08 Released: 2013-04-10 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG), Partnership for T-Cell Biology (TCELL)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.11 Å
• R-Value Free: 
  0.129 (Depositor), 0.140 (DCC) 
• R-Value Work: 
  0.113 (Depositor), 0.126 (DCC) 
• R-Value Observed: 
  0.113 (Depositor) 

Starting Model: experimental

Literature

Room temperature crystal structure of a RNA binding motif protein 39 (Rbm39) from Mus musculus at 1.11 A resolution

Joint Center for Structural Genomics (JCSG), Partnership for T-Cell Biology (TCELL)

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: 25.15 kDa 
• Atom Count: 2,146 
• Modeled Residue Count: 220 
• Deposited Residue Count: 228 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-binding protein 39	A, B	114	Mus musculus	Mutation(s): 0  Gene Names: BC030493, Caper, Rbm39, Rnpc2
UniProt & NIH Common Fund Data Resources
Find proteins for Q8VH51 (Mus musculus) Explore Q8VH51  Go to UniProtKB:  Q8VH51
IMPC:  MGI:2157953

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.11 Å
• R-Value Free:  0.129 (Depositor), 0.140 (DCC) 
• R-Value Work:  0.113 (Depositor), 0.126 (DCC) 
• R-Value Observed: 0.113 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34J5O

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.617	α = 90
b = 52.829	β = 90
c = 85.652	γ = 90

Software Package:

Software Name	Purpose
MolProbity	model building
PDB_EXTRACT	data extraction
REFMAC	refinement
XSCALE	data scaling
XDS	data reduction
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-04-10 
Deposition Author(s): Joint Center for Structural Genomics (JCSG), Partnership for T-Cell Biology (TCELL)

Revision History  

• Version 1.0: 2013-04-10
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2018-01-24
  Changes: Database references
• Version 1.3: 2023-02-01
  Changes: Database references
• Version 1.4: 2023-09-20
  Changes: Data collection, Refinement description