5EWR

C merolae U4 snRNP protein Snu13

• PDB DOI: https://doi.org/10.2210/pdb5EWR/pdb

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


• Deposited: 2015-11-20 Released: 2016-04-20 
• Deposition Author(s): Garside, E.L., Black, C., Rader, S., MacMillan, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.220 
• R-Value Work: 0.166 
• R-Value Observed: 0.169 

Literature

Conserved structure of Snu13 from the highly reduced spliceosome of Cyanidioschyzon merolae.

Black, C.S., Garside, E.L., MacMillan, A.M., Rader, S.D.

(2016) Protein Sci 25: 911-916

• PubMed: 26833716 
• DOI: https://doi.org/10.1002/pro.2894
• Primary Citation of Related Structures:  
  5EWR


• PubMed Abstract: 
  

  Structural and functional analysis of proteins involved in pre-mRNA splicing is challenging because of the complexity of the splicing machinery, known as the spliceosome. Bioinformatic, proteomic, and biochemical analyses have identified a minimal spliceosome in the red alga Cyanidioschyzon merolae. This spliceosome consists of only 40 core proteins, compared to ∼ 70 in S. cerevisiae (yeast) and ∼ 150 in humans. We report the X-ray crystallographic analysis of C. merolae Snu13 (CmSnu13), a key component of the assembling spliceosome, and present evidence for conservation of Snu13 function in this algal splicing pathway. The near identity of CmSnu13's three-dimensional structure to yeast and human Snu13 suggests that C. merolae should be an excellent model system for investigating the structure and function of the conserved core of the spliceosome.

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Organizational Affiliation: 

Department of Chemistry, University of Northern British Columbia, Prince George, British Columbia, V2N 4Z9, Canada.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 15.79 kDa 
• Atom Count: 975 
• Modelled Residue Count: 122 
• Deposited Residue Count: 146 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Box C/D snoRNP and U4 snRNP component Snu13p	A	146	Cyanidioschyzon merolae	Mutation(s): 0  Gene Names: CYME_CMP335C
UniProt
Find proteins for M1VFX0 (Cyanidioschyzon merolae (strain NIES-3377 / 10D)) Explore M1VFX0  Go to UniProtKB:  M1VFX0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.220 
• R-Value Work: 0.166 
• R-Value Observed: 0.169 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 30.33	α = 90
b = 57.582	β = 90
c = 65.38	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data collection
HKL-2000	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-04-20 
Deposition Author(s): Garside, E.L., Black, C., Rader, S., MacMillan, A.M.

Revision History  

• Version 1.0: 2016-04-20
  Type: Initial release
  
• Version 1.1: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description