5H3U

Sm RNA bound to GEMIN5-WD

• PDB DOI: https://doi.org/10.2210/pdb5H3U/pdb
• NAKB: 5H3U

• Classification: RNA BINDING PROTEIN/RNA
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2016-10-27 Released: 2016-12-28 
• Deposition Author(s): Bharath, S.R., Tang, X., Song, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.256 
• R-Value Work: 0.202 
• R-Value Observed: 0.204 

Starting Model: experimental

Literature

Structural basis for specific recognition of pre-snRNA by Gemin5

Tang, X., Bharath, S.R., Piao, S., Tan, V.Q., Bowler, M.W., Song, H.

(2016) Cell Res 26: 1353-1356

• PubMed: 27834343 
• DOI: https://doi.org/10.1038/cr.2016.133
• Primary Citation of Related Structures:  
  5H3S, 5H3T, 5H3U

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Organizational Affiliation: 

Institute of Molecular and Cell Biology, 61 Biopolis Drive, Proteos, Singapore 138673, Singapore.

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: 167.81 kDa 
• Atom Count: 10,548 
• Modelled Residue Count: 1,339 
• Deposited Residue Count: 1,490 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Gem-associated protein 5	A, B	740	Homo sapiens	Mutation(s): 0  Gene Names: GEMIN5
UniProt & NIH Common Fund Data Resources
Find proteins for Q8TEQ6 (Homo sapiens) Explore Q8TEQ6  Go to UniProtKB:  Q8TEQ6
PHAROS:  Q8TEQ6 GTEx:  ENSG00000082516

Entity ID: 2
Molecule	Chains	Length	Organism	Image
RNA (5'-R(*AP*AP*UP*UP*UP*UP*UP*GP*AP*C)-3')	C	10	Homo sapiens

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.256 
• R-Value Work: 0.202 
• R-Value Observed: 0.204 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.836	α = 90
b = 92.083	β = 99.99
c = 110.801	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-12-28 
Deposition Author(s): Bharath, S.R., Tang, X., Song, H.

Revision History  

• Version 1.0: 2016-12-28
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Data collection
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description