4GNC

human SMP30/GNL-1,5-AG complex

• PDB DOI: https://doi.org/10.2210/pdb4GNC/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-08-17 Released: 2013-04-10 
• Deposition Author(s): Aizawa, S., Senda, M., Harada, A., Maruyama, N., Ishida, T., Aigaki, T., Ishigami, A., Senda, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.230 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 

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: 67.48 kDa 
• Atom Count: 4,751 
• Modelled Residue Count: 595 
• Deposited Residue Count: 598 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Regucalcin	A, B	299	Homo sapiens	Mutation(s): 0  Gene Names: SMP30 EC: 3.1.1.17
UniProt & NIH Common Fund Data Resources
Find proteins for Q15493 (Homo sapiens) Explore Q15493  Go to UniProtKB:  Q15493
PHAROS:  Q15493 GTEx:  ENSG00000130988

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ASO	D [auth A], E [auth A], G [auth B], H [auth B], I [auth B]	1,5-anhydro-D-glucitol C6 H12 O5 MPCAJMNYNOGXPB-SLPGGIOYSA-N
CA	C [auth A], F [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.230 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.407	α = 90
b = 50.202	β = 99.65
c = 86.569	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
MOLREP	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-04-10 
Deposition Author(s): Aizawa, S., Senda, M., Harada, A., Maruyama, N., Ishida, T., Aigaki, T., Ishigami, A., Senda, T.

Revision History  

• Version 1.0: 2013-04-10
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Data collection, Derived calculations, Structure summary
• Version 1.2: 2023-11-08
  Changes: Advisory, Data collection, Database references, Refinement description, Structure summary