3SM9 | pdb_00003sm9

Crystal Structure of Metabotropic glutamate receptor 3 precursor in presence of LY341495 antagonist

• PDB DOI: https://doi.org/10.2210/pdb3SM9/pdb

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


• Deposited: 2011-06-27 Released: 2011-07-27 
• Deposition Author(s): Wernimont, A.K., Dong, A., Seitova, A., Crombet, L., Khutoreskaya, G., Edwards, A.M., Arrowsmith, C.H., Bountra, C., Weigelt, J., Cossar, D., Dobrovetsky, E., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.26 Å
• R-Value Free: 
  0.227 (Depositor), 0.238 (DCC) 
• R-Value Work: 
  0.201 (Depositor), 0.208 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Metabotropic glutamate receptor 3 precursor in presence of LY341495 antagonist

Wernimont, A.K., Dong, A., Seitova, A., Crombet, L., Khutoreskaya, G., Edwards, A.M., Arrowsmith, C.H., Bountra, C., Weigelt, J., Cossar, D., Dobrovetsky, E.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 55.42 kDa 
• Atom Count: 3,609 
• Modeled Residue Count: 437 
• Deposited Residue Count: 479 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Metabotropic glutamate receptor 3	A	479	Homo sapiens	Mutation(s): 0  Gene Names: GPRC1C, GRM3, MGLUR3
UniProt & NIH Common Fund Data Resources
Find proteins for Q14832 (Homo sapiens) Explore Q14832  Go to UniProtKB:  Q14832
PHAROS:  Q14832 GTEx:  ENSG00000198822

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
Z99	G [auth A]	2-[(1S,2S)-2-carboxycyclopropyl]-3-(9H-xanthen-9-yl)-D-alanine C20 H19 N O5 VLZBRVJVCCNPRJ-KPHUOKFYSA-N
SO4	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	H [auth A], I [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Binding Affinity Annotations
ID	Source	Binding Affinity
Z99	BindingDB:  3SM9	Ki: min: 1.3, max: 14 (nM) from 3 assay(s)
		IC50: min: 2.8, max: 16 (nM) from 6 assay(s)
		EC50: 1.00e+5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.26 Å
• R-Value Free:  0.227 (Depositor), 0.238 (DCC) 
• R-Value Work:  0.201 (Depositor), 0.208 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.402	α = 90
b = 98.633	β = 90
c = 203.513	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
BUSTER-TNT	refinement
PDB_EXTRACT	data extraction
Blu-Ice	data collection
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-07-27 
Deposition Author(s): Wernimont, A.K., Dong, A., Seitova, A., Crombet, L., Khutoreskaya, G., Edwards, A.M., Arrowsmith, C.H., Bountra, C., Weigelt, J., Cossar, D., Dobrovetsky, E., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2011-07-27
  Type: Initial release
  
• Version 1.1: 2017-11-08
  Changes: Refinement description
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.3: 2024-11-20
  Changes: Structure summary