3RI5

C. elegans glutamate-gated chloride channel (GluCl) in complex with Fab, ivermectin and picrotoxin

• PDB DOI: https://doi.org/10.2210/pdb3RI5/pdb

• Classification: transport protein/immune system
• Organism(s): Caenorhabditis elegans, Mus musculus
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2011-04-12 Released: 2011-05-25 
• Deposition Author(s): Hibbs, R.E., Gouaux, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.248 
• R-Value Work: 0.232 
• R-Value Observed: 0.233 

Biological Assembly 1  

Global Symmetry: Cyclic - C5  (Explore in 3D)
Global Stoichiometry: Hetero 15-mer - A5B5C5 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 15-mer - A8B5C2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 438.28 kDa 
• Atom Count: 29,167 
• Modelled Residue Count: 3,694 
• Deposited Residue Count: 3,890 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Avermectin-sensitive glutamate-gated chloride channel GluCl alpha	A, B, C, D, E	347	Caenorhabditis elegans	Mutation(s): 0  Gene Names: glc-1, F11A5.10

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Mouse monoclonal Fab fragment, heavy chain	F, G, H, I, J	221	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Mouse monoclonal Fab fragment, light chain	K, L, M, N, O	210	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 7 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IVM	AA [auth D], DA [auth E], P [auth A], T [auth B], Z [auth C]	(2aE,4E,5'S,6S,6'R,7S,8E,11R,13R,15S,17aR,20R,20aR,20bS)-6'-[(2S)-butan-2-yl]-20,20b-dihydroxy-5',6,8,19-tetramethyl-17 -oxo-3',4',5',6,6',10,11,14,15,17,17a,20,20a,20b-tetradecahydro-2H,7H-spiro[11,15-methanofuro[4,3,2-pq][2,6]benzodioxacy clooctadecine-13,2'-pyran]-7-yl 2,6-dideoxy-4-O-(2,6-dideoxy-3-O-methyl-alpha-L-arabino-hexopyranosyl)-3-O-methyl-alpha-L-arabino-hexopyranoside C48 H74 O14 AZSNMRSAGSSBNP-XPNPUAGNSA-N
LMT	Q [auth A], R [auth A], U [auth B]	DODECYL-BETA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-QKMCSOCLSA-N
RI5	FA [auth E]	(1aR,2aR,3S,6R,6aS,8aS,8bR,9R)-2a-hydroxy-8b-methyl-9-(prop-1-en-2-yl)hexahydro-3,6-methano-1,5,7-trioxacyclopenta[ij]c yclopropa[a]azulene-4,8(3H)-dione C15 H16 O6 PIMZUZSSNYHVCU-YKWPQBAZSA-N
NAG	CA [auth E], S [auth B], X [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
UND	W [auth B]	UNDECANE C11 H24 RSJKGSCJYJTIGS-UHFFFAOYSA-N
OCT	BA [auth D], EA [auth E], V [auth B]	N-OCTANE C8 H18 TVMXDCGIABBOFY-UHFFFAOYSA-N
CL	Y [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.248 
• R-Value Work: 0.232 
• R-Value Observed: 0.233 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.843	α = 90
b = 154.843	β = 90
c = 573.473	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-05-25 
Deposition Author(s): Hibbs, R.E., Gouaux, E.

Revision History  

• Version 1.0: 2011-05-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2011-10-19
  Changes: Database references
• Version 1.3: 2011-11-09
  Changes: Refinement description
• Version 1.4: 2017-08-23
  Changes: Refinement description, Source and taxonomy
• Version 1.5: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 1.6: 2023-09-13
  Changes: Data collection, Database references, Refinement description, Structure summary