7TVI

Alpha1/BetaB Heteromeric Glycine Receptor in Glycine-Bound State

PDB DOI: https://doi.org/10.2210/pdb7TVI/pdb
EM Map EMD-26141: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Danio rerio
Expression System: Spodoptera aff. frugiperda 1 BOLD-2017
Mutation(s): No
Membrane Protein: Yes OPMPDBTMmpstruc

Deposited: 2022-02-04 Released: 2023-03-22
Deposition Author(s): Gibbs, E., Chakrapani, S., Kumar, A.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Conformational transitions and allosteric modulation in a heteromeric glycine receptor

Gibbs, E., Klemm, E., Seiferth, D., Kumar, A., Ilca, S.L., Biggin, P.C., Chakrapani, S.

(2023) Nat Commun 14: 1363

DOI: https://doi.org/10.1038/s41467-023-37106-7

Macromolecule Content

Total Structure Weight: 277.67 kDa
Atom Count: 13,746
Modelled Residue Count: 1,682
Deposited Residue Count: 2,423
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycine receptor subunit alphaZ1	A, B [auth D], C, D [auth B]	458	Danio rerio	Mutation(s): 0 Gene Names: glra1 Membrane Entity: Yes
UniProt
Find proteins for O93430 (Danio rerio) Explore O93430 Go to UniProtKB: O93430
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O93430
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycine receptor beta subunit 2	E	591	Danio rerio	Mutation(s): 0 Gene Names: glrbb, glrb2 Membrane Entity: Yes
UniProt
Find proteins for Q6DC22 (Danio rerio) Explore Q6DC22 Go to UniProtKB: Q6DC22
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q6DC22
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain J [auth D] SDF format, chain L [auth C] SDF format, chain N [auth B] SDF format, chain O [auth E] SDF format, chain P [auth E] MOL2 format, chain G [auth A] MOL2 format, chain J [auth D] MOL2 format, chain L [auth C] MOL2 format, chain N [auth B] MOL2 format, chain O [auth E] MOL2 format, chain P [auth E]	G [auth A] J [auth D] L [auth C] N [auth B] O [auth E] G [auth A], J [auth D], L [auth C], N [auth B], O [auth E], P [auth E]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain G [auth A] Focus chain J [auth D] Focus chain L [auth C] Focus chain N [auth B] Focus chain O [auth E] Focus chain P [auth E] Interactions & Density Focus chain G [auth A] Focus chain J [auth D] Focus chain L [auth C] Focus chain N [auth B] Focus chain O [auth E] Focus chain P [auth E]
GLY (Subject of Investigation/LOI) Query on GLY Download Ideal Coordinates CCD File SDF format, chain I [auth D] SDF format, chain F [auth A] SDF format, chain H [auth A] SDF format, chain K [auth D] SDF format, chain M [auth B] MOL2 format, chain I [auth D] MOL2 format, chain F [auth A] MOL2 format, chain H [auth A] MOL2 format, chain K [auth D] MOL2 format, chain M [auth B]	F [auth A], H [auth A], I [auth D], K [auth D], M [auth B]	GLYCINE C₂ H₅ N O₂ DHMQDGOQFOQNFH-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain H [auth A] Focus chain I [auth D] Focus chain K [auth D] Focus chain M [auth B] Interactions & Density Focus chain F [auth A] Focus chain H [auth A] Focus chain I [auth D] Focus chain K [auth D] Focus chain M [auth B]