8RH7 | pdb_00008rh7

CryoEM structure of human rho1 GABAA receptor in complex with GABA and estradiol in primed state

PDB DOI: https://doi.org/10.2210/pdb8RH7/pdb
EM Map EMD-19171: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No
Membrane Protein: Yes PDBTM MemProtMD

Deposited: 2023-12-15 Released: 2024-08-28
Deposition Author(s): Chen, F., John, C., Rebecca, J.H., Erik, L.
Funding Organization(s): Swedish Research Council

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.78 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8RH7

This is version 1.2 of the entry. See complete history.

Literature

Divergent mechanisms of steroid inhibition in the human rho1 GABAA receptor

Chen, F., John, C., Rebecca, J.H., Erik, L.

(2024) Nat Commun

Macromolecule Content

Total Structure Weight: 288.02 kDa
Atom Count: 13,866
Modeled Residue Count: 1,610
Deposited Residue Count: 2,395
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Gamma-aminobutyric acid receptor subunit rho-1	A, B [auth E], C [auth B], D [auth C], E [auth D]	479	Homo sapiens	Mutation(s): 0 Gene Names: GABRR1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P24046 (Homo sapiens) Explore P24046 Go to UniProtKB: P24046
PHAROS: P24046 GTEx: ENSG00000146276
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P24046
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B [auth E] Focus chain C [auth B] Focus chain D [auth C] Focus chain E [auth D]	Go to GlyGen: P24046-1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EST Query on EST Download:Ideal Coordinates CCD File SDF format, chain YA [auth C] SDF format, chain NB [auth D] SDF format, chain MA [auth B] SDF format, chain M [auth A] SDF format, chain CA [auth E] MOL2 format, chain YA [auth C] MOL2 format, chain NB [auth D] MOL2 format, chain MA [auth B] MOL2 format, chain M [auth A] MOL2 format, chain CA [auth E] mmCIF format, chain YA [auth C] mmCIF format, chain NB [auth D] mmCIF format, chain MA [auth B] mmCIF format, chain M [auth A] mmCIF format, chain CA [auth E]	CA [auth E], M [auth A], MA [auth B], NB [auth D], YA [auth C]	ESTRADIOL C₁₈ H₂₄ O₂ VOXZDWNPVJITMN-ZBRFXRBCSA-N		Interactions Focus chain CA [auth E] Focus chain M [auth A] Focus chain MA [auth B] Focus chain NB [auth D] Focus chain YA [auth C] Interactions & Density Focus chain CA [auth E] Focus chain M [auth A] Focus chain MA [auth B] Focus chain NB [auth D] Focus chain YA [auth C]
NAG (Subject of Investigation/LOI) Query on NAG Download:Ideal Coordinates CCD File SDF format, chain W [auth E] SDF format, chain V [auth E] SDF format, chain SA [auth C] SDF format, chain RA [auth C] SDF format, chain HB [auth D] SDF format, chain GB [auth D] SDF format, chain GA [auth B] SDF format, chain G [auth A] SDF format, chain FA [auth B] SDF format, chain F [auth A] MOL2 format, chain W [auth E] MOL2 format, chain V [auth E] MOL2 format, chain SA [auth C] MOL2 format, chain RA [auth C] MOL2 format, chain HB [auth D] MOL2 format, chain GB [auth D] MOL2 format, chain GA [auth B] MOL2 format, chain G [auth A] MOL2 format, chain FA [auth B] MOL2 format, chain F [auth A] mmCIF format, chain W [auth E] mmCIF format, chain V [auth E] mmCIF format, chain SA [auth C] mmCIF format, chain RA [auth C] mmCIF format, chain HB [auth D] mmCIF format, chain GB [auth D] mmCIF format, chain GA [auth B] mmCIF format, chain G [auth A] mmCIF format, chain FA [auth B] mmCIF format, chain F [auth A]	F [auth A] FA [auth B] G [auth A] GA [auth B] GB [auth D] F [auth A], FA [auth B], G [auth A], GA [auth B], GB [auth D], HB [auth D], RA [auth C], SA [auth C], V [auth E], W [auth E]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain F [auth A] Focus chain FA [auth B] Focus chain G [auth A] Focus chain GA [auth B] Focus chain GB [auth D] Focus chain HB [auth D] Focus chain RA [auth C] Focus chain SA [auth C] Focus chain V [auth E] Focus chain W [auth E] Interactions & Density Focus chain F [auth A] Focus chain FA [auth B] Focus chain G [auth A] Focus chain GA [auth B] Focus chain GB [auth D] Focus chain HB [auth D] Focus chain RA [auth C] Focus chain SA [auth C] Focus chain V [auth E] Focus chain W [auth E]
OCT Query on OCT Download:Ideal Coordinates CCD File SDF format, chain ZA [auth C] SDF format, chain X [auth E] SDF format, chain WA [auth C] SDF format, chain U [auth E] SDF format, chain TA [auth C] SDF format, chain T [auth E] SDF format, chain S [auth E] SDF format, chain Q [auth A] SDF format, chain PA [auth B] SDF format, chain P [auth A] SDF format, chain OA [auth B] SDF format, chain O [auth A] SDF format, chain NA [auth B] SDF format, chain LB [auth D] SDF format, chain KA [auth B] SDF format, chain K [auth A] SDF format, chain IB [auth D] SDF format, chain HA [auth B] SDF format, chain H [auth A] SDF format, chain EB [auth D] SDF format, chain DB [auth D] SDF format, chain CB [auth D] SDF format, chain BB [auth C] SDF format, chain AB [auth C] SDF format, chain AA [auth E] MOL2 format, chain ZA [auth C] MOL2 format, chain X [auth E] MOL2 format, chain WA [auth C] MOL2 format, chain U [auth E] MOL2 format, chain TA [auth C] MOL2 format, chain T [auth E] MOL2 format, chain S [auth E] MOL2 format, chain Q [auth A] MOL2 format, chain PA [auth B] MOL2 format, chain P [auth A] MOL2 format, chain OA [auth B] MOL2 format, chain O [auth A] MOL2 format, chain NA [auth B] MOL2 format, chain LB [auth D] MOL2 format, chain KA [auth B] MOL2 format, chain K [auth A] MOL2 format, chain IB [auth D] MOL2 format, chain HA [auth B] MOL2 format, chain H [auth A] MOL2 format, chain EB [auth D] MOL2 format, chain DB [auth D] MOL2 format, chain CB [auth D] MOL2 format, chain BB [auth C] MOL2 format, chain AB [auth C] MOL2 format, chain AA [auth E] mmCIF format, chain ZA [auth C] mmCIF format, chain X [auth E] mmCIF format, chain WA [auth C] mmCIF format, chain U [auth E] mmCIF format, chain TA [auth C] mmCIF format, chain T [auth E] mmCIF format, chain S [auth E] mmCIF format, chain Q [auth A] mmCIF format, chain PA [auth B] mmCIF format, chain P [auth A] mmCIF format, chain OA [auth B] mmCIF format, chain O [auth A] mmCIF format, chain NA [auth B] mmCIF format, chain LB [auth D] mmCIF format, chain KA [auth B] mmCIF format, chain K [auth A] mmCIF format, chain IB [auth D] mmCIF format, chain HA [auth B] mmCIF format, chain H [auth A] mmCIF format, chain EB [auth D] mmCIF format, chain DB [auth D] mmCIF format, chain CB [auth D] mmCIF format, chain BB [auth C] mmCIF format, chain AB [auth C] mmCIF format, chain AA [auth E]	AA [auth E] AB [auth C] BB [auth C] CB [auth D] DB [auth D] AA [auth E], AB [auth C], BB [auth C], CB [auth D], DB [auth D], EB [auth D], H [auth A], HA [auth B], IB [auth D], K [auth A], KA [auth B], LB [auth D], NA [auth B], O [auth A], OA [auth B], P [auth A], PA [auth B], Q [auth A], S [auth E], T [auth E], TA [auth C], U [auth E], WA [auth C], X [auth E], ZA [auth C]	N-OCTANE C₈ H₁₈ TVMXDCGIABBOFY-UHFFFAOYSA-N		Interactions Focus chain AA [auth E] Focus chain AB [auth C] Focus chain BB [auth C] Focus chain CB [auth D] Focus chain DB [auth D] Focus chain EB [auth D] Focus chain H [auth A] Focus chain HA [auth B] Focus chain IB [auth D] Focus chain K [auth A] Focus chain KA [auth B] Focus chain LB [auth D] Focus chain NA [auth B] Focus chain O [auth A] Focus chain OA [auth B] Focus chain P [auth A] Focus chain PA [auth B] Focus chain Q [auth A] Focus chain S [auth E] Focus chain T [auth E] Focus chain TA [auth C] Focus chain U [auth E] Focus chain WA [auth C] Focus chain X [auth E] Focus chain ZA [auth C] Interactions & Density Focus chain AA [auth E] Focus chain AB [auth C] Focus chain BB [auth C] Focus chain CB [auth D] Focus chain DB [auth D] Focus chain EB [auth D] Focus chain H [auth A] Focus chain HA [auth B] Focus chain IB [auth D] Focus chain K [auth A] Focus chain KA [auth B] Focus chain LB [auth D] Focus chain NA [auth B] Focus chain O [auth A] Focus chain OA [auth B] Focus chain P [auth A] Focus chain PA [auth B] Focus chain Q [auth A] Focus chain S [auth E] Focus chain T [auth E] Focus chain TA [auth C] Focus chain U [auth E] Focus chain WA [auth C] Focus chain X [auth E] Focus chain ZA [auth C]
ABU Query on ABU Download:Ideal Coordinates CCD File SDF format, chain QA [auth C] SDF format, chain N [auth A] SDF format, chain FB [auth D] SDF format, chain EA [auth B] SDF format, chain DA [auth E] MOL2 format, chain QA [auth C] MOL2 format, chain N [auth A] MOL2 format, chain FB [auth D] MOL2 format, chain EA [auth B] MOL2 format, chain DA [auth E] mmCIF format, chain QA [auth C] mmCIF format, chain N [auth A] mmCIF format, chain FB [auth D] mmCIF format, chain EA [auth B] mmCIF format, chain DA [auth E]	DA [auth E], EA [auth B], FB [auth D], N [auth A], QA [auth C]	GAMMA-AMINO-BUTANOIC ACID C₄ H₉ N O₂ BTCSSZJGUNDROE-UHFFFAOYSA-N		Interactions Focus chain DA [auth E] Focus chain EA [auth B] Focus chain FB [auth D] Focus chain N [auth A] Focus chain QA [auth C] Interactions & Density Focus chain DA [auth E] Focus chain EA [auth B] Focus chain FB [auth D] Focus chain N [auth A] Focus chain QA [auth C]
HEX Query on HEX Download:Ideal Coordinates CCD File SDF format, chain Z [auth E] SDF format, chain Y [auth E] SDF format, chain XA [auth C] SDF format, chain VA [auth C] SDF format, chain UA [auth C] SDF format, chain MB [auth D] SDF format, chain LA [auth B] SDF format, chain L [auth A] SDF format, chain KB [auth D] SDF format, chain JB [auth D] SDF format, chain JA [auth B] SDF format, chain J [auth A] SDF format, chain IA [auth B] SDF format, chain I [auth A] SDF format, chain BA [auth E] MOL2 format, chain Z [auth E] MOL2 format, chain Y [auth E] MOL2 format, chain XA [auth C] MOL2 format, chain VA [auth C] MOL2 format, chain UA [auth C] MOL2 format, chain MB [auth D] MOL2 format, chain LA [auth B] MOL2 format, chain L [auth A] MOL2 format, chain KB [auth D] MOL2 format, chain JB [auth D] MOL2 format, chain JA [auth B] MOL2 format, chain J [auth A] MOL2 format, chain IA [auth B] MOL2 format, chain I [auth A] MOL2 format, chain BA [auth E] mmCIF format, chain Z [auth E] mmCIF format, chain Y [auth E] mmCIF format, chain XA [auth C] mmCIF format, chain VA [auth C] mmCIF format, chain UA [auth C] mmCIF format, chain MB [auth D] mmCIF format, chain LA [auth B] mmCIF format, chain L [auth A] mmCIF format, chain KB [auth D] mmCIF format, chain JB [auth D] mmCIF format, chain JA [auth B] mmCIF format, chain J [auth A] mmCIF format, chain IA [auth B] mmCIF format, chain I [auth A] mmCIF format, chain BA [auth E]	BA [auth E] I [auth A] IA [auth B] J [auth A] JA [auth B] BA [auth E], I [auth A], IA [auth B], J [auth A], JA [auth B], JB [auth D], KB [auth D], L [auth A], LA [auth B], MB [auth D], UA [auth C], VA [auth C], XA [auth C], Y [auth E], Z [auth E]	HEXANE C₆ H₁₄ VLKZOEOYAKHREP-UHFFFAOYSA-N		Interactions Focus chain BA [auth E] Focus chain I [auth A] Focus chain IA [auth B] Focus chain J [auth A] Focus chain JA [auth B] Focus chain JB [auth D] Focus chain KB [auth D] Focus chain L [auth A] Focus chain LA [auth B] Focus chain MB [auth D] Focus chain UA [auth C] Focus chain VA [auth C] Focus chain XA [auth C] Focus chain Y [auth E] Focus chain Z [auth E] Interactions & Density Focus chain BA [auth E] Focus chain I [auth A] Focus chain IA [auth B] Focus chain J [auth A] Focus chain JA [auth B] Focus chain JB [auth D] Focus chain KB [auth D] Focus chain L [auth A] Focus chain LA [auth B] Focus chain MB [auth D] Focus chain UA [auth C] Focus chain VA [auth C] Focus chain XA [auth C] Focus chain Y [auth E] Focus chain Z [auth E]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain R [auth A] MOL2 format, chain R [auth A] mmCIF format, chain R [auth A]	R [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain R [auth A] Interactions & Density Focus chain R [auth A]

Binding Affinity Annotations
ID	Source	Binding Affinity
ABU	BindingDB: 8RH7	EC50: min: 269, max: 1190 (nM) from 7 assay(s)

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.78 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-08-28

Deposition Author(s):

Funding Organization	Location	Grant Number
Swedish Research Council	Sweden	--

Revision History (Full details and data files)

Version 1.0: 2024-08-28
Type: Initial release
Version 1.1: 2024-11-06
Changes: Data collection, Structure summary
Version 1.2: 2025-07-09
Changes: Data collection

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.