2BCJ

Crystal Structure of G Protein-Coupled Receptor Kinase 2 in Complex with Galpha-q and Gbetagamma Subunits

PDB DOI: https://doi.org/10.2210/pdb2BCJ/pdb

Classification: TRANSFERASE/HYDROLASE
Organism(s): Bos taurus, Rattus norvegicus, Mus musculus
Expression System: Trichoplusia ni
Mutation(s): Yes
Membrane Protein: Yes OPM

Deposited: 2005-10-19 Released: 2005-12-20
Deposition Author(s): Tesmer, J.J.G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.06 Å
R-Value Free: 0.292
R-Value Work: 0.243
R-Value Observed: 0.236

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.5 of the entry. See complete history.

Literature

Snapshot of Activated G Proteins at the Membrane: The Gq-GRK2-G Complex

Tesmer, V.M., Kawano, T., Shankaranarayanan, A., Kozasa, T., Tesmer, J.J.G.

(2005) Science 310: 1686-1690

PubMed: 16339447 Search on PubMed
DOI: https://doi.org/10.1126/science.1118890
Primary Citation of Related Structures:
2BCJ

PubMed Abstract:
G protein-coupled receptor kinase 2 (GRK2) plays a key role in the desensitization of G protein-coupled receptor signaling by phosphorylating activated heptahelical receptors and by sequestering heterotrimeric G proteins. We report the atomic structure of GRK2 in complex with Galphaq and Gbetagamma, in which the activated Galpha subunit of Gq is fully dissociated from Gbetagamma and dramatically reoriented from its position in the inactive Galphabetagamma heterotrimer. Galphaq forms an effector-like interaction with the GRK2 regulator of G protein signaling (RGS) homology domain that is distinct from and does not overlap with that used to bind RGS proteins such as RGS4.

Organizational Affiliation

Institute for Cellular and Molecular Biology, Department of Chemistry and Biochemistry, University of Texas at Austin, Austin, TX 78712, USA.

Macromolecule Content

Total Structure Weight: 166.78 kDa
Atom Count: 10,878
Modelled Residue Count: 1,345
Deposited Residue Count: 1,453
Unique protein chains: 4

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
G-protein-coupled receptor kinase 2	A	689	Bos taurus	Mutation(s): 1 Gene Names: GRK2, ADRBK1 EC: 2.7.11.15 Membrane Entity: Yes
UniProt
Find proteins for P21146 (Bos taurus) Explore P21146 Go to UniProtKB: P21146
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P21146
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	340	Bos taurus	Mutation(s): 1 Gene Names: GNB1
UniProt
Find proteins for P62871 (Bos taurus) Explore P62871 Go to UniProtKB: P62871
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P62871
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C [auth G]	71	Bos taurus	Mutation(s): 1 Gene Names: GNG2 Membrane Entity: Yes
UniProt
Find proteins for P63212 (Bos taurus) Explore P63212 Go to UniProtKB: P63212
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P63212
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1, Guanine nucleotide-binding protein G(q) subunit alpha chimera	D [auth Q]	353	Rattus norvegicus, Mus musculus This entity is chimeric	Mutation(s): 0 Gene Names: Gnai1, Gnai-1, Gnaq EC: 3.6.5 Membrane Entity: Yes
UniProt
Find proteins for P10824 (Rattus norvegicus) Explore P10824 Go to UniProtKB: P10824
Find proteins for P21279 (Mus musculus) Explore P21279 Go to UniProtKB: P21279
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Groups	P21279P10824
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GDP Query on GDP Download Ideal Coordinates CCD File SDF format, chain G [auth Q] MOL2 format, chain G [auth Q] mmCIF format, chain G [auth Q]	G [auth Q]	GUANOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₁ P₂ QGWNDRXFNXRZMB-UUOKFMHZSA-N		Interactions Focus chain G [auth Q] Interactions & Density Focus chain G [auth Q]
ALF Query on ALF Download Ideal Coordinates CCD File SDF format, chain F [auth Q] MOL2 format, chain F [auth Q] mmCIF format, chain F [auth Q]	F [auth Q]	TETRAFLUOROALUMINATE ION Al F₄ UYOMQIYKOOHAMK-UHFFFAOYSA-J		Interactions Focus chain F [auth Q] Interactions & Density Focus chain F [auth Q]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain E [auth Q] MOL2 format, chain E [auth Q] mmCIF format, chain E [auth Q]	E [auth Q]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain E [auth Q] Interactions & Density Focus chain E [auth Q]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.06 Å
R-Value Free: 0.292
R-Value Work: 0.243
R-Value Observed: 0.236
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.918	α = 90
b = 129.954	β = 95.81
c = 122.764	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2005-12-20

Deposition Author(s):

Tesmer, J.J.G.

Revision History (Full details and data files)

Version 1.0: 2005-12-20
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.3: 2017-06-28
Changes: Database references, Source and taxonomy, Structure summary
Version 1.4: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.5: 2024-10-16
Changes: Structure summary