9WUV | pdb_00009wuv

Structure of dimeric Tribolium castaneum (Tc) PINK1 L552R mutant in complex with Ca2+

PDB DOI: https://doi.org/10.2210/pdb9WUV/pdb
EM Map EMD-66272: EMDB EMDataResource

Classification: TRANSFERASE
Organism(s): Tribolium castaneum
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2025-09-19 Released: 2026-09-23
Deposition Author(s): Xu, H.Q., Liu, X.Y., Xue, J.R., Li, B.X., Yu, X.R., Chen, C., Qin, X.H., Mi, L.Z., Liu, Z.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.81 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9WUV

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

Literature

Structure of dimeric Tribolium castaneum (Tc) PINK1 L552R mutant in complex with Ca2+

Xu, H.Q., Liu, X.Y., Xue, J.R., Li, B.X., Yu, X.R., Chen, C., Qin, X.H., Mi, L.Z., Liu, Z.

To be published.

Macromolecule Content

Total Structure Weight: 103.06 kDa
Atom Count: 5,626
Modeled Residue Count: 700
Deposited Residue Count: 904
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase Pink1, mitochondrial	A [auth B], B [auth A]	452	Tribolium castaneum	Mutation(s): 1 Gene Names: Pink1, TcasGA2_TC013202 EC: 2.7.11.1
UniProt
Find proteins for D6WMX4 (Tribolium castaneum) Explore D6WMX4 Go to UniProtKB: D6WMX4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	D6WMX4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain C [auth B] SDF format, chain D [auth A] MOL2 format, chain C [auth B] MOL2 format, chain D [auth A] mmCIF format, chain C [auth B] mmCIF format, chain D [auth A]	C [auth B], D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Focus chain D [auth A] Interactions & Density Focus chain C [auth B] Focus chain D [auth A]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO Query on TPO	A [auth B], B [auth A]	L-PEPTIDE LINKING	C₄ H₁₀ N O₆ P		THR

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.81 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-23

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	#31670738, # 31470730, # 32241028, # 82070329

Revision History (Full details and data files)

Version 1.0: 2026-09-23
Type: Initial release