9FQK | pdb_00009fqk

Perkinsus marinus Respiratory complex II soluble region

PDB DOI: https://doi.org/10.2210/pdb9FQK/pdb
EM Map EMD-50398: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Perkinsus marinus
Mutation(s): No

Deposited: 2024-06-17 Released: 2025-07-02
Deposition Author(s): Wu, F., Amunts, A.
Funding Organization(s): European Research Council (ERC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9FQK

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

Literature

Perkinsus marinus Respiratory complex II soluble region

Wu, F., Amunts, A.

To be published.

Macromolecule Content

Total Structure Weight: 96.92 kDa
Atom Count: 6,743
Modeled Residue Count: 863
Deposited Residue Count: 863
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial	A [auth 2m]	604	Perkinsus marinus	Mutation(s): 0 EC: 1.3.5.1
UniProt
Find proteins for C5LYE7 (Perkinsus marinus (strain ATCC 50983 / TXsc)) Explore C5LYE7 Go to UniProtKB: C5LYE7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C5LYE7
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial	B [auth 2n]	259	Perkinsus marinus	Mutation(s): 0 EC: 1.3.5.1
UniProt
Find proteins for C5LYT4 (Perkinsus marinus (strain ATCC 50983 / TXsc)) Explore C5LYT4 Go to UniProtKB: C5LYT4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C5LYT4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FAD (Subject of Investigation/LOI) Query on FAD Download:Ideal Coordinates CCD File SDF format, chain C [auth 2m] MOL2 format, chain C [auth 2m] mmCIF format, chain C [auth 2m]	C [auth 2m]	FLAVIN-ADENINE DINUCLEOTIDE C₂₇ H₃₃ N₉ O₁₅ P₂ VWWQXMAJTJZDQX-UYBVJOGSSA-N		Interactions Focus chain C [auth 2m] Interactions & Density Focus chain C [auth 2m]
SF4 (Subject of Investigation/LOI) Query on SF4 Download:Ideal Coordinates CCD File SDF format, chain E [auth 2n] MOL2 format, chain E [auth 2n] mmCIF format, chain E [auth 2n]	E [auth 2n]	IRON/SULFUR CLUSTER Fe₄ S₄ LJBDFODJNLIPKO-UHFFFAOYSA-N		Interactions Focus chain E [auth 2n] Interactions & Density Focus chain E [auth 2n]
F3S Query on F3S Download:Ideal Coordinates CCD File SDF format, chain F [auth 2n] MOL2 format, chain F [auth 2n] mmCIF format, chain F [auth 2n]	F [auth 2n]	FE3-S4 CLUSTER Fe₃ S₄ FCXHZBQOKRZXKS-UHFFFAOYSA-N		Interactions Focus chain F [auth 2n] Interactions & Density Focus chain F [auth 2n]
FES (Subject of Investigation/LOI) Query on FES Download:Ideal Coordinates CCD File SDF format, chain D [auth 2n] MOL2 format, chain D [auth 2n] mmCIF format, chain D [auth 2n]	D [auth 2n]	FE2/S2 (INORGANIC) CLUSTER Fe₂ S₂ NIXDOXVAJZFRNF-UHFFFAOYSA-N		Interactions Focus chain D [auth 2n] Interactions & Density Focus chain D [auth 2n]
K (Subject of Investigation/LOI) Query on K Download:Ideal Coordinates CCD File SDF format, chain G [auth 2n] MOL2 format, chain G [auth 2n] mmCIF format, chain G [auth 2n]	G [auth 2n]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain G [auth 2n] Interactions & Density Focus chain G [auth 2n]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-07-02

Deposition Author(s):

Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	ERC-2018-StG-805230

Revision History (Full details and data files)

Version 1.0: 2025-07-02
Type: Initial release

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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.