9PXB | pdb_00009pxb

Hamster Scap/Insig-2 complex with cholesterol and bound Fab4G10

PDB DOI: https://doi.org/10.2210/pdb9PXB/pdb
EM Map EMD-71964: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Cricetulus griseus, Mus musculus
Expression System: Homo sapiens
Mutation(s): Yes

Deposited: 2025-08-05 Released: 2025-12-24
Deposition Author(s): Williams, B.C., Kober, D.L., Bai, X., Radhakrishnan, A., Rosenbaum, D.M.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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

Hamster Scap/Insig-2 bound to cholesterol

Williams, B.C., Rosenbaum, D.M.

To be published.

Macromolecule Content

Total Structure Weight: 168.09 kDa
Atom Count: 7,638
Modeled Residue Count: 950
Deposited Residue Count: 1,503
Unique protein chains: 4

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sterol regulatory element-binding protein cleavage-activating protein	A	797	Cricetulus griseus	Mutation(s): 7 Gene Names: SCAP
UniProt
Find proteins for P97260 (Cricetulus griseus) Explore P97260 Go to UniProtKB: P97260
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P97260
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin-induced gene protein	B [auth C]	225	Cricetulus griseus	Mutation(s): 0 Gene Names: Insig2
UniProt
Find proteins for Q8CFA5 (Cricetulus griseus) Explore Q8CFA5 Go to UniProtKB: Q8CFA5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8CFA5
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab4G10 heavy chain	C [auth H]	252	Mus musculus	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab4G10 light chain	D [auth L]	229	Mus musculus	Mutation(s): 0

Oligosaccharides

Help

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E [auth B]	2		N-Glycosylation	Interactions Focus chain E [auth B] Interactions & Density Focus chain E [auth B]
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CLR (Subject of Investigation/LOI) Query on CLR Download:Ideal Coordinates CCD File SDF format, chain H [auth C] SDF format, chain G [auth C] SDF format, chain F [auth C] MOL2 format, chain H [auth C] MOL2 format, chain G [auth C] MOL2 format, chain F [auth C] mmCIF format, chain H [auth C] mmCIF format, chain G [auth C] mmCIF format, chain F [auth C]	F [auth C], G [auth C], H [auth C]	CHOLESTEROL C₂₇ H₄₆ O HVYWMOMLDIMFJA-DPAQBDIFSA-N		Interactions Focus chain F [auth C] Focus chain G [auth C] Focus chain H [auth C] Interactions & Density Focus chain F [auth C] Focus chain G [auth C] Focus chain H [auth C]

Experimental Data & Validation

Experimental Data

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

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:
RECONSTRUCTION	RELION

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-12-24

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM116387
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)	United States	P01HL160487
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01AI158357