9FOW

GPR180 N-terminal domain

PDB DOI: https://doi.org/10.2210/pdb9FOW/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Mus musculus
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2024-06-12 Released: 2024-10-16
Deposition Author(s): Mitrovic, S.A., Reindl, S., Nar, H.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free: 0.237
R-Value Work: 0.221
R-Value Observed: 0.222

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

GPR180 a new member of the Golgi-dynamics domain seven-transmembrane helix protein family

Mitrovic, S.A., Reindl, S., Nar, H.

To be published.

Macromolecule Content

Total Structure Weight: 51.37 kDa
Atom Count: 3,372
Modelled Residue Count: 390
Deposited Residue Count: 438
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Integral membrane protein GPR180	A, B, C	146	Mus musculus	Mutation(s): 0 Gene Names: Gpr180, MNCb-3029
UniProt
Find proteins for Q8BPS4 (Mus musculus) Explore Q8BPS4 Go to UniProtKB: Q8BPS4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8BPS4
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B Focus chain C	Go to GlyGen: Q8BPS4-1
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	D	4		N-Glycosylation	Interactions Focus chain D

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	E	5		N-Glycosylation	Interactions Focus chain E

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG (Subject of Investigation/LOI) Query on NAG Download Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain F [auth A]
GOL (Subject of Investigation/LOI) Query on GOL Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain I [auth B] SDF format, chain K [auth B] SDF format, chain M [auth C] MOL2 format, chain G [auth A] MOL2 format, chain I [auth B] MOL2 format, chain K [auth B] MOL2 format, chain M [auth C] mmCIF format, chain G [auth A] mmCIF format, chain I [auth B] mmCIF format, chain K [auth B] mmCIF format, chain M [auth C]	G [auth A], I [auth B], K [auth B], M [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain I [auth B] Focus chain K [auth B] Focus chain M [auth C]
ACT (Subject of Investigation/LOI) Query on ACT Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain J [auth B] SDF format, chain L [auth B] MOL2 format, chain H [auth A] MOL2 format, chain J [auth B] MOL2 format, chain L [auth B] mmCIF format, chain H [auth A] mmCIF format, chain J [auth B] mmCIF format, chain L [auth B]	H [auth A], J [auth B], L [auth B]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain H [auth A] Focus chain J [auth B] Focus chain L [auth B]