8RVD | pdb_00008rvd

Unbound murine diabetogenic 4.1 TCR

PDB DOI: https://doi.org/10.2210/pdb8RVD/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-02-01 Released: 2025-02-12
Deposition Author(s): Lopez-Sagaseta, J., Erausquin, E.
Funding Organization(s): Spanish Ministry of Science, Innovation, and Universities

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.266 (Depositor), 0.282 (DCC)
R-Value Work:
0.216 (Depositor), 0.230 (DCC)
R-Value Observed:
0.219 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Unbound murine diabetogenic 4.1 TCR

Lopez-Sagaseta, J., Erausquin, E.

To be published.

Macromolecule Content

Total Structure Weight: 404.84 kDa
Atom Count: 25,719
Modeled Residue Count: 3,447
Deposited Residue Count: 3,592
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4.1 TCR beta chain	A [auth E] C [auth A] E [auth C] G [auth F] I A [auth E], C [auth A], E [auth C], G [auth F], I, K, M, O	242	Mus musculus	Mutation(s): 0
UniProt
Find proteins for P01850 (Homo sapiens) Explore P01850 Go to UniProtKB: P01850
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P01850
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
4.1 TCR alpha chain	B [auth H] D [auth B] F [auth D] H [auth G] J B [auth H], D [auth B], F [auth D], H [auth G], J, L, N, P	207	Mus musculus	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P01848 (Homo sapiens) Explore P01848 Go to UniProtKB: P01848
PHAROS: P01848
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P01848
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 Download:Ideal Coordinates CCD File SDF format, chain X [auth O] SDF format, chain W [auth O] SDF format, chain V [auth M] SDF format, chain U [auth J] SDF format, chain T [auth I] SDF format, chain S [auth B] SDF format, chain R [auth A] SDF format, chain Q [auth E] MOL2 format, chain X [auth O] MOL2 format, chain W [auth O] MOL2 format, chain V [auth M] MOL2 format, chain U [auth J] MOL2 format, chain T [auth I] MOL2 format, chain S [auth B] MOL2 format, chain R [auth A] MOL2 format, chain Q [auth E] mmCIF format, chain X [auth O] mmCIF format, chain W [auth O] mmCIF format, chain V [auth M] mmCIF format, chain U [auth J] mmCIF format, chain T [auth I] mmCIF format, chain S [auth B] mmCIF format, chain R [auth A] mmCIF format, chain Q [auth E]	Q [auth E] R [auth A] S [auth B] T [auth I] U [auth J] Q [auth E], R [auth A], S [auth B], T [auth I], U [auth J], V [auth M], W [auth O], X [auth O]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain Q [auth E] Focus chain R [auth A] Focus chain S [auth B] Focus chain T [auth I] Focus chain U [auth J] Focus chain V [auth M] Focus chain W [auth O] Focus chain X [auth O] Interactions & Density Focus chain Q [auth E] Focus chain R [auth A] Focus chain S [auth B] Focus chain T [auth I] Focus chain U [auth J] Focus chain V [auth M] Focus chain W [auth O] Focus chain X [auth O]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain Y [auth O] MOL2 format, chain Y [auth O] mmCIF format, chain Y [auth O]	Y [auth O]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain Y [auth O] Interactions & Density Focus chain Y [auth O]