9BTX

Structure of human MAIT A-F7 TCR in complex with human MR1-3,4-dihydroxybenzaldehyde

PDB DOI: https://doi.org/10.2210/pdb9BTX/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-05-15 Released: 2024-12-25
Deposition Author(s): Awad, W., Rossjohn, J.
Funding Organization(s): Australian Research Council (ARC), National Health and Medical Research Council (NHMRC, Australia)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.218
R-Value Work: 0.185
R-Value Observed: 0.186

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structure of human MAIT A-F7 TCR in complex with human MR1-3,4-dihydroxybenzaldehyde

Awad, W., Rossjohn, J.

(2024) J Exp Med

DOI: https://doi.org/10.1084/jem.20240896

Macromolecule Content

Total Structure Weight: 189.39 kDa
Atom Count: 13,755
Modelled Residue Count: 1,601
Deposited Residue Count: 1,642
Unique protein chains: 4

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major histocompatibility complex class I-related gene protein	A, C	271	Homo sapiens	Mutation(s): 0 Gene Names: MR1
UniProt & NIH Common Fund Data Resources
Find proteins for Q95460 (Homo sapiens) Explore Q95460 Go to UniProtKB: Q95460
PHAROS: Q95460 GTEx: ENSG00000153029
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q95460
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	B, F	100	Homo sapiens	Mutation(s): 0 Gene Names: B2M, CDABP0092, HDCMA22P
UniProt & NIH Common Fund Data Resources
Find proteins for P61769 (Homo sapiens) Explore P61769 Go to UniProtKB: P61769
PHAROS: P61769 GTEx: ENSG00000166710
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P61769
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Human TCR TRAV1-2_ALPHA	D, G	204	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Human TCR TRBV6-1_BETA	E, H	246	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
H6N (Subject of Investigation/LOI) Query on H6N Download Ideal Coordinates CCD File SDF format, chain K [auth A] SDF format, chain R [auth C] MOL2 format, chain K [auth A] MOL2 format, chain R [auth C] mmCIF format, chain K [auth A] mmCIF format, chain R [auth C]	K [auth A], R [auth C]	Protocatechuic aldehyde C₇ H₆ O₃ IBGBGRVKPALMCQ-UHFFFAOYSA-N		Interactions Focus chain K [auth A] Focus chain R [auth C] Interactions & Density Focus chain K [auth A] Focus chain R [auth C]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain P [auth A] SDF format, chain Q [auth C] SDF format, chain V [auth F] SDF format, chain X [auth G] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain P [auth A] MOL2 format, chain Q [auth C] MOL2 format, chain V [auth F] MOL2 format, chain X [auth G] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A] mmCIF format, chain P [auth A] mmCIF format, chain Q [auth C] mmCIF format, chain V [auth F] mmCIF format, chain X [auth G]	I [auth A] J [auth A] P [auth A] Q [auth C] V [auth F] I [auth A], J [auth A], P [auth A], Q [auth C], V [auth F], X [auth G]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain J [auth A] Focus chain P [auth A] Focus chain Q [auth C] Focus chain V [auth F] Focus chain X [auth G] Interactions & Density Focus chain I [auth A] Focus chain J [auth A] Focus chain P [auth A] Focus chain Q [auth C] Focus chain V [auth F] Focus chain X [auth G]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain L [auth A] SDF format, chain M [auth A] SDF format, chain N [auth A] SDF format, chain O [auth A] SDF format, chain S [auth C] SDF format, chain T [auth C] SDF format, chain U [auth D] MOL2 format, chain L [auth A] MOL2 format, chain M [auth A] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] MOL2 format, chain S [auth C] MOL2 format, chain T [auth C] MOL2 format, chain U [auth D] mmCIF format, chain L [auth A] mmCIF format, chain M [auth A] mmCIF format, chain N [auth A] mmCIF format, chain O [auth A] mmCIF format, chain S [auth C] mmCIF format, chain T [auth C] mmCIF format, chain U [auth D]	L [auth A] M [auth A] N [auth A] O [auth A] S [auth C] L [auth A], M [auth A], N [auth A], O [auth A], S [auth C], T [auth C], U [auth D]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain S [auth C] Focus chain T [auth C] Focus chain U [auth D] Interactions & Density Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain S [auth C] Focus chain T [auth C] Focus chain U [auth D]
NA Query on NA Download Ideal Coordinates CCD File SDF format, chain W [auth F] SDF format, chain Y [auth H] MOL2 format, chain W [auth F] MOL2 format, chain Y [auth H] mmCIF format, chain W [auth F] mmCIF format, chain Y [auth H]	W [auth F], Y [auth H]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain W [auth F] Focus chain Y [auth H] Interactions & Density Focus chain W [auth F] Focus chain Y [auth H]