8DFY

Crystal structure of Human BTN2A1 Ectodomain

PDB DOI: https://doi.org/10.2210/pdb8DFY/pdb

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

Deposited: 2022-06-22 Released: 2023-07-05
Deposition Author(s): Fulford, T.S., Soliman, C., Castle, R.G., Rigau, M., Ruan, Z., Dolezal, O., Seneviratna, R., Brown, H.G., Hanssen, E., Hammet, A., Li, S., Redmond, S.J., Chung, A., Gorman, M.A., Parker, M.W., Patel, O., Peat, T.S., Newman, J., Behren, A., Gherardin, N.A., Godfrey, D.I., Uldrich, A.P.
Funding Organization(s): National Health and Medical Research Council (NHMRC, Australia)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.55 Å
R-Value Free:
0.268 (Depositor), 0.260 (DCC)
R-Value Work:
0.255 (Depositor), 0.250 (DCC)
R-Value Observed:
0.256 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Vgamma9-Vdelta2 T cells recognize butyrophilin 2A1 and 3A1 heteromers

Fulford, T.S., Soliman, C., Castle, R.G., Rigau, M., Ruan, Z., Dolezal, O., Seneviratna, R., Brown, H.G., Hanssen, E., Hammet, A., Li, S., Redmond, S.J., Chung, A., Gorman, M.A., Parker, M.W., Patel, O., Peat, T.S., Newman, J., Behren, A., Gherardin, N.A., Godfrey, D.I., Uldrich, A.P.

To be published.

Macromolecule Content

Total Structure Weight: 134.32 kDa
Atom Count: 8,993
Modelled Residue Count: 1,087
Deposited Residue Count: 1,130
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Butyrophilin subfamily 2 member A1	A, B, C, D, E	226	Homo sapiens	Mutation(s): 0 Gene Names: BTN2A1, BT2.1, BTF1
UniProt & NIH Common Fund Data Resources
Find proteins for Q7KYR7 (Homo sapiens) Explore Q7KYR7 Go to UniProtKB: Q7KYR7
PHAROS: Q7KYR7 GTEx: ENSG00000112763
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q7KYR7
Glycosylation
Glycosylation Sites: 4	Glycosylation Focus chain A Focus chain B Focus chain C Focus chain D Focus chain E	Go to GlyGen: Q7KYR7-2
Sequence Annotations Expand
Reference Sequence LOADING

Oligosaccharides

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Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	F, G, H, I, J F, G, H, I, J, L, M	3		N-Glycosylation	Interactions Focus chain F Focus chain G Focus chain H Focus chain I Focus chain J Focus chain L Focus chain M Interactions & Density Focus chain F Focus chain G Focus chain H Focus chain I Focus chain J Focus chain L Focus chain M
Glycosylation Resources
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	K	2		N-Glycosylation	Interactions Focus chain K Interactions & Density Focus chain K
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain N [auth A] SDF format, chain O [auth A] SDF format, chain P [auth A] SDF format, chain Q [auth B] SDF format, chain R [auth B] SDF format, chain S [auth B] SDF format, chain T [auth C] SDF format, chain U [auth C] SDF format, chain V [auth D] SDF format, chain W [auth D] SDF format, chain X [auth E] SDF format, chain Y [auth E] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] MOL2 format, chain P [auth A] MOL2 format, chain Q [auth B] MOL2 format, chain R [auth B] MOL2 format, chain S [auth B] MOL2 format, chain T [auth C] MOL2 format, chain U [auth C] MOL2 format, chain V [auth D] MOL2 format, chain W [auth D] MOL2 format, chain X [auth E] MOL2 format, chain Y [auth E] mmCIF format, chain N [auth A] mmCIF format, chain O [auth A] mmCIF format, chain P [auth A] mmCIF format, chain Q [auth B] mmCIF format, chain R [auth B] mmCIF format, chain S [auth B] mmCIF format, chain T [auth C] mmCIF format, chain U [auth C] mmCIF format, chain V [auth D] mmCIF format, chain W [auth D] mmCIF format, chain X [auth E] mmCIF format, chain Y [auth E]	N [auth A] O [auth A] P [auth A] Q [auth B] R [auth B] N [auth A], O [auth A], P [auth A], Q [auth B], R [auth B], S [auth B], T [auth C], U [auth C], V [auth D], W [auth D], X [auth E], Y [auth E]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain Q [auth B] Focus chain R [auth B] Focus chain S [auth B] Focus chain T [auth C] Focus chain U [auth C] Focus chain V [auth D] Focus chain W [auth D] Focus chain X [auth E] Focus chain Y [auth E] Interactions & Density Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain Q [auth B] Focus chain R [auth B] Focus chain S [auth B] Focus chain T [auth C] Focus chain U [auth C] Focus chain V [auth D] Focus chain W [auth D] Focus chain X [auth E] Focus chain Y [auth E]