8es8

CryoEM structure of PN45545 TCR-CD3 in complex with HLA-A2 MAGEA4 (230-239)

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

T-cell surface glycoprotein CD3 zeta chain

Homo sapiens

UniProt P20963

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 delta chain × 1 (P04234) T-cell surface glycoprotein CD3 epsilon chain × 2 (P07766) T-cell surface glycoprotein CD3 gamma chain × 1 (P09693) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 MHC class I antigen × 1 (Q861F7) Beta-2-microglobulin × 1 (P61769) Melanoma-associated antigen 4 × 1 (P43358) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name CD3Z_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain Y; PDBConstruct 1–164; UniProt 1–164 Author chain Z; PDBConstruct 1–164; UniProt 1–164

T-cell surface glycoprotein CD3 delta chain

Homo sapiens

UniProt P04234

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 zeta chain × 2 (P20963) T-cell surface glycoprotein CD3 epsilon chain × 2 (P07766) T-cell surface glycoprotein CD3 gamma chain × 1 (P09693) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 MHC class I antigen × 1 (Q861F7) Beta-2-microglobulin × 1 (P61769) Melanoma-associated antigen 4 × 1 (P43358) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name CD3D_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain D; PDBConstruct 1–171; UniProt 1–171

T-cell surface glycoprotein CD3 epsilon chain

Homo sapiens

UniProt P07766

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 zeta chain × 2 (P20963) T-cell surface glycoprotein CD3 delta chain × 1 (P04234) T-cell surface glycoprotein CD3 gamma chain × 1 (P09693) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 MHC class I antigen × 1 (Q861F7) Beta-2-microglobulin × 1 (P61769) Melanoma-associated antigen 4 × 1 (P43358) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name CD3E_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain E; PDBConstruct 3–208; UniProt 2–207 Author chain F; PDBConstruct 3–208; UniProt 2–207

T-cell surface glycoprotein CD3 gamma chain

Homo sapiens

UniProt P09693

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 zeta chain × 2 (P20963) T-cell surface glycoprotein CD3 delta chain × 1 (P04234) T-cell surface glycoprotein CD3 epsilon chain × 2 (P07766) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 MHC class I antigen × 1 (Q861F7) Beta-2-microglobulin × 1 (P61769) Melanoma-associated antigen 4 × 1 (P43358) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name CD3G_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain G; PDBConstruct 1–182; UniProt 1–182

MHC class I antigen

Homo sapiens

UniProt Q861F7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 zeta chain × 2 (P20963) T-cell surface glycoprotein CD3 delta chain × 1 (P04234) T-cell surface glycoprotein CD3 epsilon chain × 2 (P07766) T-cell surface glycoprotein CD3 gamma chain × 1 (P09693) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 Beta-2-microglobulin × 1 (P61769) Melanoma-associated antigen 4 × 1 (P43358) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name Q861F7_HUMAN
Isoform —
PDB entities 7
Chains and sequence ranges Author chain N; PDBConstruct 2–277; UniProt 1–276

Beta-2-microglobulin

Homo sapiens

UniProt P61769

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 zeta chain × 2 (P20963) T-cell surface glycoprotein CD3 delta chain × 1 (P04234) T-cell surface glycoprotein CD3 epsilon chain × 2 (P07766) T-cell surface glycoprotein CD3 gamma chain × 1 (P09693) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 MHC class I antigen × 1 (Q861F7) Melanoma-associated antigen 4 × 1 (P43358) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name B2MG_HUMAN
Isoform —
PDB entities 8
Chains and sequence ranges Author chain M; PDBConstruct 2–100; UniProt 21–119

Melanoma-associated antigen 4

OrganismNot specified

UniProt P43358

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 11 其他Polymer 6 T-cell surface glycoprotein CD3 zeta chain × 2 (P20963) T-cell surface glycoprotein CD3 delta chain × 1 (P04234) T-cell surface glycoprotein CD3 epsilon chain × 2 (P07766) T-cell surface glycoprotein CD3 gamma chain × 1 (P09693) PN45545 TCR alpha chain × 1 PN45545 TCR beta chain × 1 MHC class I antigen × 1 (Q861F7) Beta-2-microglobulin × 1 (P61769) beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CHOLESTEROL HEMISUCCINATE × 1 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name MAGA4_HUMAN
Isoform —
PDB entities 9
Chains and sequence ranges Author chain P; PDBConstruct 1–10; UniProt 230–239

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id8es8
Deposition date deposition_date2022-10-13
Structure title titleCryoEM structure of PN45545 TCR-CD3 in complex with HLA-A2 MAGEA4 (230-239)
Keywords keywordsTCR, membrane protein, CD3, HLA, MHC, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

8es8__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

8es8__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

8es8__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg(Guinier)47.90 Å
Rg (electron density)49.64 Å
Total Rg49.45 Å
Atom count11976
Residues1464
Excluded volume212840 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 8es8__assembly_1__model_1 undecameric (11) Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (13)

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6. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

Domain ID domain_id8es8M01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id8es8N01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology500 — Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1
Homologous superfamily homologous superfamily10 — MHC class I-like antigen recognition-like
Domain ID domain_id8es8N02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
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7. Citations (1)