← Back to search
7pb2

Crystal structure of JDI TCR in complex with HLA-A*11:01 bound to KRAS G12D peptide (VVVGADGVGK)

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

MHC class I antigen

Homo sapiens

UniProt A0A583ZB34

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 5 Beta-2-microglobulin × 1 （P61769） KRAS G12D peptide (VVVGADGVGK) × 1 （P01111） TCR alpha × 1 TCR beta × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 Beta-2-microglobulin × 1 （P61769） KRAS G12D peptide (VVVGADGVGK) × 1 （P01111） TCR alpha × 1 TCR beta × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
7ow3 7ow3 7ow3 7ow3 7ow4 7ow4 7ow4 7ow4 7ow5 7ow6 7pb2 7pb2

15 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name A0A583ZB34_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–275； UniProt 25–299 Author chain F； PDBConstruct 1–275； UniProt 25–299

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 Protein heterocomplex Heteromer Protein 5 MHC class I antigen × 1 （A0A583ZB34） KRAS G12D peptide (VVVGADGVGK) × 1 （P01111） TCR alpha × 1 TCR beta × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 MHC class I antigen × 1 （A0A583ZB34） KRAS G12D peptide (VVVGADGVGK) × 1 （P01111） TCR alpha × 1 TCR beta × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1jnj 1lds 1py4 1py4 1py4 1py4 2d4d 2d4f 2vb5 2xks 2xku 2yxf

61 assemblies; showing the first 12

Homodimer
2x89 2x89 2z9t 3low 4r9h 4r9h 4ra3 4ra3 4rah 6m1b

10 assemblies

Homotetramer
2e8d 2f8o 3tlr 3tm6 3tm6 7afv

6 assemblies

Other homooligomers
3ciq 3ciq 3loz 6gk3 8a7o 8a7p 8a7q 8a7t

8 assemblies

Heteromeric or nucleic-acid complex
1a1m 1a1n 1a1o 1a6z 1a6z 1a9b 1a9b 1a9e 1agb 1agc 1agd 1age

1914 assemblies; showing the first 12

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

KRAS G12D peptide (VVVGADGVGK)

OrganismNot specified

UniProt P01111

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 5 MHC class I antigen × 1 （A0A583ZB34） Beta-2-microglobulin × 1 （P61769） TCR alpha × 1 TCR beta × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 MHC class I antigen × 1 （A0A583ZB34） Beta-2-microglobulin × 1 （P61769） TCR alpha × 1 TCR beta × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2n9c 3con 5uhv 6e6h 6wgh 6wgh 6zir 6ziz 6ziz 7f68 8vm2 8vm2

25 assemblies; showing the first 12

Homodimer
5uhv 6zio

2 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
6uli 6ulk 6uln 6ulr 6uon 6uon 7ow3 7ow3 7ow3 7ow3 7ow4 7ow4

36 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RASN_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 1–10； UniProt 7–16 Author chain H； PDBConstruct 1–10； UniProt 7–16

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id7pb2
Deposition date deposition_date2021-07-30
Structure title titleCrystal structure of JDI TCR in complex with HLA-A*11:01 bound to KRAS G12D peptide (VVVGADGVGK)
Keywords keywordsHLA, T cell receptor, KRAS, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method methodX-RAY DIFFRACTION
▼

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.

7pb2__assembly_1__model_1

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

Download this curve (.dat)

7pb2__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.

7pb2__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）37.51 Å
Rg (electron density)37.94 Å
Total Rg38.04 Å
Atom count6344
Residues789
Excluded volume111090 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 7pb2__assembly_1__model_1 pentameric （5） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 7pb2__assembly_2__model_1 pentameric （5） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (5)

▼

6. Fold Classification (SCOP + CATH) 6 domains

CATH v4.4 (6 domains)

Domain ID domain_id7pb2A01
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_id7pb2A02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id7pb2D01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id7pb2F01
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_id7pb2F02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id7pb2I01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
▶

7. Citations (1)