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3sjv

Crystal structure of the RL42 TCR in complex with HLA-B8-FLR

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

HLA class I histocompatibility antigen, B-8 alpha chain

Homo sapiens

UniProt P30460

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） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 Beta-2-microglobulin × 1 （P61769） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 5 Beta-2-microglobulin × 1 （P61769） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 5 Beta-2-microglobulin × 1 （P61769） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 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
1agb 1agc 1agd 1age 1agf 1m05 1m05 1mi5 3ffc 3ffc 3sjv 3sjv

32 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name 1B08_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–277； UniProt 25–301 Author chain F； PDBConstruct 1–277； UniProt 25–301 Author chain K； PDBConstruct 1–277； UniProt 25–301 Author chain P； PDBConstruct 1–277； UniProt 25–301

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 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Epstein-Barr nuclear antigen 3 × 1 （Q3KST2） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 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 Author chain L； PDBConstruct 2–100； UniProt 21–119 Author chain Q； PDBConstruct 2–100； UniProt 21–119

Epstein-Barr nuclear antigen 3

OrganismNot specified

UniProt Q3KST2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Beta-2-microglobulin × 1 （P61769） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Beta-2-microglobulin × 1 （P61769） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Beta-2-microglobulin × 1 （P61769） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 5 HLA class I histocompatibility antigen, B-8 alpha chain × 1 （P30460） Beta-2-microglobulin × 1 （P61769） RL42 T cell receptor, alpha chain × 1 RL42 T cell receptor, beta chain × 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
3sjv 3sjv 3sjv 3sjv 3skm 3sko

6 assemblies

View Construct and Data Evidence
UniProt name EBNA3_EBVG
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 1–9； UniProt 325–333 Author chain H； PDBConstruct 1–9； UniProt 325–333 Author chain M； PDBConstruct 1–9； UniProt 325–333 Author chain R； PDBConstruct 1–9； UniProt 325–333

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_id3sjv
Deposition date deposition_date2011-06-22
Structure title titleCrystal structure of the RL42 TCR in complex with HLA-B8-FLR
Keywords keywordsT cell, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method methodX-RAY DIFFRACTION
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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.

3sjv__assembly_4__model_1

Assembly 4 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3sjv__assembly_4__model_1 | I(q)

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

3sjv__assembly_4__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）37.46 Å
Rg (electron density)37.82 Å
Total Rg37.93 Å
Atom count6619
Residues824
Excluded volume115800 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3sjv__assembly_1__model_1 pentameric （5） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3sjv__assembly_2__model_1 pentameric （5） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 3sjv__assembly_3__model_1 pentameric （5） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 3sjv__assembly_4__model_1 pentameric （5） 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 (5)

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6. Fold Classification (SCOP + CATH) 28 domains

CATH v4.4 (28 domains)

Domain ID domain_id3sjvA01
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_id3sjvA02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvB00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvD01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvD02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvE01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvE02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvF01
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_id3sjvF02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvG00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvI01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvI02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvJ01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvJ02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvK01
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_id3sjvK02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvL00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvN01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvN02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvO01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvO02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvP01
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_id3sjvP02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvQ00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvS01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvS02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvT01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id3sjvT02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
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7. Citations (1)