← Back to search
5j6g

Recognition of the MHC class Ib molecule H2-Q10 by the natural killer cell receptor Ly49C

Method: X-RAY DIFFRACTION
▼

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

H-2 class I histocompatibility antigen, Q10 alpha chain

Mus musculus

UniProt P01898

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Beta-2-microglobulin × 1 （P01887） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 1 Killer cell lectin-like receptor 3 × 1 （Q64329） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Beta-2-microglobulin × 1 （P01887） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 1 Killer cell lectin-like receptor 3 × 1 （Q64329） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 8 Beta-2-microglobulin × 2 （P01887） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 2 Killer cell lectin-like receptor 3 × 2 （Q64329） 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
5j6g 5j6g 5j6g 5j6h

4 assemblies

View Construct and Data Evidence
UniProt name HA10_MOUSE
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 2–257； UniProt 25–280 Author chain C； PDBConstruct 2–257； UniProt 25–280

Beta-2-microglobulin

Mus musculus

UniProt P01887

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 H-2 class I histocompatibility antigen, Q10 alpha chain × 1 （P01898） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 1 Killer cell lectin-like receptor 3 × 1 （Q64329） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 H-2 class I histocompatibility antigen, Q10 alpha chain × 1 （P01898） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 1 Killer cell lectin-like receptor 3 × 1 （Q64329） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 8 H-2 class I histocompatibility antigen, Q10 alpha chain × 2 （P01898） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 2 Killer cell lectin-like receptor 3 × 2 （Q64329） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
6i8c

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1bii 1bqh 1bqh 1bz9 1bz9 1cd1 1cd1 1ddh 1ffn 1ffn 1ffo 1ffo

483 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name B2MG_MOUSE
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 2–100； UniProt 21–119 Author chain D； PDBConstruct 2–100； UniProt 21–119

Killer cell lectin-like receptor 3

Mus musculus

UniProt Q64329

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 H-2 class I histocompatibility antigen, Q10 alpha chain × 1 （P01898） Beta-2-microglobulin × 1 （P01887） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 H-2 class I histocompatibility antigen, Q10 alpha chain × 1 （P01898） Beta-2-microglobulin × 1 （P01887） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 8 H-2 class I histocompatibility antigen, Q10 alpha chain × 2 （P01898） Beta-2-microglobulin × 2 （P01887） VAL-GLY-ILE-THR-ASN-VAL-ASP-LEU × 2 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
1p1z 1p4l 5j6g 5j6g 5j6g

5 assemblies

View Construct and Data Evidence
UniProt name KLRA3_MOUSE
Isoform —
PDB entities 4
Chains and sequence ranges Author chain G； PDBConstruct 2–132； UniProt 136–266 Author chain H； PDBConstruct 2–132； UniProt 136–266

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_id5j6g
Deposition date deposition_date2016-04-04
Structure title titleRecognition of the MHC class Ib molecule H2-Q10 by the natural killer cell receptor Ly49C
Keywords keywordsIMMUNE 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.

5j6g__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

5j6g__assembly_2__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5j6g__assembly_2__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）24.28 Å
Rg (electron density)23.24 Å
Total Rg24.09 Å
Atom count3917
Residues505
Excluded volume68907 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5j6g__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5j6g__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 5j6g__assembly_3__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (4)

▼

6. Fold Classification (SCOP + CATH) 8 domains

CATH v4.4 (8 domains)

Domain ID domain_id5j6gA01
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_id5j6gA02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id5j6gB00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id5j6gC01
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_id5j6gC02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id5j6gD00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id5j6gG00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology100 — Mannose-Binding Protein A; Chain A
Homologous superfamily homologous superfamily10 — Mannose-Binding Protein A, subunit A
Domain ID domain_id5j6gH00
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology100 — Mannose-Binding Protein A; Chain A
Homologous superfamily homologous superfamily10 — Mannose-Binding Protein A, subunit A
▶

7. Citations (1)