9c9d

Protein receptor

Method: X-RAY DIFFRACTION Dmax: 147.2 Å Quality: GOOD

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

Major histocompatibility complex class I-related gene protein

Homo sapiens

UniProt Q95460

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain A; UniProt 23–292 Not recorded Beta-2-microglobulin × 1 (P61769) T Cell Receptor Alpha Variable 1-2 × 1 T cell receptor beta variable 6-1 × 1 Leukocyte immunoglobulin-like receptor subfamily B member 2 × 1 (Q8N423) 30W N-(6-formyl-4-oxo-3,4-dihydropteridin-2-yl)acetamide × 1 GOL GLYCEROL × 3 SO4 SULFATE ION × 8 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 CL CHLORIDE ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:EVAPORATION;295 K;PEG 8K, (NH4)2SO4, MES Resolution 2.90 Å R-free 0.215

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

82 other PDB entries and 144 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HMR1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 2–271; UniProt 23–292

Beta-2-microglobulin

Homo sapiens

UniProt P61769

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain B; UniProt 21–119 Fragment:UNP residues 21-119 Major histocompatibility complex class I-related gene protein × 1 (Q95460) T Cell Receptor Alpha Variable 1-2 × 1 T cell receptor beta variable 6-1 × 1 Leukocyte immunoglobulin-like receptor subfamily B member 2 × 1 (Q8N423) 30W N-(6-formyl-4-oxo-3,4-dihydropteridin-2-yl)acetamide × 1 GOL GLYCEROL × 3 SO4 SULFATE ION × 8 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 CL CHLORIDE ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:EVAPORATION;295 K;PEG 8K, (NH4)2SO4, MES Resolution 2.90 Å R-free 0.215

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

1313 other PDB entries and 1998 assemblies. Open the comparison page and filter oligomeric states

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

Leukocyte immunoglobulin-like receptor subfamily B member 2

Homo sapiens

UniProt Q8N423

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain F; UniProt 22–220 Fragment:residues 22-220 (Uniprot numbering) Major histocompatibility complex class I-related gene protein × 1 (Q95460) Beta-2-microglobulin × 1 (P61769) T Cell Receptor Alpha Variable 1-2 × 1 T cell receptor beta variable 6-1 × 1 30W N-(6-formyl-4-oxo-3,4-dihydropteridin-2-yl)acetamide × 1 GOL GLYCEROL × 3 SO4 SULFATE ION × 8 MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID × 1 CL CHLORIDE ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:EVAPORATION;295 K;PEG 8K, (NH4)2SO4, MES Resolution 2.90 Å R-free 0.215

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

5 other PDB entries and 8 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name LIRB2_HUMAN
Isoform
PDB entities 5
Chains and sequence ranges Author chain F; PDBConstruct 2–200; UniProt 22–220

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.

SAXS scattering curve SAXS Profile

SAXS profile for 9c9d

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9c9d
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9c9d
Deposition date deposition_date2024-06-13
最后修订 last_revision2025-08-27
Structure title titleProtein receptor
Keywords keywordsprotein complex, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier41.55
Radius of gyration Rg (electron density) rg_electron42.07
Forward intensity I(0) i0205014000.00
Molecular weight molecular_weight113470.0 kDa
Excluded volume excluded_volume140400 ų
Envelope volume envelope_volume194140 ų
Hydration-shell volume shell_volume42534 ų
Envelope diameter envelope_diameter158.1
Shell Rg shell_rg41.71
Envelope Rg envelope_rg42.57
Shape Rg shape_rg42.06
Total Rg total_rg42.05
Total atoms total_atoms7992
Residues n_residues1000
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax147.2
Rg (real space) rg_real42.09
Rg uncertainty (real space) rg_real_error1.62
I(0) (real space) i0_real2.0500e+08
I(0) uncertainty (real space) i0_real_error3.5080e+06
Rg (reciprocal space) rg_reciprocal41.55
I(0) (reciprocal space) i0_reciprocal204900000.0000
Solution quality estimate total_estimate0.7710
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary34.9
Skewness Skewness skewness0.653
Kurtosis Kurtosis kurtosis-0.234
Angular range angular_range— – 0.1900 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha23380000.0000
Real-space data points n_real_points39
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.561; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.692; Smooth: 0.643

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (11)

8. Citations (1)

9. Files and Curves (10)