9o5s

minibinder-antigen complex BXMart1-3-MART1-HLA*A02

Method: X-RAY DIFFRACTION

▼

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

HLA class I histocompatibility antigen, A alpha chain

Homo sapiens

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） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 15 water × 5	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 5	Beta-2-microglobulin × 1 （P61769） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 6 water × 4	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 5	Beta-2-microglobulin × 1 （P61769） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 12 water × 4	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 5	Beta-2-microglobulin × 1 （P61769） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 12 water × 5	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A5I8L1_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 2–279； UniProt 9–286 Author chain C； PDBConstruct 2–279； UniProt 9–286 Author chain H； PDBConstruct 2–279； UniProt 9–286 Author chain L； PDBConstruct 2–279； UniProt 9–286

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, A alpha chain × 1 （A5I8L1） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 15 water × 5	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 5	HLA class I histocompatibility antigen, A alpha chain × 1 （A5I8L1） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 6 water × 4	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 5	HLA class I histocompatibility antigen, A alpha chain × 1 （A5I8L1） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 12 water × 4	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 5	HLA class I histocompatibility antigen, A alpha chain × 1 （A5I8L1） Melanoma antigen recognized by T-cells 1 × 1 （Q16655） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 12 water × 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	2
Chains and sequence ranges	Author chain B； PDBConstruct 1–99； UniProt 21–119 Author chain D； PDBConstruct 1–99； UniProt 21–119 Author chain I； PDBConstruct 1–99； UniProt 21–119 Author chain M； PDBConstruct 1–99； UniProt 21–119

Melanoma antigen recognized by T-cells 1

OrganismNot specified

UniProt Q16655

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, A alpha chain × 1 （A5I8L1） Beta-2-microglobulin × 1 （P61769） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 15 water × 5	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 5	HLA class I histocompatibility antigen, A alpha chain × 1 （A5I8L1） Beta-2-microglobulin × 1 （P61769） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 6 water × 4	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 5	HLA class I histocompatibility antigen, A alpha chain × 1 （A5I8L1） Beta-2-microglobulin × 1 （P61769） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 12 water × 4	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 5	HLA class I histocompatibility antigen, A alpha chain × 1 （A5I8L1） Beta-2-microglobulin × 1 （P61769） antibody AD01 × 1 BXMart1-3 minibinder × 1 GLYCEROL × 12 water × 5	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	MAR1_HUMAN
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain E； PDBConstruct 1–10； UniProt 26–35 Author chain J； PDBConstruct 1–10； UniProt 26–35 Author chain N； PDBConstruct 1–10； UniProt 26–35 Author chain P； PDBConstruct 1–10； UniProt 26–35

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_id	9o5s
Deposition date deposition_date	2025-04-10
Structure title title	minibinder-antigen complex BXMart1-3-MART1-HLA*A02
Keywords keywords	minibinder, pMHC, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method method	X-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.

9o5s__assembly_1__model_1

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

Download this curve (.dat)

9o5s__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9o5s__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	28.96 Å
Rg (electron density)	28.06 Å
Total Rg	28.85 Å
Atom count	4975
Residues	604
Excluded volume	87398 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9o5s__assembly_1__model_1`	pentameric （5）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`9o5s__assembly_2__model_1`	pentameric （5）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`9o5s__assembly_3__model_1`	pentameric （5）	Success	4.1.3-1-20251215 (887e7ef)	View Download
4	1	`9o5s__assembly_4__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 (7)

Entity 1 Entity 1 polymer

Description description	HLA class I histocompatibility antigen, A alpha chain
Molecular weight formula_weight	32256.7 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,C,H,L
Atom count atom_count	20183

MGSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEPSS

Source Source

Source organism organism	Homo sapiens
Common name common_name	human
NCBI taxonomy ID ncbi_taxonomy_id	9606
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 polymer

Description description	Beta-2-microglobulin
Molecular weight formula_weight	11748.2 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,D,I,M

IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Source Source

Source organism organism	Homo sapiens
Common name common_name	human
NCBI taxonomy ID ncbi_taxonomy_id	9606
Host organism host_organism	Escherichia coli

Entity 3 Entity 3 polymer

Description description	Melanoma antigen recognized by T-cells 1
Molecular weight formula_weight	985.2 kDa
Source method src_method	syn
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	P,E,J,N

ELAGIGILTV

Entity 4 Entity 4 polymer

Description description	antibody AD01
Molecular weight formula_weight	12593.9 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	G,F,K,O

EVKLVESGGGLVQPGGSLRLSCAASGSIFSINTMGWYRQTPGKQRDLVADISSGGSTKYGDSVKGRFTISRDNTKNTVYLQMNSLKPEDTAVYYCYGLSYSNDDYWGQGTQVTVSSG

Source Source

Source organism organism	Homo sapiens
Common name common_name	human
NCBI taxonomy ID ncbi_taxonomy_id	9606
Host organism host_organism	Escherichia coli

Entity 5 Entity 5 polymer

Description description	BXMart1-3 minibinder
Molecular weight formula_weight	12120.8 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	Q,R,S,T

DPLKRLTELALEALRDEPHVPPEDRPLVTLLQIALNLAINVVVNRRHLGRTDPEHDRKLLEELEEIRKLPREEAEKRLEELIERLEEENEKLAEEEVKQFRS

Source Source

Source organism organism	synthetic construct
NCBI taxonomy ID ncbi_taxonomy_id	32630
Host organism host_organism	Escherichia coli

Entity 6 Entity 6 non-polymer

Description description	GLYCEROL
Molecular weight formula_weight	92.1 kDa
Source method src_method	syn
Copy count entity_count	45

Entity 7 Entity 7 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	291

▶

Unit-cell length a length_a	87.955 Å
Unit-cell length b length_b	95.863 Å
Unit-cell length c length_c	99.133 Å
Unit-cell angle α angle_alpha	89.72 °
Unit-cell angle β angle_beta	69.93 °
Unit-cell angle γ angle_gamma	73.90 °
Molecules per unit cell Z z_pdb	4

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	triclinic

Resolution resolution	2.270 Å
Low-resolution limit resolution_low	48.120 Å
R factor r_factor	0.2073
R_work r_work	0.2069
R_free r_free	0.2342

minibinder-antigen complex BXMart1-3-MART1-HLA*A02

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

HLA class I histocompatibility antigen, A alpha chain

State in the Current Structure

Other States of the Same Protein in the Database

Beta-2-microglobulin

State in the Current Structure

Other States of the Same Protein in the Database

Melanoma antigen recognized by T-cells 1

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9o5s__assembly_1__model_1

9o5s__assembly_1__model_1 | I(q)

9o5s__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (7)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

Source Source

Entity 5 Entity 5 polymer

Polymer Polymer

Source Source

Entity 6 Entity 6 non-polymer

Entity 7 Entity 7 water

7. Citations (1)

minibinder-antigen complex BXMart1-3-MART1-HLA*A02

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

HLA class I histocompatibility antigen, A alpha chain

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Beta-2-microglobulin

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Melanoma antigen recognized by T-cells 1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9o5s__assembly_1__model_1

9o5s__assembly_1__model_1 | I(q)

9o5s__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (7)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

Source Source

Entity 5 Entity 5 polymer

Polymer Polymer

Source Source

Entity 6 Entity 6 non-polymer

Entity 7 Entity 7 water

7. Citations (1)