7ndt

UL40:01 TCR in complex with HLA-E with a non-natural amino acid

Method: X-RAY DIFFRACTION

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

HLA class I histocompatibility antigen, alpha chain E

Homo sapiens

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant × 2 （A0A087WT03,A0A087X096,P01848） T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2 × 2 （A0A0B4J200,A0A5B0,A0A5B9） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	HLAE_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain AAA； PDBConstruct 2–277； UniProt 22–297 Author chain FFF； PDBConstruct 2–277； UniProt 22–297

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	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） UL40(15-23 H4C) × 2 T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant × 2 （A0A087WT03,A0A087X096,P01848） T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2 × 2 （A0A0B4J200,A0A5B0,A0A5B9） water × 3	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 BBB； PDBConstruct 2–100； UniProt 21–119 Author chain GGG； PDBConstruct 2–100； UniProt 21–119

T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant

Homo sapiens

UniProt A0A087WT03

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2 × 2 （A0A0B4J200,A0A5B0,A0A5B9） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TVAZ1_HUMAN
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain DDD； PDBConstruct 3–91； UniProt 19–107 Author chain III； PDBConstruct 3–91； UniProt 19–107

T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant

Homo sapiens

UniProt A0A087X096

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2 × 2 （A0A0B4J200,A0A5B0,A0A5B9） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A087X096_HUMAN
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain DDD； PDBConstruct 94–112； UniProt 3–21 Author chain III； PDBConstruct 94–112； UniProt 3–21

T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant

Homo sapiens

UniProt P01848

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2 × 2 （A0A0B4J200,A0A5B0,A0A5B9） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRAC_HUMAN
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain DDD； PDBConstruct 114–198； UniProt 1–85 Author chain III； PDBConstruct 114–198； UniProt 1–85

T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2

Homo sapiens

UniProt A0A0B4J200

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant × 2 （A0A087WT03,A0A087X096,P01848） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TJB23_HUMAN
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain EEE； PDBConstruct 100–113； UniProt 3–16 Author chain JJJ； PDBConstruct 100–113； UniProt 3–16

T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2

Homo sapiens

UniProt A0A5B0

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant × 2 （A0A087WT03,A0A087X096,P01848） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TVB14_HUMAN
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain EEE； PDBConstruct 2–97； UniProt 20–115 Author chain JJJ； PDBConstruct 2–97； UniProt 20–115

T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2

Homo sapiens

UniProt A0A5B9

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 10	HLA class I histocompatibility antigen, alpha chain E × 2 （P13747） Beta-2-microglobulin × 2 （P61769） UL40(15-23 H4C) × 2 T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant × 2 （A0A087WT03,A0A087X096,P01848） water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRBC2_HUMAN
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain EEE； PDBConstruct 115–243； UniProt 1–129 Author chain JJJ； PDBConstruct 115–243； UniProt 1–129

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_id	7ndt
Deposition date deposition_date	2021-02-02
Structure title title	UL40:01 TCR in complex with HLA-E with a non-natural amino acid
Keywords keywords	TCR-pHLA complex, non-natural amino acid, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method method	X-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.

7ndt__assembly_1__model_1

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

Download this curve (.dat)

7ndt__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

7ndt__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	45.99 Å
Rg (electron density)	46.54 Å
Total Rg	46.46 Å
Atom count	13021
Residues	1615
Excluded volume	228210 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`7ndt__assembly_1__model_1`	decameric （10）	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 (6)

Entity 1 Entity 1 polymer

Description description	HLA class I histocompatibility antigen, alpha chain E
Molecular weight formula_weight	31911.2 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	AAA,FFF
Atom count atom_count	13024

MGSHSLKYFHTSVSRPGRGEPRFISVGYVDDTQFVRFDNDAASPRMVPRAPWMEQEGSEYWDRETRSARDTAQIFRVNLRTLRGYYNQSEAGSHTLQWMHGCELGPDGRFLRGYEQCAYDGKDYLTLNEDLRSWTAVDTAAQISEQKSNDASEAEHQRAYLEDTCVEWLHKYLEKGKETLLHLEPPKTHVTHHPISDHEATLRCWALGFYPAEITLTWQQDGEGHTQDTELVETRPAGDGTFQKWAAVVVPSGEEQRYTCHVQHEGLPEPVTLRWKP

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	11879.4 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	BBB,GGG

MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

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	UL40(15-23 H4C)
Molecular weight formula_weight	1046.4 kDa
Source method src_method	syn
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	CCC,HHH

VMAPRTLIL

Entity 4 Entity 4 polymer

Description description	T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant
Molecular weight formula_weight	22012.5 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	DDD,III

MAAKTTQPPSMDVAEGRAANLPCNHSTISGNEYVYWYRQIHSQGPQYIIHGLKNNETNEMASLIITEDRKSSTLILPHATLRDTAVYYCIVVRSSNTGKLIFGQGTTLQVKPDIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDT

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	T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2
Molecular weight formula_weight	27613.8 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	EEE,JJJ

MEAGVTQFPSHSVIEKGQTVTLRCDPISGHDNLYWYRRVMGKEIKFLLHFVKESKQDESGMPNNRFLAERTGGTYSTLKVQPAELEDSGVYFCASSQDRDTQYFGPGTRLTVLEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRAD

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 6 Entity 6 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	3

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Unit-cell length a length_a	117.614 Å
Unit-cell length b length_b	76.577 Å
Unit-cell length c length_c	130.341 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	107.64 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	4

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	2.999 Å
Low-resolution limit resolution_low	65.270 Å
R factor r_factor	—
R_work r_work	0.2212
R_free r_free	0.2694

UL40:01 TCR in complex with HLA-E with a non-natural amino acid

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

HLA class I histocompatibility antigen, alpha chain E

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

T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

T cell receptor alpha variable 26-1,T cell receptor alpha joining 37,T cell receptor alpha chain constant

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

T cell receptor beta variable 14,T cell receptor beta joining 2-3,T cell receptor beta constant 2

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

7ndt__assembly_1__model_1

7ndt__assembly_1__model_1 | I(q)

7ndt__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source