8jcb

Vgamma5 Vdelta1 T cell receptor complex

Method: ELECTRON MICROSCOPY

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

T-cell surface glycoprotein CD3 zeta chain

Homo sapiens

UniProt P20963

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor delta variable 1,T cell receptor delta constant × 2 （A0A1B0GX56,B7Z8K6） T cell receptor gamma variable 5,T cell receptor gamma constant 1 × 2 （A0A0B4J1U4,P0CF51）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CD3Z_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–164； UniProt 1–164 Author chain B； PDBConstruct 1–164； UniProt 1–164 Author chain a； PDBConstruct 1–164； UniProt 1–164 Author chain b； PDBConstruct 1–164； UniProt 1–164

T-cell surface glycoprotein CD3 delta chain

Homo sapiens

UniProt P04234

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor delta variable 1,T cell receptor delta constant × 2 （A0A1B0GX56,B7Z8K6） T cell receptor gamma variable 5,T cell receptor gamma constant 1 × 2 （A0A0B4J1U4,P0CF51）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CD3D_HUMAN
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain D； PDBConstruct 1–171； UniProt 1–171 Author chain d； PDBConstruct 1–171； UniProt 1–171

T-cell surface glycoprotein CD3 epsilon chain

Homo sapiens

UniProt P07766

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor delta variable 1,T cell receptor delta constant × 2 （A0A1B0GX56,B7Z8K6） T cell receptor gamma variable 5,T cell receptor gamma constant 1 × 2 （A0A0B4J1U4,P0CF51）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CD3E_HUMAN
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain E； PDBConstruct 1–207； UniProt 1–207 Author chain F； PDBConstruct 1–207； UniProt 1–207 Author chain e； PDBConstruct 1–207； UniProt 1–207 Author chain f； PDBConstruct 1–207； UniProt 1–207

T-cell surface glycoprotein CD3 gamma chain

Homo sapiens

UniProt P09693

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T cell receptor delta variable 1,T cell receptor delta constant × 2 （A0A1B0GX56,B7Z8K6） T cell receptor gamma variable 5,T cell receptor gamma constant 1 × 2 （A0A0B4J1U4,P0CF51）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CD3G_HUMAN
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain G； PDBConstruct 1–182； UniProt 1–182 Author chain g； PDBConstruct 1–182； UniProt 1–182

T cell receptor delta variable 1,T cell receptor delta constant

Homo sapiens

UniProt A0A1B0GX56

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor gamma variable 5,T cell receptor gamma constant 1 × 2 （A0A0B4J1U4,P0CF51）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRDV1_HUMAN
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain M； PDBConstruct 38–131； UniProt 21–114 Author chain m； PDBConstruct 38–131； UniProt 21–114

T cell receptor delta variable 1,T cell receptor delta constant

Homo sapiens

UniProt B7Z8K6

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor gamma variable 5,T cell receptor gamma constant 1 × 2 （A0A0B4J1U4,P0CF51）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRDC_HUMAN
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain M； PDBConstruct 155–307； UniProt 1–153 Author chain m； PDBConstruct 155–307； UniProt 1–153

T cell receptor gamma variable 5,T cell receptor gamma constant 1

Homo sapiens

UniProt A0A0B4J1U4

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor delta variable 1,T cell receptor delta constant × 2 （A0A1B0GX56,B7Z8K6）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRGV5_HUMAN
Isoform	—
PDB entities	6
Chains and sequence ranges	Author chain N； PDBConstruct 38–137； UniProt 19–118 Author chain n； PDBConstruct 38–137； UniProt 19–118

T cell receptor gamma variable 5,T cell receptor gamma constant 1

Homo sapiens

UniProt P0CF51

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Heteromer	Protein 16	T-cell surface glycoprotein CD3 zeta chain × 4 （P20963） T-cell surface glycoprotein CD3 delta chain × 2 （P04234） T-cell surface glycoprotein CD3 epsilon chain × 4 （P07766） T-cell surface glycoprotein CD3 gamma chain × 2 （P09693） T cell receptor delta variable 1,T cell receptor delta constant × 2 （A0A1B0GX56,B7Z8K6）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRGC1_HUMAN
Isoform	—
PDB entities	6
Chains and sequence ranges	Author chain N； PDBConstruct 159–331； UniProt 1–173 Author chain n； PDBConstruct 159–331； UniProt 1–173

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	8jcb
Deposition date deposition_date	2023-05-10
Structure title title	Vgamma5 Vdelta1 T cell receptor complex
Keywords keywords	Receptor, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method method	ELECTRON MICROSCOPY

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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.

8jcb__assembly_1__model_1

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

Download this curve (.dat)

8jcb__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

8jcb__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	60.37 Å
Rg (electron density)	60.38 Å
Total Rg	60.39 Å
Atom count	15950
Residues	2002
Excluded volume	287790 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`8jcb__assembly_1__model_1`	hexadecameric （16）	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	T-cell surface glycoprotein CD3 zeta chain
Molecular weight formula_weight	21809.7 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,a,b
Atom count atom_count	15950

MKWKALFTAAILQAQLPITEAQSFGLLDPKLCYLLDGILFIYGVILTALFLRVKFSRSADAPAYQQGQNQLYNELNLGRREEYDVLDKRRGRDPEMGGKPQRRKNPQEGLYNELQKDKMAEAYSEIGMKGERRRGKGHDGLYQGLSTATKDTYDALHMQALPPRAAAWSHPQFEKGGGSGGGSGGSAWSHPQFEK

Source Source

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

Entity 2 Entity 2 polymer

Description description	T-cell surface glycoprotein CD3 delta chain
Molecular weight formula_weight	18949.5 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	D,d

MEHSTFLSGLVLATLLSQVSPFKIPIEELEDRVFVNCNTSITWVEGTVGTLLSDITRLDLGKRILDPRGIYRCNGTDIYKDKESTVQVHYRMCQSCVELDPATVAGIIVTDVIATLLLALGVFCFAGHETGRLSGAADTQALLRNDQVYQPLRDRDDAQYSHLGGNWARNK

Source Source

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

Entity 3 Entity 3 polymer

Description description	T-cell surface glycoprotein CD3 epsilon chain
Molecular weight formula_weight	23174.2 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,F,e,f

MQSGTHWRVLGLCLLSVGVWGQDGNEEMGGITQTPYKVSISGTTVILTCPQYPGSEILWQHNDKNIGGDEDDKNIGSDEDHLSLKEFSELEQSGYYVCYPRGSKPEDANFYLYLRARVCENCMEMDVMSVATIVIVDICITGGLLLLVYYWSKNRKAKAKPVTRGAGAGGRQRGQNKERPPPVPNPDYEPIRKGQRDLYSGLNQRRI

Source Source

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

Entity 4 Entity 4 polymer

Description description	T-cell surface glycoprotein CD3 gamma chain
Molecular weight formula_weight	20493.5 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	G,g

MEQGKGLAVLILAIILLQGTLAQSIKGNHLVKVYDYQEDGSVLLTCDAEAKNITWFKDGKMIGFLTEDKKKWNLGSNAKDPRGMYQCKGSQNKSKPLQVYYRMCQNCIELNAATISGFLFAEIVSIFVLAVGVYFIAGQDGVRQSRASDKQTLLPNDQLYQPLKDREDDQYSHLQGNQLRRN

Source Source

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

Entity 5 Entity 5 polymer

Description description	T cell receptor delta variable 1,T cell receptor delta constant
Molecular weight formula_weight	34320.6 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	M,m

MDMRVPAQLLGLLLLWLSGARCMDYKDDDDKGGSETGAQKVTQAQSSVSMPVRKAVTLNCLYETSWWSYYIFWYKQLPSKEMIFLIRQGSDEQNAKSGRYSVNFKKAAKSVALTISALQLEDSAKYFCALGDPGGLNTDKLIFGKGTRVTVEPRSQPHTKPSVFVMKNGTNVACLVKEFYPKDIRINLVSSKKITEFDPAIVISPSGKYNAVKLGKYEDSNSVTCSVQHDNKTVHSTDFEVKTDSTDHVKPKETENTKQPSKSCHKPKAIVHTEKVNMMSLTVLGLRMLFAKTVAVNFLLTAKLFFL

Source Source

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

Entity 6 Entity 6 polymer

Description description	T cell receptor gamma variable 5,T cell receptor gamma constant 1
Molecular weight formula_weight	37755.2 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	N,n

MDMRVPAQLLGLLLLWLSGARCMDYKDDDDKGGSETGSSNLEGGTKSVTRPTRSSAEITCDLTVINAFYIHWYLHQEGKAPQRLLYYDVSNSKDVLESGLSPGKYYTHTPRRWSWILILRNLIENDSGVYYCATWDRGNPKTHYYKKLFGSGTTLVVTDKQLDADVSPKPTIFLPSIAETKLQKAGTYLCLLEKFFPDVIKIHWQEKKSNTILGSQEGNTMKTNDTYMKFSWLTVPEKSLDKEHRCIVRHENNKNGVDQEIIFPPIKTDVITMDPKDNCSKDANDTLLLQLTNTSAYYMYLLLLLKSVVYFAIITCCLLRRTAFCCNGEKS

Source Source

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

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

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

Resolution resolution	9.50 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	325186

Vgamma5 Vdelta1 T cell receptor complex

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

T-cell surface glycoprotein CD3 zeta 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

T-cell surface glycoprotein CD3 delta 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

T-cell surface glycoprotein CD3 epsilon 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

T-cell surface glycoprotein CD3 gamma 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

T cell receptor delta variable 1,T cell receptor delta 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 delta variable 1,T cell receptor delta 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 gamma variable 5,T cell receptor gamma constant 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

T cell receptor gamma variable 5,T cell receptor gamma constant 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

8jcb__assembly_1__model_1

8jcb__assembly_1__model_1 | I(q)

8jcb__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer