2v64

Crystallographic structure of the conformational dimer of the Spindle Assembly Checkpoint protein Mad2.

Method: X-RAY DIFFRACTION

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

MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2A

HOMO SAPIENS

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 3	MBP1 × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 3	MBP1 × 1 water × 1	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 3	MBP1 × 1 water × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	MD2L1_HUMAN
Isoform	—
PDB entities	1, 3
Chains and sequence ranges	Author chain A； PDBConstruct 10–213； UniProt 2–205 Author chain C； PDBConstruct 10–213； UniProt 2–205 Author chain F； PDBConstruct 10–213； UniProt 2–205 Author chain D； PDBConstruct 10–116； UniProt 2–108 Author chain D； PDBConstruct 120–207； UniProt 118–205 Author chain E； PDBConstruct 10–116； UniProt 2–108 Author chain E； PDBConstruct 120–207； UniProt 118–205 Author chain H； PDBConstruct 10–116； UniProt 2–108 Author chain H； PDBConstruct 120–207； UniProt 118–205

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	2v64
Deposition date deposition_date	2007-07-13
Structure title title	Crystallographic structure of the conformational dimer of the Spindle Assembly Checkpoint protein Mad2.
Keywords keywords	SPINDLE ASSEMBLY CHECKPOINT, MAD2, NUCLEUS, MITOSIS, APOPTOSIS, CELL CYCLE, CELL DIVISION, PHOSPHORYLATION, CONFORMATIONAL DIMER; CELL CYCLE
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.

2v64__assembly_1__model_1

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

Download this curve (.dat)

2v64__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2v64__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	24.35 Å
Rg (electron density)	23.20 Å
Total Rg	24.11 Å
Atom count	3215
Residues	398
Excluded volume	57655 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2v64__assembly_1__model_1`	trimeric （3）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`2v64__assembly_2__model_1`	trimeric （3）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`2v64__assembly_3__model_1`	trimeric （3）	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 (4)

Entity 1 Entity 1 polymer

Description description	MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2A
Molecular weight formula_weight	24506.9 kDa
Source method src_method	man
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,C,F
Atom count atom_count	9648

MHHHHHHGSALQLSREQGITLRGSAEIVAEFFSFGINSILYQRGIYPSETFTRVQKYGLTLLVTTDLELIKYLNNVVEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSAPREKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIYTDKDLVVPEKWEESGPQFITNSEEVRLRSFTTTIHKVNSMVAYKIPVND

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	MBP1
Molecular weight formula_weight	1451.6 kDa
Source method src_method	syn
Copy count entity_count	3

Polymer Polymer

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

SWYSYPPPQRAV

Entity 3 Entity 3 polymer

Description description	MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2A
Molecular weight formula_weight	23764.1 kDa
Source method src_method	man
Copy count entity_count	3

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	D,E,H

MHHHHHHGSALQLSREQGITLRGSAEIVAEFFSFGINSILYQRGIYPSETFTRVQKYGLTLLVTTDLELIKYLNNVVEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKGSGEKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIYTDKDLVVPEKWEESGPQFITNSEEVRLRSFTTTIHKVNSMVAYKIPVND

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 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	6

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6. Fold Classification (SCOP + CATH) 15 domains

SCOP 2.08 (9 domains)

Domain ID domain_id	d2v64a2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.135 — The spindle assembly checkpoint protein mad2
Superfamily Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
Family Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

Domain ID domain_id	d2v64a3
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d2v64c2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.135 — The spindle assembly checkpoint protein mad2
Superfamily Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
Family Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

Domain ID domain_id	d2v64c3
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d2v64d_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.135 — The spindle assembly checkpoint protein mad2
Superfamily Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
Family Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

Domain ID domain_id	d2v64e_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.135 — The spindle assembly checkpoint protein mad2
Superfamily Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
Family Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

Domain ID domain_id	d2v64f2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.135 — The spindle assembly checkpoint protein mad2
Superfamily Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
Family Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

Domain ID domain_id	d2v64f3
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d2v64h_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.135 — The spindle assembly checkpoint protein mad2
Superfamily Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
Family Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

CATH v4.4 (6 domains)

Domain ID domain_id	2v64A00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
Homologous superfamily homologous superfamily	10 — HORMA domain

Domain ID domain_id	2v64C00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
Homologous superfamily homologous superfamily	10 — HORMA domain

Domain ID domain_id	2v64D00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
Homologous superfamily homologous superfamily	10 — HORMA domain

Domain ID domain_id	2v64E00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
Homologous superfamily homologous superfamily	10 — HORMA domain

Domain ID domain_id	2v64F00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
Homologous superfamily homologous superfamily	10 — HORMA domain

Domain ID domain_id	2v64H00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
Homologous superfamily homologous superfamily	10 — HORMA domain

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Unit-cell length a length_a	112.580 Å
Unit-cell length b length_b	111.880 Å
Unit-cell length c length_c	131.760 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	12

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	2.900 Å
Low-resolution limit resolution_low	29.440 Å
R factor r_factor	0.2330
R_work r_work	0.2330
R_free r_free	0.2730

Crystallographic structure of the conformational dimer of the Spindle Assembly Checkpoint protein Mad2.

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

MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2A

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

2v64__assembly_1__model_1

2v64__assembly_1__model_1 | I(q)

2v64__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 (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 water

6. Fold Classification (SCOP + CATH) 15 domains

SCOP 2.08 (9 domains)

CATH v4.4 (6 domains)

7. Citations (1)

Crystallographic structure of the conformational dimer of the Spindle Assembly Checkpoint protein Mad2.

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

MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2A

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

2v64__assembly_1__model_1

2v64__assembly_1__model_1 | I(q)

2v64__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 (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 water

6. Fold Classification (SCOP + CATH) 15 domains

SCOP 2.08 (9 domains)

CATH v4.4 (6 domains)

7. Citations (1)