1go4

Crystal structure of Mad1-Mad2 reveals a conserved Mad2 binding motif in Mad1 and Cdc20.

Method: X-RAY DIFFRACTION D_max: 180.2 Å Quality: GOOD

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

下载 Download SAXS (.dat) P(r) (.pr.out) CIF

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	1go4
沉积日期 deposition_date	2001-10-17
结构标题 title	Crystal structure of Mad1-Mad2 reveals a conserved Mad2 binding motif in Mad1 and Cdc20.
关键词 keywords	MITOTIC SPINDLE CHECKPOINT, CELL CYCLE, MITOSIS, NUCLEAR PRO; CELL CYCLE
实验方法 method	X-RAY DIFFRACTION

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2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier	46.38 Å
回转半径 Rg (电子) rg_electron	46.89 Å
零角强度 I(0) i0	259647000.00
分子量 molecular_weight	132240.0 kDa
排除体积 excluded_volume	165820 Å³
包络体积 envelope_volume	257210 Å³
水化壳体积 shell_volume	48363 Å³
包络直径 envelope_diameter	190.6 Å
壳层 Rg shell_rg	47.61 Å
包络 Rg envelope_rg	46.36 Å
形状 Rg shape_rg	46.85 Å
总 Rg total_rg	47.06 Å
总原子数 total_atoms	9300
残基数 n_residues	1146
球谐函数阶数 n_harmonics	20
q 范围 q_range	— – 0.5000 Å⁻¹
数据点数 n_points	101
壳层类型 shell_type	directional
溶剂电子密度 solvent_density	0.3340 e/Å³
壳层衬度 contrast_shell	0.0300 e/Å³
CRYSOL 版本 crysol_version	4.1.3

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3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax	180.2 Å
Rg (实空间) rg_real	46.88 Å
Rg 误差 (实空间) rg_real_error	2.54 Å
I(0) (实空间) i0_real	2.5960e+08
I(0) 误差 (实空间) i0_real_error	5.8610e+06
Rg (倒空间) rg_reciprocal	46.38 Å
I(0) (倒空间) i0_reciprocal	259500000.0000
解质量估计 total_estimate	0.7785
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	2
主峰位置 r_peak_primary	37.1 Å
偏度 Skewness skewness	0.497
峰度 Kurtosis kurtosis	-0.324
角度范围 angular_range	— – 0.1700 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	31290000.0000
实空间数据点数 n_real_points	35
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.508; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.613; Smooth: 0.979

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4. 晶体学与实验 4. Crystallography & Experiment

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5. 实体与聚合体信息 (3)

Entity 1 polymer

描述 description	Mitotic spindle assembly checkpoint protein MAD2A
分子量 formula_weight	23447.8 kDa
突变 mutation	R133A
来源方法 src_method	man
拷贝数 entity_count	4

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D
原子数 atom_count	9928

MALQLSREQGITLRGSAEIVAEFFSFGINSILYQRGIYPSETFTRVQKYGLTLLVTTDLELIKYLNNVVEQLKDWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKDDSAPREKSQKAIQDEIRSVIAQITATVTFLPLLEVSCSFDLLIYTDKDLVVPEKWEESGPQFITNSEEVRLRSFTTTIHKVNSMVAYKIPVND

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	Human
NCBI 分类编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	ESCHERICHIA COLI

Entity 2 polymer

描述 description	Mitotic spindle assembly checkpoint protein MAD1
分子量 formula_weight	11693.1 kDa
来源方法 src_method	man
拷贝数 entity_count	4

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	E,F,G,H

SSAEQSFLFSREEADTLRLKVEELEGERSRLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLNPTSVARQRLREDHSQLQAECERLRGLLRAMERGGTV

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	Human
NCBI 分类编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	ESCHERICHIA COLI

Entity 3 water

描述 description	water
分子量 formula_weight	18.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	628

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6. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

结构域编号 domain_id	d1go4a_
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.135 — The spindle assembly checkpoint protein mad2
超家族 Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
家族 Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

结构域编号 domain_id	d1go4b_
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.135 — The spindle assembly checkpoint protein mad2
超家族 Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
家族 Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

结构域编号 domain_id	d1go4c_
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.135 — The spindle assembly checkpoint protein mad2
超家族 Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
家族 Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

结构域编号 domain_id	d1go4d_
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.135 — The spindle assembly checkpoint protein mad2
超家族 Superfamily superfamily	d.135.1 — The spindle assembly checkpoint protein mad2
家族 Family family	d.135.1.1 — The spindle assembly checkpoint protein mad2

结构域编号 domain_id	d1go4e_
类 Class class	h — Coiled coil proteins
折叠类型 Fold fold	h.1 — Parallel coiled-coil
超家族 Superfamily superfamily	h.1.22 — Mitotic arrest deficient-like 1, Mad1
家族 Family family	h.1.22.1 — Mitotic arrest deficient-like 1, Mad1

结构域编号 domain_id	d1go4f_
类 Class class	h — Coiled coil proteins
折叠类型 Fold fold	h.1 — Parallel coiled-coil
超家族 Superfamily superfamily	h.1.22 — Mitotic arrest deficient-like 1, Mad1
家族 Family family	h.1.22.1 — Mitotic arrest deficient-like 1, Mad1

结构域编号 domain_id	d1go4g_
类 Class class	h — Coiled coil proteins
折叠类型 Fold fold	h.1 — Parallel coiled-coil
超家族 Superfamily superfamily	h.1.22 — Mitotic arrest deficient-like 1, Mad1
家族 Family family	h.1.22.1 — Mitotic arrest deficient-like 1, Mad1

结构域编号 domain_id	d1go4h_
类 Class class	h — Coiled coil proteins
折叠类型 Fold fold	h.1 — Parallel coiled-coil
超家族 Superfamily superfamily	h.1.22 — Mitotic arrest deficient-like 1, Mad1
家族 Family family	h.1.22.1 — Mitotic arrest deficient-like 1, Mad1

CATH v4.4 (8 domains)

结构域编号 domain_id	1go4A00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
同源超家族 H-superfamily homologous superfamily	10 — HORMA domain

结构域编号 domain_id	1go4B00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
同源超家族 H-superfamily homologous superfamily	10 — HORMA domain

结构域编号 domain_id	1go4C00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
同源超家族 H-superfamily homologous superfamily	10 — HORMA domain

结构域编号 domain_id	1go4D00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	900 — Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A
同源超家族 H-superfamily homologous superfamily	10 — HORMA domain

结构域编号 domain_id	1go4E00
类 Class class	6 — Special
架构 Architecture architecture	10 — Helix non-globular
拓扑 Topology topology	250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily	90 —

结构域编号 domain_id	1go4F00
类 Class class	6 — Special
架构 Architecture architecture	10 — Helix non-globular
拓扑 Topology topology	250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily	90 —

结构域编号 domain_id	1go4G00
类 Class class	6 — Special
架构 Architecture architecture	10 — Helix non-globular
拓扑 Topology topology	250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily	90 —

结构域编号 domain_id	1go4H00
类 Class class	6 — Special
架构 Architecture architecture	10 — Helix non-globular
拓扑 Topology topology	250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily	90 —

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7. 引用文献 (1)

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晶胞边长 a length_a	111.037 Å
晶胞边长 b length_b	63.023 Å
晶胞边长 c length_c	139.511 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	111.65 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	8

空间群 space_group	P 1 21 1
空间群编号 int_tables_number	4
晶系 crystal_system	—

分辨率 resolution	2.050 Å
最低分辨率 resolution_low	24.500 Å
R 因子 r_factor	0.2400
R_work r_work	0.2400
R_free r_free	0.2680

fit	/app/data/saxs_computation/go/1go4/1go4.fit
pddf	/app/data/pr_computation/go/1go4/1go4.pr.out
profile	/app/data/saxs_computation/go/1go4/1go4.dat

Crystal structure of Mad1-Mad2 reveals a conserved Mad2 binding motif in Mad1 and Cdc20.

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

1. 结构基本信息 1. Structure Basics

2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

4. 晶体学与实验 4. Crystallography & Experiment

晶胞参数 Unit Cell

对称性 Symmetry

精修参数 Refinement

衍射实验 Diffraction

5. 实体与聚合体信息 (3)

Entity 1 polymer

聚合体 Polymer

来源 Source

Entity 2 polymer

聚合体 Polymer

来源 Source

Entity 3 water

6. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

CATH v4.4 (8 domains)

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)