7smm

Cryo-EM structure of Torpedo acetylcholine receptor in apo form

Method: ELECTRON MICROSCOPY Dmax: 154.3 Å Quality: GOOD

1. 蛋白身份与相关结构 Protein Identity & Related Structures

Acetylcholine receptor subunit alpha

物种未注明

UniProt P02710

当前结构中的状态

Assembly 聚集状态 构建体 突变与修饰 配体、离子与共同组分 实验方法与环境 结构质量
1 其他组合 异源复合物 蛋白 × 5 其他聚合物 5 PDB 声明:pentameric(5) 与蛋白拷贝数一致 链 A; UniProt 25–461 链 D; UniProt 25–461 未记录 Acetylcholine receptor subunit delta × 1 (P02718) Acetylcholine receptor subunit beta × 1 (P02712) Acetylcholine receptor subunit gamma × 1 (P02714) ;alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 2 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 POV (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate × 8 CLR CHOLESTEROL × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 DD9 nonane × 1 ELECTRON MICROSCOPY cryo-EM缓冲液:pH 7.4 cryo-EM玻璃化条件:冷冻剂 ETHANE 分辨率 2.50 Å

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly, “相对当前条目”直接指出证据层面的不同;没有差异标签表示当前已读取字段一致。

共 28 个其他 PDB 条目、28 个 assembly。 打开独立比较页并筛选聚集状态

查看构建体与数据证据
UniProt名称 ACHA_TETCF
Isoform
PDB实体 1
链与序列区间 作者链 A; PDB构建体 1–437; UniProt 25–461 作者链 D; PDB构建体 1–437; UniProt 25–461

Acetylcholine receptor subunit delta

物种未注明

UniProt P02718

当前结构中的状态

Assembly 聚集状态 构建体 突变与修饰 配体、离子与共同组分 实验方法与环境 结构质量
1 其他组合 异源复合物 蛋白 × 5 其他聚合物 5 PDB 声明:pentameric(5) 与蛋白拷贝数一致 链 B; UniProt 22–522 未记录 Acetylcholine receptor subunit alpha × 2 (P02710) Acetylcholine receptor subunit beta × 1 (P02712) Acetylcholine receptor subunit gamma × 1 (P02714) ;alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 2 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 POV (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate × 8 CLR CHOLESTEROL × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 DD9 nonane × 1 ELECTRON MICROSCOPY cryo-EM缓冲液:pH 7.4 cryo-EM玻璃化条件:冷冻剂 ETHANE 分辨率 2.50 Å

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly, “相对当前条目”直接指出证据层面的不同;没有差异标签表示当前已读取字段一致。

共 20 个其他 PDB 条目、20 个 assembly。 打开独立比较页并筛选聚集状态

查看构建体与数据证据
UniProt名称 ACHD_TETCF
Isoform
PDB实体 2
链与序列区间 作者链 B; PDB构建体 1–501; UniProt 22–522

Acetylcholine receptor subunit beta

物种未注明

UniProt P02712

当前结构中的状态

Assembly 聚集状态 构建体 突变与修饰 配体、离子与共同组分 实验方法与环境 结构质量
1 其他组合 异源复合物 蛋白 × 5 其他聚合物 5 PDB 声明:pentameric(5) 与蛋白拷贝数一致 链 C; UniProt 25–493 未记录 Acetylcholine receptor subunit alpha × 2 (P02710) Acetylcholine receptor subunit delta × 1 (P02718) Acetylcholine receptor subunit gamma × 1 (P02714) ;alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 2 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 POV (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate × 8 CLR CHOLESTEROL × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 DD9 nonane × 1 ELECTRON MICROSCOPY cryo-EM缓冲液:pH 7.4 cryo-EM玻璃化条件:冷冻剂 ETHANE 分辨率 2.50 Å

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly, “相对当前条目”直接指出证据层面的不同;没有差异标签表示当前已读取字段一致。

共 19 个其他 PDB 条目、19 个 assembly。 打开独立比较页并筛选聚集状态

查看构建体与数据证据
UniProt名称 ACHB_TETCF
Isoform
PDB实体 3
链与序列区间 作者链 C; PDB构建体 1–469; UniProt 25–493

Acetylcholine receptor subunit gamma

物种未注明

UniProt P02714

当前结构中的状态

Assembly 聚集状态 构建体 突变与修饰 配体、离子与共同组分 实验方法与环境 结构质量
1 其他组合 异源复合物 蛋白 × 5 其他聚合物 5 PDB 声明:pentameric(5) 与蛋白拷贝数一致 链 E; UniProt 18–506 未记录 Acetylcholine receptor subunit alpha × 2 (P02710) Acetylcholine receptor subunit delta × 1 (P02718) Acetylcholine receptor subunit beta × 1 (P02712) ;alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 2 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 POV (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate × 8 CLR CHOLESTEROL × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 DD9 nonane × 1 ELECTRON MICROSCOPY cryo-EM缓冲液:pH 7.4 cryo-EM玻璃化条件:冷冻剂 ETHANE 分辨率 2.50 Å

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly, “相对当前条目”直接指出证据层面的不同;没有差异标签表示当前已读取字段一致。

共 19 个其他 PDB 条目、19 个 assembly。 打开独立比较页并筛选聚集状态

查看构建体与数据证据
UniProt名称 ACHG_TETCF
Isoform
PDB实体 4
链与序列区间 作者链 E; PDB构建体 1–489; UniProt 18–506

页面优先展示蛋白身份、当前 assembly、共同组分、聚集状态和跨 PDB 结构链接。 链映射与序列区间收在“数据证据”中;数据库内部编号、导入时间和 assembly 操作表达式仅用于维护,因此不在读者页面展示。

SAXS 散射曲线 SAXS Profile

SAXS profile for 7smm

P(r) 距离分布 P(r) Distribution

P(r) distribution for 7smm
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2. 结构基本信息 2. Structure Basics

条目编号 entry_id7smm
沉积日期 deposition_date2021-10-26
结构标题 titleCryo-EM structure of Torpedo acetylcholine receptor in apo form
关键词 keywords;acetylcholine receptor, nicotinic receptor, Torpedo, Cys-loop receptor, ion channel, muscle-type nicotinic receptor, TRANSPORT PROTEIN ;; TRANSPORT PROTEIN
实验方法 methodELECTRON MICROSCOPY

3. SAXS 参数 (CRYSOL 理论计算) 3. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier44.52
回转半径 Rg (电子) rg_electron43.78
零角强度 I(0) i0744736000.00
分子量 molecular_weight243920.0 kDa
排除体积 excluded_volume312700 ų
包络体积 envelope_volume402080 ų
水化壳体积 shell_volume76620 ų
包络直径 envelope_diameter162.4
壳层 Rg shell_rg48.71
包络 Rg envelope_rg43.89
形状 Rg shape_rg43.79
总 Rg total_rg43.95
总原子数 total_atoms17193
残基数 n_residues2030
球谐函数阶数 n_harmonics20
q 范围 q_range— – 0.5000 −1
数据点数 n_points101
壳层类型 shell_typedirectional
溶剂电子密度 solvent_density0.3340 e/ų
壳层衬度 contrast_shell0.0300 e/ų
CRYSOL 版本 crysol_version4.1.3

4. P(r) 距离分布 (GNOM 反演) 4. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax154.3
Rg (实空间) rg_real44.73
Rg 误差 (实空间) rg_real_error1.65
I(0) (实空间) i0_real7.4470e+08
I(0) 误差 (实空间) i0_real_error1.4500e+07
Rg (倒空间) rg_reciprocal44.52
I(0) (倒空间) i0_reciprocal744600000.0000
解质量估计 total_estimate0.8340
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary48.5
偏度 Skewness skewness0.550
峰度 Kurtosis kurtosis-0.073
角度范围 angular_range— – 0.1750 −1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha123200000.0000
实空间数据点数 n_real_points36
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.701; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.970; Smooth: 0.766

5. 晶体学与实验 5. Crystallography & Experiment

6. 实体与聚合物信息 Entities & Polymers (13)

7. 折叠分类 (SCOP + CATH) 6 domains

CATH v4.4 (6 domains)

结构域编号 domain_id7smmA01
类 Class class2 — Mainly Beta
架构 Architecture architecture70 — Distorted Sandwich
拓扑 Topology topology170 — Acetylcholine Binding Protein; Chain: A,
同源超家族 H-superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
结构域编号 domain_id7smmB01
类 Class class2 — Mainly Beta
架构 Architecture architecture70 — Distorted Sandwich
拓扑 Topology topology170 — Acetylcholine Binding Protein; Chain: A,
同源超家族 H-superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
结构域编号 domain_id7smmC01
类 Class class2 — Mainly Beta
架构 Architecture architecture70 — Distorted Sandwich
拓扑 Topology topology170 — Acetylcholine Binding Protein; Chain: A,
同源超家族 H-superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
结构域编号 domain_id7smmD01
类 Class class2 — Mainly Beta
架构 Architecture architecture70 — Distorted Sandwich
拓扑 Topology topology170 — Acetylcholine Binding Protein; Chain: A,
同源超家族 H-superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
结构域编号 domain_id7smmD02
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
同源超家族 H-superfamily homologous superfamily390 — Neurotransmitter-gated ion-channel transmembrane domain
结构域编号 domain_id7smmE01
类 Class class2 — Mainly Beta
架构 Architecture architecture70 — Distorted Sandwich
拓扑 Topology topology170 — Acetylcholine Binding Protein; Chain: A,
同源超家族 H-superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain

8. 引用文献 (1)

9. 文件与曲线 (10)