2xyt

Crystal structure of Aplysia californica AChBP in complex with d- tubocurarine

Method: X-RAY DIFFRACTION Dmax: 146.5 Å Quality: GOOD

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

SOLUBLE ACETYLCHOLINE RECEPTOR

APLYSIA CALIFORNICA

UniProt Q8WSF8

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 蛋白同源多聚体 同源多聚体 蛋白 × 5 PDB 声明:pentameric(5) 与蛋白拷贝数一致 链 A; UniProt 20–236 链 B; UniProt 20–236 链 C; UniProt 20–236 链 D; UniProt 20–236 链 E; UniProt 20–236 片段:RESIDUES 20-236 TC9 D-TUBOCURARINE × 2 X-RAY DIFFRACTION X-ray结晶条件:200 MM NA2 SO4, 100 MM BISTRISPROPANE PH 8.5, 15% PEG 3350. 分辨率 2.05 Å R-free 0.220
2 蛋白同源多聚体 同源多聚体 蛋白 × 5 PDB 声明:pentameric(5) 与蛋白拷贝数一致 链 F; UniProt 20–236 链 G; UniProt 20–236 链 H; UniProt 20–236 链 I; UniProt 20–236 链 J; UniProt 20–236 片段:RESIDUES 20-236 TC9 D-TUBOCURARINE × 3 X-RAY DIFFRACTION X-ray结晶条件:200 MM NA2 SO4, 100 MM BISTRISPROPANE PH 8.5, 15% PEG 3350. 分辨率 2.05 Å R-free 0.220

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 85 个其他 PDB 条目、119 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 Q8WSF8_APLCA
Isoform
PDB实体 1
链与序列区间 作者链 A; PDB构建体 1–217; UniProt 20–236 作者链 B; PDB构建体 1–217; UniProt 20–236 作者链 C; PDB构建体 1–217; UniProt 20–236 作者链 D; PDB构建体 1–217; UniProt 20–236 作者链 E; PDB构建体 1–217; UniProt 20–236 作者链 F; PDB构建体 1–217; UniProt 20–236 作者链 G; PDB构建体 1–217; UniProt 20–236 作者链 H; PDB构建体 1–217; UniProt 20–236 作者链 I; PDB构建体 1–217; UniProt 20–236 作者链 J; PDB构建体 1–217; UniProt 20–236

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 2xyt

P(r) 距离分布 P(r) Distribution

P(r) distribution for 2xyt
下载 Download

2. 结构基本信息 2. Structure Basics

条目编号 entry_id2xyt
沉积日期 deposition_date2010-11-19
结构标题 titleCrystal structure of Aplysia californica AChBP in complex with d- tubocurarine
关键词 keywordsRECEPTOR, AMIDATION, CONFORMATIONAL FLEXIBILITY, CONOTOXIN, NEUROTOXIN NICOTINIC, POSTSYNAPTIC NEUROTOXIN, RECEPTOR-TOXIN COMPLEX; RECEPTOR
实验方法 methodX-RAY DIFFRACTION

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

回转半径 Rg (Guinier) rg_guinier47.23
回转半径 Rg (电子) rg_electron46.96
零角强度 I(0) i0805598000.00
分子量 molecular_weight235340.0 kDa
排除体积 excluded_volume294020 ų
包络体积 envelope_volume407520 ų
水化壳体积 shell_volume73029 ų
包络直径 envelope_diameter155.5
壳层 Rg shell_rg50.10
包络 Rg envelope_rg46.18
形状 Rg shape_rg46.95
总 Rg total_rg47.13
总原子数 total_atoms16575
残基数 n_residues2049
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 dmax146.5
Rg (实空间) rg_real47.46
Rg 误差 (实空间) rg_real_error1.15
I(0) (实空间) i0_real8.0560e+08
I(0) 误差 (实空间) i0_real_error1.4530e+07
Rg (倒空间) rg_reciprocal47.23
I(0) (倒空间) i0_reciprocal805400000.0000
解质量估计 total_estimate0.8144
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary48.8
偏度 Skewness skewness0.452
峰度 Kurtosis kurtosis-0.488
角度范围 angular_range— – 0.1650 −1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha183100000.0000
实空间数据点数 n_real_points34
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.841; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.061

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

6. 实体与聚合物信息 Entities & Polymers (3)

7. 折叠分类 (SCOP + CATH) 20 domains

SCOP 2.08 (10 domains)

结构域编号 domain_idd2xyta_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xytb_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xytc_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xytd_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xyte_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xytf_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xytg_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xyth_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xyti_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches
结构域编号 domain_idd2xytj_
类 Class classb — All beta proteins
折叠类型 Fold foldb.96 — Nicotinic receptor ligand binding domain-like
超家族 Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
家族 Family familyb.96.1.0 — automated matches

CATH v4.4 (10 domains)

结构域编号 domain_id2xytA00
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_id2xytB00
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_id2xytC00
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_id2xytD00
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_id2xytE00
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_id2xytF00
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_id2xytG00
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_id2xytH00
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_id2xytI00
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_id2xytJ00
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)