5l13

Structure of ALDH2 in complex with 2P3

Method: X-RAY DIFFRACTION Dmax: 181.2 Å Quality: GOOD

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

Aldehyde dehydrogenase, mitochondrial

Homo sapiens

UniProt P05091

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 × 4 PDB 声明:tetrameric(4) 与蛋白拷贝数一致 链 A; UniProt 1–517 链 B; UniProt 1–517 链 C; UniProt 1–517 链 D; UniProt 1–517 未记录 NA SODIUM ION × 4 EDO 1,2-ETHANEDIOL × 5 GAI GUANIDINE × 8 6ZE 2,3,5-trimethyl-6-propyl-7H-furo[3,2-g][1]benzopyran-7-one × 4 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 6.4;300 K;100 mM ACES, 100 mM guanidine-HCl, 10 mM MgCl2, 4 mM dithiothreitol, 18% PEG6000 分辨率 2.40 Å R-free 0.206
2 蛋白同源多聚体 同源多聚体 蛋白 × 4 PDB 声明:tetrameric(4) 与蛋白拷贝数一致 链 E; UniProt 1–517 链 F; UniProt 1–517 链 G; UniProt 1–517 链 H; UniProt 1–517 未记录 NA SODIUM ION × 4 EDO 1,2-ETHANEDIOL × 7 GAI GUANIDINE × 8 6ZE 2,3,5-trimethyl-6-propyl-7H-furo[3,2-g][1]benzopyran-7-one × 4 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 6.4;300 K;100 mM ACES, 100 mM guanidine-HCl, 10 mM MgCl2, 4 mM dithiothreitol, 18% PEG6000 分辨率 2.40 Å R-free 0.206

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、59 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 ALDH2_HUMAN
Isoform
PDB实体 1
链与序列区间 作者链 A; PDB构建体 1–517; UniProt 1–517 作者链 B; PDB构建体 1–517; UniProt 1–517 作者链 C; PDB构建体 1–517; UniProt 1–517 作者链 D; PDB构建体 1–517; UniProt 1–517 作者链 E; PDB构建体 1–517; UniProt 1–517 作者链 F; PDB构建体 1–517; UniProt 1–517 作者链 G; PDB构建体 1–517; UniProt 1–517 作者链 H; PDB构建体 1–517; UniProt 1–517

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 5l13

P(r) 距离分布 P(r) Distribution

P(r) distribution for 5l13
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2. 结构基本信息 2. Structure Basics

条目编号 entry_id5l13
沉积日期 deposition_date2016-07-28
结构标题 titleStructure of ALDH2 in complex with 2P3
关键词 keywordsOXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR complex; OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR
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_guinier53.32
回转半径 Rg (电子) rg_electron53.31
零角强度 I(0) i02640380000.00
分子量 molecular_weight435440.0 kDa
排除体积 excluded_volume546150 ų
包络体积 envelope_volume680210 ų
水化壳体积 shell_volume104060 ų
包络直径 envelope_diameter190.5
壳层 Rg shell_rg58.06
包络 Rg envelope_rg52.59
形状 Rg shape_rg53.30
总 Rg total_rg53.48
总原子数 total_atoms30673
残基数 n_residues3953
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 dmax181.2
Rg (实空间) rg_real53.41
Rg 误差 (实空间) rg_real_error2.07
I(0) (实空间) i0_real2.6400e+09
I(0) 误差 (实空间) i0_real_error6.0740e+07
Rg (倒空间) rg_reciprocal53.23
I(0) (倒空间) i0_reciprocal2640000000.0000
解质量估计 total_estimate0.8667
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary60.4
偏度 Skewness skewness0.402
峰度 Kurtosis kurtosis-0.396
角度范围 angular_range— – 0.1500 −1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha283900000.0000
实空间数据点数 n_real_points31
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.822; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.799

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

6. 实体与聚合物信息 Entities & Polymers (6)

7. 折叠分类 (SCOP + CATH) 24 domains

SCOP 2.08 (8 domains)

结构域编号 domain_idd5l13a_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13b_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13c_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13d_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13e_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13f_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13g_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like
结构域编号 domain_idd5l13h_
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.82 — ALDH-like
超家族 Superfamily superfamilyc.82.1 — ALDH-like
家族 Family familyc.82.1.1 — ALDH-like

CATH v4.4 (16 domains)

结构域编号 domain_id5l13A01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13A02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13B01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13B02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13C01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13C02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13D01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13D02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13E01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13E02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13F01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13F02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13G01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13G02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2
结构域编号 domain_id5l13H01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology605 — Aldehyde Dehydrogenase; Chain A, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 1
结构域编号 domain_id5l13H02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology309 — Aldehyde Dehydrogenase; Chain A, domain 2
同源超家族 H-superfamily homologous superfamily10 — Aldehyde Dehydrogenase; Chain A, domain 2

8. 引用文献 (1)

9. 文件与曲线 (10)