9ywn

Protein Structure of the First Glycoside Hydrolase Family 30, Subfamily 12 Endoxylanase

Method: X-RAY DIFFRACTION Dmax: 131.1 Å Quality: GOOD

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

Glucuronoarabinoxylan endo-1,4-beta-xylanase

Anaerobacterium chartisolvens

UniProt A0A369AIV8

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 蛋白单体 单体 蛋白 × 1 PDB 声明:monomeric(1) 与蛋白拷贝数一致 链 A; UniProt 30–450 片段:;The C-terminal was truncated by removing two non-catalytic domains. These removed domains inlcude a carbohydrate binding module family 6 and dockerin domains. ; GOL GLYCEROL × 4 FMT FORMIC ACID × 1 ACY ACETIC ACID × 2 EDO 1,2-ETHANEDIOL × 1 NA SODIUM ION × 1 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 4.6;289 K;0.17 M ammonium acetate, 0.085 M sodium acetate HCl pH 4.6, 25.5 percent PEG 4000 and 15 percent glycerol 分辨率 1.92 Å R-free 0.205
2 蛋白单体 单体 蛋白 × 1 PDB 声明:monomeric(1) 与蛋白拷贝数一致 链 B; UniProt 30–450 片段:;The C-terminal was truncated by removing two non-catalytic domains. These removed domains inlcude a carbohydrate binding module family 6 and dockerin domains. ; GOL GLYCEROL × 5 FMT FORMIC ACID × 1 EDO 1,2-ETHANEDIOL × 4 NA SODIUM ION × 1 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 4.6;289 K;0.17 M ammonium acetate, 0.085 M sodium acetate HCl pH 4.6, 25.5 percent PEG 4000 and 15 percent glycerol 分辨率 1.92 Å R-free 0.205
3 蛋白单体 单体 蛋白 × 1 PDB 声明:monomeric(1) 与蛋白拷贝数一致 链 C; UniProt 30–450 片段:;The C-terminal was truncated by removing two non-catalytic domains. These removed domains inlcude a carbohydrate binding module family 6 and dockerin domains. ; GOL GLYCEROL × 6 FMT FORMIC ACID × 2 ACY ACETIC ACID × 2 EDO 1,2-ETHANEDIOL × 1 NA SODIUM ION × 1 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 4.6;289 K;0.17 M ammonium acetate, 0.085 M sodium acetate HCl pH 4.6, 25.5 percent PEG 4000 and 15 percent glycerol 分辨率 1.92 Å R-free 0.205
4 蛋白单体 单体 蛋白 × 1 PDB 声明:monomeric(1) 与蛋白拷贝数一致 链 D; UniProt 30–450 片段:;The C-terminal was truncated by removing two non-catalytic domains. These removed domains inlcude a carbohydrate binding module family 6 and dockerin domains. ; GOL GLYCEROL × 3 FMT FORMIC ACID × 4 EDO 1,2-ETHANEDIOL × 1 NA SODIUM ION × 1 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 4.6;289 K;0.17 M ammonium acetate, 0.085 M sodium acetate HCl pH 4.6, 25.5 percent PEG 4000 and 15 percent glycerol 分辨率 1.92 Å R-free 0.205
5 蛋白单体 单体 蛋白 × 1 PDB 声明:monomeric(1) 与蛋白拷贝数一致 链 E; UniProt 30–450 片段:;The C-terminal was truncated by removing two non-catalytic domains. These removed domains inlcude a carbohydrate binding module family 6 and dockerin domains. ; GOL GLYCEROL × 3 FMT FORMIC ACID × 2 ACY ACETIC ACID × 1 EDO 1,2-ETHANEDIOL × 1 NA SODIUM ION × 1 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 4.6;289 K;0.17 M ammonium acetate, 0.085 M sodium acetate HCl pH 4.6, 25.5 percent PEG 4000 and 15 percent glycerol 分辨率 1.92 Å R-free 0.205
6 蛋白单体 单体 蛋白 × 1 PDB 声明:monomeric(1) 与蛋白拷贝数一致 链 F; UniProt 30–450 片段:;The C-terminal was truncated by removing two non-catalytic domains. These removed domains inlcude a carbohydrate binding module family 6 and dockerin domains. ; GOL GLYCEROL × 1 FMT FORMIC ACID × 2 ACY ACETIC ACID × 1 EDO 1,2-ETHANEDIOL × 4 NA SODIUM ION × 1 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, SITTING DROP;pH 4.6;289 K;0.17 M ammonium acetate, 0.085 M sodium acetate HCl pH 4.6, 25.5 percent PEG 4000 and 15 percent glycerol 分辨率 1.92 Å R-free 0.205

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。

数据库中没有找到同一 UniProt 蛋白的其他 PDB 条目。

查看构建体与数据证据
UniProt名称 A0A369AIV8_9FIRM
Isoform
PDB实体 1
链与序列区间 作者链 A; PDB构建体 26–446; UniProt 30–450 作者链 B; PDB构建体 26–446; UniProt 30–450 作者链 C; PDB构建体 26–446; UniProt 30–450 作者链 D; PDB构建体 26–446; UniProt 30–450 作者链 E; PDB构建体 26–446; UniProt 30–450 作者链 F; PDB构建体 26–446; UniProt 30–450

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 9ywn

P(r) 距离分布 P(r) Distribution

P(r) distribution for 9ywn
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2. 结构基本信息 2. Structure Basics

条目编号 entry_id9ywn
沉积日期 deposition_date2025-10-24
最后修订 last_revision2026-04-15
结构标题 titleProtein Structure of the First Glycoside Hydrolase Family 30, Subfamily 12 Endoxylanase
关键词 keywordsglycoside hydrolase, Xylanase, Endoxylanase, HYDROLASE; HYDROLASE
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_guinier42.26
回转半径 Rg (电子) rg_electron41.65
零角强度 I(0) i01172700000.00
分子量 molecular_weight285970.0 kDa
排除体积 excluded_volume358080 ų
包络体积 envelope_volume447700 ų
水化壳体积 shell_volume85388 ų
包络直径 envelope_diameter137.6
壳层 Rg shell_rg50.00
包络 Rg envelope_rg40.91
形状 Rg shape_rg41.61
总 Rg total_rg42.14
总原子数 total_atoms20217
残基数 n_residues2543
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 dmax131.1
Rg (实空间) rg_real42.00
Rg 误差 (实空间) rg_real_error1.02
I(0) (实空间) i0_real1.1730e+09
I(0) 误差 (实空间) i0_real_error2.1570e+07
Rg (倒空间) rg_reciprocal42.26
I(0) (倒空间) i0_reciprocal1173000000.0000
解质量估计 total_estimate0.8833
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary56.7
偏度 Skewness skewness0.096
峰度 Kurtosis kurtosis-0.419
角度范围 angular_range— – 0.1850 −1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha146300000.0000
实空间数据点数 n_real_points38
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.877; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.955; Smooth: 0.892

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

6. 实体与聚合物信息 Entities & Polymers (8)

8. 引用文献 (1)

9. 文件与曲线 (10)