3u5m

Crystal structure of TRIM33 PHD-Bromo in the free state

Method: X-RAY DIFFRACTION D_max: 161.4 Å Quality: GOOD

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

E3 ubiquitin-protein ligase TRIM33

Homo sapiens

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 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
10	蛋白单体单体蛋白 × 1 PDB 声明：monomeric（1）与蛋白拷贝数一致	链 J； UniProt 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
11	蛋白单体单体蛋白 × 1 PDB 声明：monomeric（1）与蛋白拷贝数一致	链 K； UniProt 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
12	蛋白单体单体蛋白 × 1 PDB 声明：monomeric（1）与蛋白拷贝数一致	链 L； UniProt 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
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 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
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 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
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 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
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 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
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 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
7	蛋白单体单体蛋白 × 1 PDB 声明：monomeric（1）与蛋白拷贝数一致	链 G； UniProt 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
8	蛋白单体单体蛋白 × 1 PDB 声明：monomeric（1）与蛋白拷贝数一致	链 H； UniProt 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293
9	蛋白单体单体蛋白 × 1 PDB 声明：monomeric（1）与蛋白拷贝数一致	链 I； UniProt 882–1087	片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	ZN ZINC ION × 2 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；273 K；0.2M CaCl2, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 273K	分辨率 3.08 Å R-free 0.293

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。

其他 PDB	相对当前条目 3U5M	Assembly / 聚集状态	构建体	突变与修饰	配体、离子与非聚合物	实验方法与环境	结构质量
3U5N Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-20)K9me3K14ac histone peptide 提交 2011-10-11	聚集状态不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 882–1087（206 aa）片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M ammonium tartrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 1.95 Å R-free 0.256
3U5N Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-20)K9me3K14ac histone peptide 提交 2011-10-11	聚集状态不同实验环境不同结构质量不同	Assembly 2 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 882–1087（206 aa）片段：The C-terminal PHD and Bromo dual domains of TRIM33, UNP residues 882-1087	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M ammonium tartrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 1.95 Å R-free 0.256
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 2 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 3 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 C 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 4 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 D 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 5 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 E 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 6 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 F 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 7 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 G 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5O Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 8 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 H 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；293 K；0.1M sodium citrate and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.70 Å R-free 0.280
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 2 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 3 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 C 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 4 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 D 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 5 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 E 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 6 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 F 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 7 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 G 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
3U5P Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-28)K9me3K14acK18acK23ac histone peptide 提交 2011-10-11	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 8 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 H 882–1087（206 aa）片段：The PHD and Bromo domain of TRIM33	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M lithium sulfate, 0.1 mM Tris pH 8.0 and 20% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K	分辨率 2.80 Å R-free 0.265
5MR8 Crystal structure of TRIM33 PHD-Bromodomain isoform B in complex with H3K9ac histone peptide 提交 2016-12-21	构建体不同聚集状态不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 882–1073（192 aa）片段：UNP residues 882-1073	未记录	ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；pH 8；293.15 K；0.1 M Tris pH 8.5, 25% PEG3350	分辨率 1.74 Å R-free 0.286
7ZDD Crystal structure of TRIM33 PHD-Bromodomain isoform B in complex with H3K10ac histone peptide. 提交 2022-03-29	构建体不同聚集状态不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 882–1073（192 aa）片段：UNP residues 882-1073	未记录	EDO 1,2-ETHANEDIOL × 2 ZN ZINC ION × 3	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；pH 5；295.15 K；0.2 M ammonium chloride, 0.1 M sodium acetate pH 5.0, 20% w/v PEG 6000	分辨率 1.62 Å R-free 0.250
8BD8 Crystal structure of TRIM33 alpha PHD-Bromo domain in complex with 8 提交 2022-10-18	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白单体单体；蛋白 × 1 PDB 声明：monomeric	链 A 882–1087（206 aa）	未记录	QCU 1,3-dimethylbenzimidazol-2-one × 1 ZN ZINC ION × 2 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；281 K；0.2 M calcium chloride and 20 % wt/vol PEG-3350	分辨率 3.10 Å R-free 0.338
8BD9 Crystal structure of TRIM33 alpha PHD-Bromo domain in complex with 10 提交 2022-10-18	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白单体单体；蛋白 × 1 PDB 声明：monomeric	链 A 882–1087（206 aa）	未记录	QCU 1,3-dimethylbenzimidazol-2-one × 1 ZN ZINC ION × 2 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；281 K；0.2 M calcium chloride and 20 % wt/vol PEG-3350	分辨率 3.20 Å R-free 0.349
8BDY Crystal structure of TRIM33 alpha PHD-Bromo domain in complex with 9 提交 2022-10-20	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白单体单体；蛋白 × 1 PDB 声明：monomeric	链 A 882–1087（206 aa）	未记录	QCU 1,3-dimethylbenzimidazol-2-one × 1 CA CALCIUM ION × 1 ZN ZINC ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；281 K；0.2 M calcium chloride and 20 % wt/vol PEG-3350	分辨率 3.05 Å R-free 0.334

共 8 个其他 PDB 条目、23 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	TRI33_HUMAN
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 2–207； UniProt 882–1087 作者链 B； PDB构建体 2–207； UniProt 882–1087 作者链 C； PDB构建体 2–207； UniProt 882–1087 作者链 D； PDB构建体 2–207； UniProt 882–1087 作者链 E； PDB构建体 2–207； UniProt 882–1087 作者链 F； PDB构建体 2–207； UniProt 882–1087 作者链 G； PDB构建体 2–207； UniProt 882–1087 作者链 H； PDB构建体 2–207； UniProt 882–1087 作者链 I； PDB构建体 2–207； UniProt 882–1087 作者链 J； PDB构建体 2–207； UniProt 882–1087 作者链 K； PDB构建体 2–207； UniProt 882–1087 作者链 L； PDB构建体 2–207； UniProt 882–1087

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

P(r) 距离分布 P(r) Distribution

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

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2. 结构基本信息 2. Structure Basics

条目编号 entry_id	3u5m
沉积日期 deposition_date	2011-10-11
结构标题 title	Crystal structure of TRIM33 PHD-Bromo in the free state
关键词 keywords	TRIM33, PHD, Bromodomain, TGF-beta, epigenetics, histone, TRANSCRIPTION; TRANSCRIPTION
实验方法 method	X-RAY DIFFRACTION

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

回转半径 Rg (Guinier) rg_guinier	48.17 Å
回转半径 Rg (电子) rg_electron	48.09 Å
零角强度 I(0) i0	879680000.00
分子量 molecular_weight	245870.0 kDa
排除体积 excluded_volume	307700 Å³
包络体积 envelope_volume	481090 Å³
水化壳体积 shell_volume	85779 Å³
包络直径 envelope_diameter	168.7 Å
壳层 Rg shell_rg	51.13 Å
包络 Rg envelope_rg	46.27 Å
形状 Rg shape_rg	48.08 Å
总 Rg total_rg	48.26 Å
总原子数 total_atoms	17117
残基数 n_residues	2114
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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4. P(r) 距离分布 (GNOM 反演) 4. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax	161.4 Å
Rg (实空间) rg_real	48.29 Å
Rg 误差 (实空间) rg_real_error	1.37 Å
I(0) (实空间) i0_real	8.7970e+08
I(0) 误差 (实空间) i0_real_error	1.6710e+07
Rg (倒空间) rg_reciprocal	48.18 Å
I(0) (倒空间) i0_reciprocal	879500000.0000
解质量估计 total_estimate	0.8468
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	53.8 Å
偏度 Skewness skewness	0.456
峰度 Kurtosis kurtosis	-0.188
角度范围 angular_range	— – 0.1650 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	138300000.0000
实空间数据点数 n_real_points	34
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.793; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.628

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

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6. 实体与聚合物信息 Entities & Polymers (3)

实体 1 Entity 1 polymer

描述 description	E3 ubiquitin-protein ligase TRIM33
分子量 formula_weight	23830.3 kDa
EC 编号 ec_number	6.3.2.-
来源方法 src_method	man
拷贝数 entity_count	12

聚合物 Polymer

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D,E,F,G,H,I,J,K,L
原子数 atom_count	17117

SDDDPNEDWCAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPVDQRKCERLLLYLYCHELSIEFQEPVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYSDRTFA

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

实体 2 Entity 2 non-polymer

描述 description	ZINC ION
分子量 formula_weight	65.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	24

实体 3 Entity 3 non-polymer

描述 description	CALCIUM ION
分子量 formula_weight	40.1 kDa
来源方法 src_method	syn
拷贝数 entity_count	12

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7. 折叠分类 (SCOP + CATH) 24 domains

CATH v4.4 (24 domains)

结构域编号 domain_id	3u5mA01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mA02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mB01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mB02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mC01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mC02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mD01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mD02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mE01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mE02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mF01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mF02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mG01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mG02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mH01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mH02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mI01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mI02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mJ01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mJ02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mK01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mK02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

结构域编号 domain_id	3u5mL01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	40 — Herpes Virus-1
同源超家族 H-superfamily homologous superfamily	10 — Zinc/RING finger domain, C3HC4 (zinc finger)

结构域编号 domain_id	3u5mL02
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	920 — Histone Acetyltransferase; Chain A
同源超家族 H-superfamily homologous superfamily	10 — Bromodomain-like

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8. 引用文献 (1)

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晶胞边长 a length_a	79.527 Å
晶胞边长 b length_b	79.781 Å
晶胞边长 c length_c	134.160 Å
晶胞夹角 α angle_alpha	89.90 °
晶胞夹角 β angle_beta	89.96 °
晶胞夹角 γ angle_gamma	59.97 °
晶胞分子数 Z z_pdb	12

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

分辨率 resolution	3.080 Å
最低分辨率 resolution_low	27.360 Å
R 因子 r_factor	0.2106
R_work r_work	0.2074
R_free r_free	0.2935

fit	/app/data/saxs_computation/u5/3u5m/3u5m.fit
pddf	/app/data/pr_computation/u5/3u5m/3u5m.pr.out
profile	/app/data/saxs_computation/u5/3u5m/3u5m.dat