当前蛋白身份：Q8IYW5
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差异标签只比较当前检索结果；所有PDB和assembly原始记录仍分别保留。
相关结构差异明细
一行代表一个 PDB 条目中的一个 biological assembly；同一蛋白的多个单体会分别列出。
| PDB 条目 | 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 | 实验环境 | 结构质量 |
|---|---|---|---|---|---|---|---|
| 3L11 Crystal Structure of the Ring Domain of RNF168 提交 2009-12-10 | Assembly 1 蛋白单体 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 A
1–113（113 aa）
片段：ring domain (UNP residues 1-113)
|
未记录 | ZN ZINC ION × 2 MLI MALONATE ION × 2 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7.3；291 K；1.5 M NaMalonate, pH 7.3, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
分辨率 2.12 Å R-free 0.215 |
| 4GB0 Crystal Structure of the RING domain of RNF168 提交 2012-07-26 | Assembly 1 蛋白单体 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 A
1–111（111 aa）
片段：UNP residues 1-111
|
未记录 | MLI MALONATE ION × 1 ZN ZINC ION × 2 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；1.6M sodium malonate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
分辨率 2.60 Å R-free 0.276 |
| 5XIS Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form I 提交 2017-04-27 | Assembly 1 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 A
110–188（79 aa）
片段：UNP residues 110-188
|
未记录 | XYZ beta-D-xylofuranose × 1 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；15% PEG3350, 0.1 M Tris-HCl (pH 8.5), 100 mM MgCl2
|
分辨率 1.78 Å R-free 0.245 |
| 5XIS Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form I 提交 2017-04-27 | Assembly 2 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 D
110–188（79 aa）
片段：UNP residues 110-188
|
未记录 | XYZ beta-D-xylofuranose × 1 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；15% PEG3350, 0.1 M Tris-HCl (pH 8.5), 100 mM MgCl2
|
分辨率 1.78 Å R-free 0.245 |
| 5XIT Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form II 提交 2017-04-27 | Assembly 1 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 A
113–188（76 aa）
片段：UNP residues 113-188
|
未记录 | GOL GLYCEROL × 4 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；23% PEG MME 2000, 0.1 M Bis-Tris (pH 6.5), 10 mM Pr acetate
|
分辨率 2.25 Å R-free 0.239 |
| 5XIT Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, form II 提交 2017-04-27 | Assembly 2 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 E
113–188（76 aa）
片段：UNP residues 113-188
|
未记录 | GOL GLYCEROL × 1 PR PRASEODYMIUM ION × 3 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；23% PEG MME 2000, 0.1 M Bis-Tris (pH 6.5), 10 mM Pr acetate
|
分辨率 2.25 Å R-free 0.239 |
| 5XIU Crystal structure of RNF168 UDM2 in complex with Lys63-linked diubiquitin 提交 2017-04-27 | Assembly 1 蛋白异源复合物 异源复合物；蛋白 × 2 PDB 声明：dimeric（2） 与蛋白数一致 |
链 A
419–462（44 aa）
片段：UNP residues 419-462
|
未记录 | EDO 1,2-ETHANEDIOL × 5 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；25% PEG3350, 0.1 M Tris-HCl (pH8.5), 0.2 M Ammonium Acetate
|
分辨率 1.80 Å R-free 0.207 |
| 5YDK Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, tetrameric form 提交 2017-09-13 | Assembly 1 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 A
113–194（82 aa）
片段：UNP residues 113-194
|
未记录 | 未记录非水小分子 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；293 K；0.1 M Tris pH 7.6
21% PEG3350
|
分辨率 2.50 Å R-free 0.260 |
| 5YDK Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, tetrameric form 提交 2017-09-13 | Assembly 2 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 G
113–194（82 aa）
片段：UNP residues 113-194
|
未记录 | GOL GLYCEROL × 1 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；293 K；0.1 M Tris pH 7.6
21% PEG3350
|
分辨率 2.50 Å R-free 0.260 |
| 5YDK Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, tetrameric form 提交 2017-09-13 | Assembly 3 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 F
113–194（82 aa）
片段：UNP residues 113-194
|
未记录 | GOL GLYCEROL × 1 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；293 K；0.1 M Tris pH 7.6
21% PEG3350
|
分辨率 2.50 Å R-free 0.260 |
| 5YDK Crystal structure of RNF168 UDM1 in complex with Lys63-linked diubiquitin, tetrameric form 提交 2017-09-13 | Assembly 4 蛋白异源复合物 异源复合物；蛋白 × 3 PDB 声明：trimeric（3） 与蛋白数一致 |
链 L
113–194（82 aa）
片段：UNP residues 113-194
|
未记录 | 未记录非水小分子 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；293 K；0.1 M Tris pH 7.6
21% PEG3350
|
分辨率 2.50 Å R-free 0.260 |
| 8SMW Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 1) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.30 Å |
| 8SMX Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 2) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.20 Å |
| 8SMY Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 3) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.20 Å |
| 8SMZ Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (Class 4) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.20 Å |
| 8SN0 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 5) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.20 Å |
| 8SN1 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 6) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.30 Å |
| 8SN2 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c (UbcH5c chemically conjugated to histone H2A) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.60 Å |
| 8SN3 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 1) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.80 Å |
| 8SN4 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 2) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.70 Å |
| 8SN5 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 3) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.90 Å |
| 8SN6 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 4) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.70 Å |
| 8SN7 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 5) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.70 Å |
| 8SN8 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A) (class 6) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.70 Å |
| 8SN9 Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c with backside ubiquitin (UbcH5c chemically conjugated to histone H2A) (class 1) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.90 Å |
| 8SNA Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c with backside ubiquitin (UbcH5c chemically conjugated to histone H2A) (class 2) 提交 2023-04-26 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 K
1–93（93 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 4.00 Å |
| 8TXV Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 1) 提交 2023-08-24 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–571（571 aa）
|
未记录 | 未记录非水小分子 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.80 Å |
| 8TXW Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 2) 提交 2023-08-24 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–571（571 aa）
|
未记录 | 未记录非水小分子 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.60 Å |
| 8TXX Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 3) 提交 2023-08-24 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–571（571 aa）
|
未记录 | 未记录非水小分子 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.70 Å |
| 8U13 Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A lysine 15 in complex with RNF168-UbcH5c (class 1) 提交 2023-08-30 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 9 PDB 声明：undecameric（11） 与全部聚合物一致 |
链 K
1–94（94 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.80 Å |
| 8U14 Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A lysine 15 in complex with RNF168-UbcH5c (class 2) 提交 2023-08-30 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–94（94 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.90 Å |
| 8UPF Cryo-EM structure of the human nucleosome core particle in complex with RNF168-UbcH5c 提交 2023-10-22 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 K
1–94（94 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.20 Å |
| 8UQ8 Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 2-residue linker 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 A
1–94（94 aa）
|
未记录 | CL CHLORIDE ION × 7 GOL GLYCEROL × 3 ZN ZINC ION × 2 NA SODIUM ION × 3 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (9.5 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 0.1 M HEPES, pH 7.5, 2.4 M NaCl
|
分辨率 2.34 Å R-free 0.236 |
| 8UQ8 Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 2-residue linker 提交 2023-10-23 | Assembly 2 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 a
1–94（94 aa）
|
未记录 | CL CHLORIDE ION × 14 GOL GLYCEROL × 2 ZN ZINC ION × 2 NA SODIUM ION × 2 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (9.5 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 0.1 M HEPES, pH 7.5, 2.4 M NaCl
|
分辨率 2.34 Å R-free 0.236 |
| 8UQ9 Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 4-residue linker 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 A
1–94（94 aa）
|
未记录 | CL CHLORIDE ION × 17 GOL GLYCEROL × 3 ZN ZINC ION × 2 NA SODIUM ION × 1 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (8.8 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 0.1 M HEPES, pH 7.5, 2.4 M NaCl
|
分辨率 2.30 Å R-free 0.206 |
| 8UQ9 Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 4-residue linker 提交 2023-10-23 | Assembly 2 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 a
1–94（94 aa）
|
未记录 | CL CHLORIDE ION × 19 GOL GLYCEROL × 3 ZN ZINC ION × 2 NA SODIUM ION × 3 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (8.8 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 0.1 M HEPES, pH 7.5, 2.4 M NaCl
|
分辨率 2.30 Å R-free 0.206 |
| 8UQA Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 12-residue linker 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 K
1–94（94 aa）
|
突变：C85K in UbcH5c | NA SODIUM ION × 3 ZN ZINC ION × 2 CL CHLORIDE ION × 4 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (8.0 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 0.1 M HEPES, pH 7.5, 2.4 M NaCl
|
分辨率 2.05 Å R-free 0.231 |
| 8UQB Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (crystallization condition 1) 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 A
1–94（94 aa）
|
突变：C85K in UbcH5c | ZN ZINC ION × 2 CL CHLORIDE ION × 4 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 7；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (12 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 50 mM BIS-TRIS propane, pH 7.0, 1 M NaCl
|
分辨率 2.48 Å R-free 0.260 |
| 8UQC Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (crystallization condition 2) 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 A
1–94（94 aa）
|
突变：C85K in UbcH5c | ZN ZINC ION × 2 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 6；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (12 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 4% tacsimate, pH 6, 13.5% PEG3350
|
分辨率 2.61 Å R-free 0.252 |
| 8UQD Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (condition 2. RING not modeled in density) 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 B
1–94（94 aa）
|
突变：C85K in UbcH5c | 未记录非水小分子 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；pH 6；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (12 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 4% tacsimate, pH 6, 13.5% PEG3350
|
分辨率 3.89 Å R-free 0.322 |
| 8UQE Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 26-residue linker (RING not modeled in density) 提交 2023-10-23 | Assembly 1 信息不足 单体；蛋白 × 1 PDB 声明：monomeric（1） 与蛋白数一致 |
链 B
1–94（94 aa）
|
突变：S22R,C85K in UbcH5c | 未记录非水小分子 | X-RAY DIFFRACTION |
X-ray结晶条件
VAPOR DIFFUSION, HANGING DROP；288 K；Crystals were obtained by mixing 2 microliters of the protein fusion (10 mg/mL) in 10 mM HEPES, pH 7.5, 600 mM NaCl, 1 mM TCEP and 2 microliters of the reservoir solution containing 0.1 M imidazole, pH 6.5, 1.0 M sodium acetate
|
分辨率 3.56 Å R-free 0.268 |
| 8X7I Cryo-EM structures of RNF168/UbcH5c-Ub in complex with H2AK13Ub nucleosomes determined by intein-based E2-Ub-NCP conjugation strategy 提交 2023-11-24 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 L
1–113（113 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.27 Å |
| 8X7J Cryo-EM structures of RNF168/UbcH5c-Ub/nucleosomes complex determined by activity-based chemical trapping strategy 提交 2023-11-24 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 11 PDB 声明：tridecameric（13） 与全部聚合物一致 |
链 L
1–113（113 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.39 Å |
| 8X7K Cryo-EM structures of RNF168/UbcH5c-Ub in complex with H2AK13Ub nucleosomes determined by activity-based chemical trapping strategy (adjacent H2AK13/15 dual-monoubiquitination) 提交 2023-11-24 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 10 PDB 声明：dodecameric（12） 与全部聚合物一致 |
链 L
1–113（113 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.27 Å |
| 9IPU cryo-EM structure of the RNF168(1-193)/UbcH5c-Ub ubiquitylation module bound to H1.0-K63-Ub3 modified chromatosome 提交 2024-07-11 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 12 PDB 声明：tetradecameric（14） 与全部聚合物一致 |
链 L
1–193（193 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 4.30 Å |
| 9KQ2 Cryo-EM structure of RNF168'-RNF168-UbcH5c complex bound to nucleosome 提交 2024-11-25 | Assembly 1 蛋白–DNA 异源复合物；蛋白 × 9 PDB 声明：undecameric（11） 与全部聚合物一致 |
链 K
1–103（103 aa）
|
未记录 | ZN ZINC ION × 2 | ELECTRON MICROSCOPY |
cryo-EM缓冲液
pH 7.5
cryo-EM玻璃化条件
冷冻剂 ETHANE
|
分辨率 3.90 Å |