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2ypy

KSHV LANA (ORF73) C-terminal domain, decameric ring: monoclinic crystal form

Method: X-RAY DIFFRACTION Dmax: 125.4 Å Quality: GOOD
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1. 蛋白身份与相关结构 Protein Identity & Related Structures

ORF 73

HUMAN HERPESVIRUS 8 TYPE M

UniProt Q76SB0

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 × 2 PDB 声明：dimeric（2） 与蛋白拷贝数一致 链 G； UniProt 1013–1149 链 H； UniProt 1013–1149 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149 CL CHLORIDE ION × 3 X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；pH 9；285 K；1.5 UL OF 2.0 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 10 MM DTT WERE ADDED TO 1.5 UL OF 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000. THE MIXTURE WAS INCUBATED AT 12 DEGREES CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000, 25 % (V/V) GLYCEROL. 分辨率 2.45 Å R-free 0.252
2 蛋白同源多聚体 同源多聚体 蛋白 × 2 PDB 声明：dimeric（2） 与蛋白拷贝数一致 链 C； UniProt 1013–1149 链 D； UniProt 1013–1149 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149 CL CHLORIDE ION × 6 X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；pH 9；285 K；1.5 UL OF 2.0 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 10 MM DTT WERE ADDED TO 1.5 UL OF 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000. THE MIXTURE WAS INCUBATED AT 12 DEGREES CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000, 25 % (V/V) GLYCEROL. 分辨率 2.45 Å R-free 0.252
3 蛋白同源多聚体 同源多聚体 蛋白 × 2 PDB 声明：dimeric（2） 与蛋白拷贝数一致 链 A； UniProt 1013–1149 链 B； UniProt 1013–1149 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149 CL CHLORIDE ION × 6 X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；pH 9；285 K；1.5 UL OF 2.0 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 10 MM DTT WERE ADDED TO 1.5 UL OF 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000. THE MIXTURE WAS INCUBATED AT 12 DEGREES CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000, 25 % (V/V) GLYCEROL. 分辨率 2.45 Å R-free 0.252
4 蛋白同源多聚体 同源多聚体 蛋白 × 2 PDB 声明：dimeric（2） 与蛋白拷贝数一致 链 E； UniProt 1013–1149 链 F； UniProt 1013–1149 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149 CL CHLORIDE ION × 5 X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；pH 9；285 K；1.5 UL OF 2.0 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 10 MM DTT WERE ADDED TO 1.5 UL OF 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000. THE MIXTURE WAS INCUBATED AT 12 DEGREES CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000, 25 % (V/V) GLYCEROL. 分辨率 2.45 Å R-free 0.252
5 蛋白同源多聚体 同源多聚体 蛋白 × 2 PDB 声明：dimeric（2） 与蛋白拷贝数一致 链 I； UniProt 1013–1149 链 J； UniProt 1013–1149 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149 CL CHLORIDE ION × 4 X-RAY DIFFRACTION X-ray结晶条件：VAPOR DIFFUSION, HANGING DROP；pH 9；285 K；1.5 UL OF 2.0 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 10 MM DTT WERE ADDED TO 1.5 UL OF 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000. THE MIXTURE WAS INCUBATED AT 12 DEGREES CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.1 M SODIUM BICINE, PH 9.0, 1.0 M LITHIUM CHLORIDE, 7 % (W/V) PEG 6000, 25 % (V/V) GLYCEROL. 分辨率 2.45 Å R-free 0.252

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 2YPY 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
2YPZ KSHV LANA (ORF73) C-terminal domain, decameric ring: orthorhombic crystal form 提交 2012-11-02 配体/离子不同 实验环境不同 结构质量不同 Assembly 1 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 I 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 J 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
未记录 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；1.5 UL OF 0.8 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 200 MM LICL, 4 MM DTT WERE ADDED TO 1.5 UL OF 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350. THE MIXTURE WAS INCUBATED AT 20 DEGREE CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350, 30 % (V/V) GLYCEROL.
分辨率 3.20 Å R-free 0.265
2YPZ KSHV LANA (ORF73) C-terminal domain, decameric ring: orthorhombic crystal form 提交 2012-11-02 配体/离子不同 实验环境不同 结构质量不同 Assembly 2 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 C 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 D 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
未记录 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；1.5 UL OF 0.8 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 200 MM LICL, 4 MM DTT WERE ADDED TO 1.5 UL OF 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350. THE MIXTURE WAS INCUBATED AT 20 DEGREE CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350, 30 % (V/V) GLYCEROL.
分辨率 3.20 Å R-free 0.265
2YPZ KSHV LANA (ORF73) C-terminal domain, decameric ring: orthorhombic crystal form 提交 2012-11-02 配体/离子不同 实验环境不同 结构质量不同 Assembly 3 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 A 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 B 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
未记录 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；1.5 UL OF 0.8 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 200 MM LICL, 4 MM DTT WERE ADDED TO 1.5 UL OF 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350. THE MIXTURE WAS INCUBATED AT 20 DEGREE CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350, 30 % (V/V) GLYCEROL.
分辨率 3.20 Å R-free 0.265
2YPZ KSHV LANA (ORF73) C-terminal domain, decameric ring: orthorhombic crystal form 提交 2012-11-02 配体/离子不同 实验环境不同 结构质量不同 Assembly 4 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 G 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 H 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
未记录 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；1.5 UL OF 0.8 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 200 MM LICL, 4 MM DTT WERE ADDED TO 1.5 UL OF 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350. THE MIXTURE WAS INCUBATED AT 20 DEGREE CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350, 30 % (V/V) GLYCEROL.
分辨率 3.20 Å R-free 0.265
2YPZ KSHV LANA (ORF73) C-terminal domain, decameric ring: orthorhombic crystal form 提交 2012-11-02 配体/离子不同 实验环境不同 结构质量不同 Assembly 5 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 E 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 F 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
未记录 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.6；293 K；1.5 UL OF 0.8 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 200 MM LICL, 4 MM DTT WERE ADDED TO 1.5 UL OF 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350. THE MIXTURE WAS INCUBATED AT 20 DEGREE CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.2 M LITHIUM CITRATE, PH 7.6, 20 % (W/V) PEG 3350, 30 % (V/V) GLYCEROL.
分辨率 3.20 Å R-free 0.265
2YQ0 KSHV LANA (ORF73) C-terminal domain, octameric ring: cubic crystal form 提交 2012-11-02 构建体不同 突变/修饰不同 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 蛋白同源多聚体 同源多聚体；蛋白 × 8 PDB 声明：octameric
链 A 996–1153（158 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 996-1153
未记录 SO4 SULFATE ION × 8 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 2.5；277 K；1 UL OF 1 MM PROTEIN IN 5 MM BISTRIS, PH 6.5, 2 MM DTT WAS ADDED TO 1 UL OF 0.1 M SODIUM CITRATE, PH 2.5, 1.5 M AMMONIUM SULFATE. THE MIXTURE WAS INCUBATED AT 4 DEGREE CENTIGRADE IN A HANGING DROP SETUP. CRYSTALS GREW IN A FEW DAYS AND WERE CRYO-PROTECTED BY SHORT SOAKING IN 0.1 M SODIUM CITRATE, PH 2.5, 1.5 M AMMONIUM SULFATE, 25% (V/V) GLYCEROL.
分辨率 3.91 Å R-free 0.317
4UZB KSHV LANA (ORF73) C-terminal domain mutant bound to LBS1 DNA (R1039Q, R1040Q, K1055E, K1109A, D1110A, A1121E, K1138S, K1140D, K1141D) 提交 2014-09-05 构建体不同 突变/修饰不同 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–DNA 同源多聚体；蛋白 × 2 PDB 声明：tetrameric
链 A 1008–1146（139 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1008-1146
链 B 1008–1146（139 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1008-1146
突变：R1039Q, R1040Q, K1055E, K1109A, D1110A, A1121E, K1138S, K1140D, K1141D 突变：R1039Q, R1040Q, K1055E, K1109A, D1110A, A1121E, K1138S, K1140D, K1141D 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 6.6；297 K；0.9 UL OF 1.60 MM LANA(1008-1146) MUTANT, 0.96 MM DSDNA, 10 MM BISTRIS PH 6.5, 0.9 M NACL, AND 5 MM DTT WERE ADDED TO 0.9 UL OF RESERVOIR SOLUTION CONTAINING 50 MM MES PH 6.6, 27% PEG4000, AND 0.3 M AMMONIUM ACETATE IN A HANGING DROP SETUP. CRYSTALS GREW WITHIN FIVE DAYS AT 24 DEGREES CENTIGRADE.
分辨率 2.87 Å R-free 0.155
4UZC KSHV LANA (ORF73) C-terminal domain, spiral: hexagonal crystal form 提交 2014-09-05 构建体不同 突变/修饰不同 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 蛋白同源多聚体 同源多聚体；蛋白 × 48 PDB 声明：48-meric
链 A 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 B 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 C 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
链 D 1013–1149（137 aa） 片段：C-TERMINAL DOMAIN, RESIDUES 1013-1149
未记录 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.4 UL OF 31.5 MG/ML PROTEIN IN 5 MM BISTRIS-CL, 5 MM DTT, PH 6.5 WERE AS SUCH EQUILIBRATED AGAINST A RESERVOIR SOLUTION OF 170 MM LITHIUM ACETATE AND 18% (W/V) PEG3350 IN A SITTING DROP SETUP AT 20 DEGREE CENTIGRADE. AFTER TWO DAYS, CRYSTALS WERE DETACHED FROM THE CARRIER PLASTIC BY ADDING 1 UL OF 2 M AMMONIUM FORMATE.
分辨率 3.70 Å R-free 0.239
5A76 KSHV LANA (ORF73) C-terminal domain, open non-ring conformation: orthorhombic crystal form 提交 2015-07-02 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 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 E 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
链 F 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
未记录 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray结晶条件 pH 3；100 MM CITRIC ACID, PH 3.0, 1200 MM MAGNESIUM CHLORIDE.
分辨率 3.80 Å R-free 0.269
5A76 KSHV LANA (ORF73) C-terminal domain, open non-ring conformation: orthorhombic crystal form 提交 2015-07-02 构建体不同 配体/离子不同 实验环境不同 结构质量不同 Assembly 2 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 C 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
链 D 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
未记录 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray结晶条件 pH 3；100 MM CITRIC ACID, PH 3.0, 1200 MM MAGNESIUM CHLORIDE.
分辨率 3.80 Å R-free 0.269
5A76 KSHV LANA (ORF73) C-terminal domain, open non-ring conformation: orthorhombic crystal form 提交 2015-07-02 构建体不同 配体/离子不同 实验环境不同 结构质量不同 Assembly 3 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 A 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
链 B 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
未记录 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray结晶条件 pH 3；100 MM CITRIC ACID, PH 3.0, 1200 MM MAGNESIUM CHLORIDE.
分辨率 3.80 Å R-free 0.269
5A76 KSHV LANA (ORF73) C-terminal domain, open non-ring conformation: orthorhombic crystal form 提交 2015-07-02 构建体不同 配体/离子不同 实验环境不同 结构质量不同 Assembly 4 蛋白同源多聚体 同源多聚体；蛋白 × 2 PDB 声明：dimeric
链 G 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
链 H 1018–1150（133 aa） 片段：DNA-BINDING DOMAIN, UNP RESIDUES 1018-1150
未记录 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray结晶条件 pH 3；100 MM CITRIC ACID, PH 3.0, 1200 MM MAGNESIUM CHLORIDE.
分辨率 3.80 Å R-free 0.269
7BCY X-ray structure of WDR5delta24 bound to the Kaposi's sarcoma herpesvirus LANA win motif peptide 提交 2020-12-21 构建体不同 突变/修饰不同 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 Q 23–32（10 aa）
非标准单体：是（mmCIF未提供具体位点） 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；pH 5.5；294 K；100 mM Bis-Tris pH 5.5, 50 mM (NH4)2SO4, 25% PEG3350
分辨率 1.50 Å R-free 0.227
7BCY X-ray structure of WDR5delta24 bound to the Kaposi's sarcoma herpesvirus LANA win motif peptide 提交 2020-12-21 构建体不同 突变/修饰不同 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 2 蛋白异源复合物 异源复合物；蛋白 × 2 PDB 声明：dimeric
链 P 23–32（10 aa）
非标准单体：是（mmCIF未提供具体位点） 未记录非水小分子 X-RAY DIFFRACTION
X-ray结晶条件 VAPOR DIFFUSION, SITTING DROP；pH 5.5；294 K；100 mM Bis-Tris pH 5.5, 50 mM (NH4)2SO4, 25% PEG3350
分辨率 1.50 Å R-free 0.227

共 6 个其他 PDB 条目、14 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 Q76SB0_HHV8
Isoform —
PDB实体 1
链与序列区间 作者链 A； PDB构建体 3–139； UniProt 1013–1149 作者链 B； PDB构建体 3–139； UniProt 1013–1149 作者链 C； PDB构建体 3–139； UniProt 1013–1149 作者链 D； PDB构建体 3–139； UniProt 1013–1149 作者链 E； PDB构建体 3–139； UniProt 1013–1149 作者链 F； PDB构建体 3–139； UniProt 1013–1149 作者链 G； PDB构建体 3–139； UniProt 1013–1149 作者链 H； PDB构建体 3–139； UniProt 1013–1149 作者链 I； PDB构建体 3–139； UniProt 1013–1149 作者链 J； PDB构建体 3–139； UniProt 1013–1149

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 2ypy

P(r) 距离分布 P(r) Distribution

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

条目编号 entry_id2ypy
沉积日期 deposition_date2012-11-02
结构标题 titleKSHV LANA (ORF73) C-terminal domain, decameric ring: monoclinic crystal form
关键词 keywords;VIRAL PROTEIN, VIRAL PROTEIN N, LATENCY-ASSOCIATED NUCLEAR ANTIGEN, LANA-1, DNA-BINDING DOMAIN, ORIGIN-BINDING DOMAIN, OLIGOMERIZATION DOMAIN, KAPOSI'S SARCOMA-ASSOCIATED HERPESVIRUS, GAMMAHERPESVIRUS, RHADINOVIRUS, PRIMARY EFFUSION LYMPHOMA, MULTICENTRIC CASTLEMAN'S DISEASE, TUMOR VIRUS, CANCER, MURID HERPESVIRUS 4, MUHV-4, MURID HERPESVIRUS 68, MHV-68 ;; VIRAL PROTEIN
实验方法 methodX-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_guinier44.43 Å
回转半径 Rg (电子) rg_electron43.46 Å
零角强度 I(0) i0332427000.00
分子量 molecular_weight154030.0 kDa
排除体积 excluded_volume194160 ų
包络体积 envelope_volume288850 ų
水化壳体积 shell_volume53616 ų
包络直径 envelope_diameter122.4 Å
壳层 Rg shell_rg52.63 Å
包络 Rg envelope_rg40.72 Å
形状 Rg shape_rg43.49 Å
总 Rg total_rg43.76 Å
总原子数 total_atoms10843
残基数 n_residues1345
球谐函数阶数 n_harmonics20
q 范围 q_range— – 0.5000 Å−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
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4. P(r) 距离分布 (GNOM 反演) 4. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax125.4 Å
Rg (实空间) rg_real44.17 Å
Rg 误差 (实空间) rg_real_error0.99 Å
I(0) (实空间) i0_real3.3240e+08
I(0) 误差 (实空间) i0_real_error5.4450e+06
Rg (倒空间) rg_reciprocal44.43 Å
I(0) (倒空间) i0_reciprocal332500000.0000
解质量估计 total_estimate0.8666
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks2
主峰位置 r_peak_primary73.1 Å
偏度 Skewness skewness-0.167
峰度 Kurtosis kurtosis-0.977
角度范围 angular_range— – 0.1800 Å−1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha17040000.0000
实空间数据点数 n_real_points37
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.845; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.734
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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)

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7. 折叠分类 (SCOP + CATH) 10 domains

CATH v4.4 (10 domains)

结构域编号 domain_id2ypyA00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyB00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyC00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyD00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyE00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyF00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyG00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyH00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyI00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
结构域编号 domain_id2ypyJ00
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology70 — Alpha-Beta Plaits
同源超家族 H-superfamily homologous superfamily390 — Epstein Barr virus nuclear antigen-1, DNA-binding domain
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8. 引用文献 (1)

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9. 文件与曲线 (10)