1sz9

The RNA polymerase II CTD in mRNA processing: beta-turn recognition and beta-spiral model

Method: X-RAY DIFFRACTION D_max: 89.7 Å Quality: GOOD

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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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	1sz9
沉积日期 deposition_date	2004-04-05
结构标题 title	The RNA polymerase II CTD in mRNA processing: beta-turn recognition and beta-spiral model
关键词 keywords	Pcf11, RNA polymerase II CTD interacting domain, arm repeats, TRANSCRIPTION; TRANSCRIPTION
实验方法 method	X-RAY DIFFRACTION

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2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier	24.92 Å
回转半径 Rg (电子) rg_electron	23.97 Å
零角强度 I(0) i0	36668700.00
分子量 molecular_weight	49059.0 kDa
排除体积 excluded_volume	62481 Å³
包络体积 envelope_volume	74630 Å³
水化壳体积 shell_volume	26381 Å³
包络直径 envelope_diameter	89.0 Å
壳层 Rg shell_rg	30.55 Å
包络 Rg envelope_rg	24.17 Å
形状 Rg shape_rg	23.95 Å
总 Rg total_rg	24.85 Å
总原子数 total_atoms	3458
残基数 n_residues	426
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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3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax	89.7 Å
Rg (实空间) rg_real	24.90 Å
Rg 误差 (实空间) rg_real_error	0.62 Å
I(0) (实空间) i0_real	3.6670e+07
I(0) 误差 (实空间) i0_real_error	4.9340e+05
Rg (倒空间) rg_reciprocal	24.91 Å
I(0) (倒空间) i0_reciprocal	36670000.0000
解质量估计 total_estimate	0.8498
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	2
主峰位置 r_peak_primary	28.5 Å
偏度 Skewness skewness	0.345
峰度 Kurtosis kurtosis	-0.258
角度范围 angular_range	— – 0.3200 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	11720000.0000
实空间数据点数 n_real_points	64
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.718; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.890; Smooth: 1.000

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4. 晶体学与实验 4. Crystallography & Experiment

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5. 实体与聚合体信息 (2)

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6. 折叠分类 (SCOP + CATH) 9 domains

SCOP 2.08 (6 domains)

结构域编号 domain_id	d1sz9a1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.118 — alpha-alpha superhelix
超家族 Superfamily superfamily	a.118.9 — ENTH/VHS domain
家族 Family family	a.118.9.4 — RNA Polymerase II carboxy-terminal domain (CTD)-interacting (CID) domain (RPR domain)

结构域编号 domain_id	d1sz9a2
类 Class class	l — Artifacts
折叠类型 Fold fold	l.1 — Tags
超家族 Superfamily superfamily	l.1.1 — Tags
家族 Family family	l.1.1.1 — Tags

结构域编号 domain_id	d1sz9b1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.118 — alpha-alpha superhelix
超家族 Superfamily superfamily	a.118.9 — ENTH/VHS domain
家族 Family family	a.118.9.4 — RNA Polymerase II carboxy-terminal domain (CTD)-interacting (CID) domain (RPR domain)

结构域编号 domain_id	d1sz9b2
类 Class class	l — Artifacts
折叠类型 Fold fold	l.1 — Tags
超家族 Superfamily superfamily	l.1.1 — Tags
家族 Family family	l.1.1.1 — Tags

结构域编号 domain_id	d1sz9c1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.118 — alpha-alpha superhelix
超家族 Superfamily superfamily	a.118.9 — ENTH/VHS domain
家族 Family family	a.118.9.4 — RNA Polymerase II carboxy-terminal domain (CTD)-interacting (CID) domain (RPR domain)

结构域编号 domain_id	d1sz9c2
类 Class class	l — Artifacts
折叠类型 Fold fold	l.1 — Tags
超家族 Superfamily superfamily	l.1.1 — Tags
家族 Family family	l.1.1.1 — Tags

CATH v4.4 (3 domains)

结构域编号 domain_id	1sz9A00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	25 — Alpha Horseshoe
拓扑 Topology topology	40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily	90 —

结构域编号 domain_id	1sz9B00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	25 — Alpha Horseshoe
拓扑 Topology topology	40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily	90 —

结构域编号 domain_id	1sz9C00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	25 — Alpha Horseshoe
拓扑 Topology topology	40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily	90 —

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7. 引用文献 (1)

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晶胞边长 a length_a	56.730 Å
晶胞边长 b length_b	67.670 Å
晶胞边长 c length_c	135.637 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	90.00 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	12

空间群 space_group	P 21 21 21
空间群编号 int_tables_number	19
晶系 crystal_system	—

分辨率 resolution	2.100 Å
最低分辨率 resolution_low	20.000 Å
R 因子 r_factor	0.2200
R_work r_work	0.2200
R_free r_free	0.2520

描述 description	PCF11 protein
分子量 formula_weight	16624.1 kDa
来源方法 src_method	man
拷贝数 entity_count	3

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,C
原子数 atom_count	3567

The RNA polymerase II CTD in mRNA processing: beta-turn recognition and beta-spiral model

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

1. 结构基本信息 1. Structure Basics

2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

4. 晶体学与实验 4. Crystallography & Experiment

晶胞参数 Unit Cell

对称性 Symmetry

精修参数 Refinement

衍射实验 Diffraction

5. 实体与聚合体信息 (2)

Entity 1 polymer

聚合体 Polymer

来源 Source

Entity 2 water

6. 折叠分类 (SCOP + CATH) 9 domains

SCOP 2.08 (6 domains)

CATH v4.4 (3 domains)

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)

来源生物 organism	Saccharomyces cerevisiae
通用名 common_name	;baker's yeast ;
NCBI 分类编号 ncbi_taxonomy_id	4932
宿主生物 host_organism	Escherichia coli

描述 description	water
分子量 formula_weight	18.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	109

fit	/app/data/saxs_computation/sz/1sz9/1sz9.fit
pddf	/app/data/pr_computation/sz/1sz9/1sz9.pr.out
profile	/app/data/saxs_computation/sz/1sz9/1sz9.dat