1ffz

LARGE RIBOSOMAL SUBUNIT COMPLEXED WITH R(CC)-DA-PUROMYCIN

Method: X-RAY DIFFRACTION D_max: 158.0 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	1ffz
沉积日期 deposition_date	2000-07-26
结构标题 title	LARGE RIBOSOMAL SUBUNIT COMPLEXED WITH R(CC)-DA-PUROMYCIN
关键词 keywords	ribosome assembly, RNA-RNA complex, Ribozyme, ribosomal RNA, ribosome; RIBOSOME
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	47.82 Å
回转半径 Rg (电子) rg_electron	47.96 Å
零角强度 I(0) i0	1183840000.00
分子量 molecular_weight	162560.0 kDa
排除体积 excluded_volume	151480 Å³
包络体积 envelope_volume	279860 Å³
水化壳体积 shell_volume	51651 Å³
包络直径 envelope_diameter	155.9 Å
壳层 Rg shell_rg	47.48 Å
包络 Rg envelope_rg	47.48 Å
形状 Rg shape_rg	47.94 Å
总 Rg total_rg	47.98 Å
总原子数 total_atoms	10725
残基数 n_residues	499
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	158.0 Å
Rg (实空间) rg_real	47.94 Å
Rg 误差 (实空间) rg_real_error	1.75 Å
I(0) (实空间) i0_real	1.1840e+09
I(0) 误差 (实空间) i0_real_error	2.3290e+07
Rg (倒空间) rg_reciprocal	47.82 Å
I(0) (倒空间) i0_reciprocal	1184000000.0000
解质量估计 total_estimate	0.8770
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	47.9 Å
偏度 Skewness skewness	0.247
峰度 Kurtosis kurtosis	-0.686
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	24760000.0000
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: 0.934; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.961; Smooth: 0.635

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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)

Entity 1 polymer

描述 description	23S RIBOSOMAL RNA
分子量 formula_weight	194851.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	A
原子数 atom_count	10725

UUCCAGUGCGGAGUCUGGAGACACCCAGGGGGAAGCGAAGACCCUAUGGAGCUUUACUGCAGGCUGUCGCUGAGACGUGGUCGCCGAUGUGCAGCAUAGGUAGGAGACACUACACAGGUACCCGCGCUAGCGGGCCACCGAGUCAACAGUGAAAUACUACCCGUCGGUGACUGCGACUCUCACUCCGGGAGGAGGACACCGAUAGCCGGGCAGUUUGACUGGGGCGGUACGCGCUCGAAAAGAUAUCGAGCGCGCCCUAUGGCUAUCUCAGCCGGGACAGAGACCCGGCGAAGAGUGCAAGAGCAAAAGAUAGCUUGACAGUGUUCUUCCCAACGAGGAACGCUGACGCGAAAGCGUGGUCUAGCGAACCAAUUAGCCUGCUUGAUGCGGGCAAUUGAUGACAGAAAAGCUACCCUAGGGAUAACAGAGUCGUCACUCGCAAGAGCACAUAUCGACCGAGUGGCUUGCUACCUCGAUGUCGGUUCCCUCCAUCCUGCCCGUGCAGAAGCGGGCAAGGGUGAGGUUGUUCGCCUAUUAAAGGAGGUCGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUCGGCUGCUAUCUACUGGGUGUGUA

Entity 2 polymer

描述 description	R(PCPC)-D(PA)-R(P*(PU))
分子量 formula_weight	1412.1 kDa
来源方法 src_method	syn
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polydeoxyribonucleotide/polyribonucleotide hybrid
链编号 strand_id	B

CCAA

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7. 引用文献 (4)

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晶胞边长 a length_a	212.000 Å
晶胞边长 b length_b	300.000 Å
晶胞边长 c length_c	574.000 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	8

空间群 space_group	C 2 2 21
空间群编号 int_tables_number	20
晶系 crystal_system	—

分辨率 resolution	3.200 Å
最低分辨率 resolution_low	70.000 Å
R 因子 r_factor	—
R_work r_work	—
R_free r_free	—

fit	/app/data/saxs_computation/ff/1ffz/1ffz.fit
pddf	/app/data/pr_computation/ff/1ffz/1ffz.pr.out
profile	/app/data/saxs_computation/ff/1ffz/1ffz.dat

LARGE RIBOSOMAL SUBUNIT COMPLEXED WITH R(CC)-DA-PUROMYCIN

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

Entity 2 polymer

聚合体 Polymer

7. 引用文献 (4)

8. 文件与曲线 (10)

Files (7)

Curves (3)