9gts

Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, the cap portion in extended state.

Method: ELECTRON MICROSCOPY D_max: 179.1 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

▼

1. 结构基本信息 1. Structure Basics

条目编号 entry_id	9gts
沉积日期 deposition_date	2024-09-18
结构标题 title	Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, the cap portion in extended state.
关键词 keywords	Contractile injection system, STRUCTURAL PROTEIN; STRUCTURAL PROTEIN
实验方法 method	ELECTRON MICROSCOPY

▼

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

回转半径 Rg (Guinier) rg_guinier	58.51 Å
回转半径 Rg (电子) rg_electron	58.13 Å
零角强度 I(0) i0	3106440000.00
分子量 molecular_weight	467520.0 kDa
排除体积 excluded_volume	584440 Å³
包络体积 envelope_volume	932770 Å³
水化壳体积 shell_volume	129830 Å³
包络直径 envelope_diameter	181.4 Å
壳层 Rg shell_rg	65.55 Å
包络 Rg envelope_rg	55.76 Å
形状 Rg shape_rg	58.17 Å
总 Rg total_rg	58.16 Å
总原子数 total_atoms	33000
残基数 n_residues	4260
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

▼

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

最大尺寸 Dmax dmax	179.1 Å
Rg (实空间) rg_real	58.15 Å
Rg 误差 (实空间) rg_real_error	1.23 Å
I(0) (实空间) i0_real	3.1060e+09
I(0) 误差 (实空间) i0_real_error	5.8000e+07
Rg (倒空间) rg_reciprocal	58.78 Å
I(0) (倒空间) i0_reciprocal	3109000000.0000
解质量估计 total_estimate	0.8299
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	73.0 Å
偏度 Skewness skewness	0.021
峰度 Kurtosis kurtosis	-0.668
角度范围 angular_range	— – 0.1350 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	111300000.0000
实空间数据点数 n_real_points	28
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.940; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.966; Smooth: 0.000

▶

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

▶

5. 实体与聚合体信息 (3)

Entity 1 polymer

描述 description	Phage tail protein
分子量 formula_weight	16493.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	6

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	1a,1f,1e,1d,1c,1b
原子数 atom_count	33000

MSLPKPEDVLVAPNFGIQIDGVMVEYLNSVSNLQIEQDVIRYQQNQGTTGRNNVTLMPGVAKDGSVQVERGMSQSSVFTQWINDSMAGRMATARKNATIIVMDYEDNPVKRWNLRNAWCSKVVAGTLKAGDTNALTETITIVFEELVVE

Entity 2 polymer

描述 description	Phage tail sheath family protein
分子量 formula_weight	57465.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	6

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	2A,2F,2E,2D,2C,2B

MPSYLSPGVYVEEVASGSRPIEGVGIEGVGTSVAAFVGLAPTGPLNEPTLVTNWTQYVAAFGDFTGGYYLAHSVYGFFNNGGSAAYVVRVGGSAEDAAADGSVNGAAAPAAVTGSTAKALPAAEPKQLGTFAVTATAAGQSGPLTVEVADPEGEGPAERFKLIVKDGDKPVETFDVSAKKGNRSYVVTQVKERSKLITVTEAAPSAQLVRPENQSLTLPAPPSAAPAVPAGQAESAHPGPAQYLGDSSDRTGFGGLEAIDEISMVAVPDLMAAYQRGAIDLEAVKAVQLGLIAHCELMGDRVAIIDPPPNQNARQIRVWRQETAGYDSKYAALYYPWIKSFDPATGQSRLVPPSGHVAGIWARNDSERGVHKAPANEVVRGAVDLELQITRGEQDLLNPIGVNCIRSFPGRGIRVWGARTLSSDPAWRYLNIRRYFNYLEESILIGTQWVVFEPNDHNLWARIRRNVSAFLVNEWRNGALFGQSPDQAYYVKCDEETNPPESVDLGRVVCEIGIAPVKPAEFVIFRLAQFSSGGGELDE

Entity 3 polymer

描述 description	Pvc16 N-terminal domain-containing protein
分子量 formula_weight	24713.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	6

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	0A,0F,0E,0D,0C,0B

MIHEVDEVLKALLKGGALTDSGIDVAFEAPTRDWAARRNAPVVNAYLYDIREDVGRRHRGQVAVRDQDDIVVKRRQPPRWFRLSYLVTAWTKTPQDEHRLLSAVLATLLPREQLPPYELPGALGAMNLPVPMTVAGVQTESRSLAEIWSALGGELKPSLDLVVTAPFPAYPEYDAGPPVTEGATVRIGGVEGDPPMSEGRSHRPHQVAAARAARKAVTDGRTKRQ

▶

7. 引用文献 (1)

▶

分辨率 resolution	3.40 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	19218

fit	/app/data/saxs_computation/gt/9gts/9gts.fit
pddf	/app/data/pr_computation/gt/9gts/9gts.pr.out
profile	/app/data/saxs_computation/gt/9gts/9gts.dat

Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, the cap portion in extended state.

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

冷冻电镜 EM 3D

5. 实体与聚合体信息 (3)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

Entity 3 polymer

聚合体 Polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)