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9ypz

Vacant ribosome with P-site tRNA, substate 1, Structure Ia

Method: ELECTRON MICROSCOPY Dmax: 239.3 Å Quality: EXCELLENT

SAXS Profile

SAXS profile for 9ypz

P(r) Distribution

P(r) distribution for 9ypz

1. Structure Basics

entry_id9ypz
deposition_date2025-10-14
titleVacant ribosome with P-site tRNA, substate 1, Structure Ia
keywordsGTPBP1, tRNA, GCP, complex, RIBOSOME; RIBOSOME
methodELECTRON MICROSCOPY

Download Data

2. SAXS Parameters (CRYSOL)

rg_guinier93.74
rg_electron95.01
i0286455000000.00
molecular_weight3158700.0 kDa
excluded_volume3371100 ų
envelope_volume5692300 ų
shell_volume452130 ų
envelope_diameter309.3
shell_rg111.80
envelope_rg94.18
shape_rg95.08
total_rg94.91
total_atoms213916
n_residues17048
n_harmonics20
q_range— – 0.5000 −1
n_points101
shell_typedirectional
solvent_density0.3340 e/ų
contrast_shell0.0300 e/ų
crysol_version4.1.3

3. P(r) Analysis (GNOM)

dmax239.3
rg_real91.08
rg_real_error0.37
i0_real2.7450e+11
i0_real_error4.1840e+09
rg_reciprocal95.43
i0_reciprocal288000000000.0000
total_estimate0.9132
solution_quality EXCELLENT a EXCELLENT solution
n_peaks1
r_peak_primary112.6
skewness0.114
kurtosis-0.607
angular_range— – 0.0850 −1
current_alpha0.7203
highest_alpha19430000000.0000
n_real_points18
gnom_version4.1.3
quality_criteria AN1: 0.000; Oscil: 0.997; Stabil: 0.970; Sysdev: 1.000; Positv: 1.000; Valcen: 0.975; Smooth: 0.000

4. Crystallography & Experiment

5. Entities & Polymer Info (85)

6. Citations (1)

7. Files & Curves (10)