9x6w
Crystal structure of NodD-EBD (Effector Binding Domain) from Rhizobium leguminosarum bv. vicae 3841
SAXS Profile
P(r) Distribution
1. Structure Basics
| entry_id | 9x6w |
| deposition_date | 2025-10-16 |
| title | Crystal structure of NodD-EBD (Effector Binding Domain) from Rhizobium leguminosarum bv. vicae 3841 |
| keywords | NodD, LysR transcription factors, Flavonoids, Rhizobia, TRANSCRIPTION; TRANSCRIPTION |
| method | X-RAY DIFFRACTION |
Download Data
2. SAXS Parameters (CRYSOL)
| rg_guinier | 39.21 Å |
| rg_electron | 37.98 Å |
| i0 | 468566000.00 |
| molecular_weight | 182280.0 kDa |
| excluded_volume | 230940 ų |
| envelope_volume | 326820 ų |
| shell_volume | 69176 ų |
| envelope_diameter | 116.4 Å |
| shell_rg | 46.65 Å |
| envelope_rg | 36.51 Å |
| shape_rg | 37.95 Å |
| total_rg | 38.65 Å |
| total_atoms | 12840 |
| n_residues | 1694 |
| n_harmonics | 20 |
| q_range | — – 0.5000 Å−1 |
| n_points | 101 |
| shell_type | directional |
| solvent_density | 0.3340 e/ų |
| contrast_shell | 0.0300 e/ų |
| crysol_version | 4.1.3 |
3. P(r) Analysis (GNOM)
| dmax | 114.8 Å |
| rg_real | 38.86 Å |
| rg_real_error | 0.57 Å |
| i0_real | 4.6860e+08 |
| i0_real_error | 7.7630e+06 |
| rg_reciprocal | 39.08 Å |
| i0_reciprocal | 468700000.0000 |
| total_estimate | 0.9009 |
| solution_quality | EXCELLENT a EXCELLENT solution |
| n_peaks | 1 |
| r_peak_primary | 51.7 Å |
| skewness | 0.018 |
| kurtosis | -0.627 |
| angular_range | — – 0.2000 Å−1 |
| current_alpha | 0.0000 |
| highest_alpha | 70640000.0000 |
| n_real_points | 41 |
| gnom_version | 4.1.3 |
| quality_criteria | AN1: 0.000; Oscil: 0.968; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.968; Smooth: 0.834 |