← Back to search

9r70

Pyrin B30.2 domain, FMF mutation M680L

Method: X-RAY DIFFRACTION D_max: 57.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9r70
deposition_date	2025-05-13
last_revision	2025-06-18
title	Pyrin B30.2 domain, FMF mutation M680L
keywords	Familial Mediterranean fever, MEFV, SIGNALING PROTEIN; SIGNALING PROTEIN
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	17.23 Å
rg_electron	15.82 Å
i0	8445000.00
molecular_weight	21668.0 kDa
excluded_volume	27285 Å³
envelope_volume	30295 Å³
shell_volume	15867 Å³
envelope_diameter	57.0 Å
shell_rg	22.08 Å
envelope_rg	16.19 Å
shape_rg	15.80 Å
total_rg	16.97 Å
total_atoms	1525
n_residues	195
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

▼

3. P(r) Analysis (GNOM)

dmax	57.9 Å
rg_real	17.10 Å
rg_real_error	0.38 Å
i0_real	8.4450e+06
i0_real_error	9.7450e+04
rg_reciprocal	17.12 Å
i0_reciprocal	8445000.0000
total_estimate	0.7870
solution_quality	GOOD a GOOD solution
n_peaks	3
r_peak_primary	23.6 Å
skewness	0.112
kurtosis	-0.344
angular_range	— – 0.4600 Å⁻¹
current_alpha	0.0000
highest_alpha	2589000.0000
n_real_points	77
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.743; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.000

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	Pyrin
formula_weight	21584.7 kDa
mutation	M680L
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	1798

MEMFNVPELIGAQAHAVNVILDAETAYPNLIFSDDLKSVRLGNKWERLPDGPQRFDSCIIVLGSPSFLSGRRYWEVEVGDKTAWILGACKTSISRKGNLTLSPENGYWVVIMMKENEYQASSVPPTRLLIKEPPKRVGIFVDYRVGSISFYNVTARSHIYTFASCSFSGPLQPIFSPGTRDGGKNTAPLTICPVG

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 non-polymer

description	THIOCYANATE ION
formula_weight	58.1 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	1,2-ETHANEDIOL
formula_weight	62.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	212

▶

6. Citations (1)

▶

length_a	42.364 Å
length_b	60.231 Å
length_c	84.051 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	1.500 Å
resolution_low	48.960 Å
r_factor	0.1794
r_work	0.1777
r_free	0.2120

fit	/app/data/saxs_computation/r7/9r70/9r70.fit
pddf	/app/data/pr_computation/r7/9r70/9r70.pr.out
profile	/app/data/saxs_computation/r7/9r70/9r70.dat

Pyrin B30.2 domain, FMF mutation M680L

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction