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9sd1

The R62Q clinical variant of human bisphosphoglycerate mutase (hBPGM).

Method: X-RAY DIFFRACTION D_max: 166.2 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9sd1
deposition_date	2025-08-12
last_revision	2026-03-18
title	The R62Q clinical variant of human bisphosphoglycerate mutase (hBPGM).
keywords	Human bisphosphoglycerate mutase (hBPGM)., ISOMERASE; ISOMERASE
method	X-RAY DIFFRACTION

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Download Data

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

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2. SAXS Parameters (CRYSOL)

rg_guinier	44.96 Å
rg_electron	45.86 Å
i0	193753000.00
molecular_weight	113600.0 kDa
excluded_volume	142080 Å³
envelope_volume	184330 Å³
shell_volume	37625 Å³
envelope_diameter	162.4 Å
shell_rg	42.80 Å
envelope_rg	45.74 Å
shape_rg	45.86 Å
total_rg	45.70 Å
total_atoms	8020
n_residues	979
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

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3. P(r) Analysis (GNOM)

dmax	166.2 Å
rg_real	45.83 Å
rg_real_error	2.15 Å
i0_real	1.9380e+08
i0_real_error	3.7960e+06
rg_reciprocal	44.97 Å
i0_reciprocal	193600000.0000
total_estimate	0.6520
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	28.5 Å
skewness	0.594
kurtosis	-0.566
angular_range	— – 0.1750 Å⁻¹
current_alpha	0.0000
highest_alpha	19190000.0000
n_real_points	36
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.200; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.065; Smooth: 0.805

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Bisphosphoglycerate mutase
formula_weight	31089.3 kDa
ec_number	5.4.2.4,5.4.2.11
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	8515

MSKYKLIMLRHGEGAWNKENRFCSWVDQKLNSEGMEEARNCGKQLKALNFEFDLVFTSVLNQSIHTAWLILEELGQEWVPVESSWRLNERHYGALIGLNREQMALNHGEEQVRLWRRSYNVTPPPIEESHPYYQEIYNDRRYKVCDVPLDQLPRSESLKDVLERLLPYWNERIAPEVLRGKTILISAHGNSSRALLKHLEGISDEDIINITLPTGVPILLELDENLRAVGPHQFLGDQEAIQAAIKKVEDQGKVKQAKKLEHHHHHH

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	DI(HYDROXYETHYL)ETHER
formula_weight	106.1 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	246

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6. Citations (1)

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length_a	37.550 Å
length_b	47.242 Å
length_c	143.043 Å
angle_alpha	86.86 °
angle_beta	84.12 °
angle_gamma	83.17 °
z_pdb	4

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.500 Å
resolution_low	71.080 Å
r_factor	0.2107
r_work	0.2079
r_free	0.2636

fit	/app/data/saxs_computation/sd/9sd1/9sd1.fit
pddf	/app/data/pr_computation/sd/9sd1/9sd1.pr.out
profile	/app/data/saxs_computation/sd/9sd1/9sd1.dat

The R62Q clinical variant of human bisphosphoglycerate mutase (hBPGM).

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