Crystal structure of TBC domain of murine TBC1D17

Method: X-RAY DIFFRACTION D_max: 111.5 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9si6
deposition_date	2025-08-28
last_revision	2026-05-06
title	Crystal structure of TBC domain of murine TBC1D17
keywords	GTP-ase activating protein, Rab-GAP, HYDROLASE ACTIVATOR; HYDROLASE ACTIVATOR
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	34.40 Å
rg_electron	34.12 Å
i0	85876300.00
molecular_weight	75219.0 kDa
excluded_volume	94581 Å³
envelope_volume	122030 Å³
shell_volume	31253 Å³
envelope_diameter	111.9 Å
shell_rg	38.89 Å
envelope_rg	33.80 Å
shape_rg	34.09 Å
total_rg	34.57 Å
total_atoms	5301
n_residues	647
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	111.5 Å
rg_real	34.59 Å
rg_real_error	0.77 Å
i0_real	8.5880e+07
i0_real_error	1.3430e+06
rg_reciprocal	34.48 Å
i0_reciprocal	85870000.0000
total_estimate	0.8542
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	29.1 Å
skewness	0.372
kurtosis	-0.783
angular_range	— – 0.2300 Å⁻¹
current_alpha	0.0001
highest_alpha	14150000.0000
n_real_points	47
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.784; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.815; Smooth: 0.935

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

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6. Citations (1)

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length_a	94.241 Å
length_b	160.895 Å
length_c	41.897 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 2
int_tables_number	18
crystal_system	—

resolution	2.200 Å
resolution_low	46.660 Å
r_factor	0.1830
r_work	0.1792
r_free	0.2528

description	TBC1 domain family member 17
formula_weight	38855.5 kDa
src_method	man
entity_count	2

type	polypeptide(L)
strand_id	A,B
atom_count	5598

Crystal structure of TBC domain of murine TBC1D17

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

5. Entities & Polymer Info (2)

Entity 1 polymer

Polymer

Source

Entity 2 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Escherichia coli BL21(DE3)

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	271

fit	/app/data/saxs_computation/si/9si6/9si6.fit
pddf	/app/data/pr_computation/si/9si6/9si6.pr.out
profile	/app/data/saxs_computation/si/9si6/9si6.dat