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9sp7

Human galactosyltransferase B3GalT6

Method: X-RAY DIFFRACTION D_max: 65.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9sp7
deposition_date	2025-09-16
title	Human galactosyltransferase B3GalT6
keywords	enzyme, proteoglycan, glycoconjugate, glycosyltransferase, SUGAR BINDING PROTEIN; SUGAR BINDING PROTEIN
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	20.07 Å
rg_electron	18.69 Å
i0	18333400.00
molecular_weight	31585.0 kDa
excluded_volume	39241 Å³
envelope_volume	45966 Å³
shell_volume	20228 Å³
envelope_diameter	66.0 Å
shell_rg	25.48 Å
envelope_rg	19.18 Å
shape_rg	18.68 Å
total_rg	19.68 Å
total_atoms	2230
n_residues	277
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	65.2 Å
rg_real	19.96 Å
rg_real_error	0.33 Å
i0_real	1.8330e+07
i0_real_error	2.1570e+05
rg_reciprocal	19.98 Å
i0_reciprocal	18330000.0000
total_estimate	0.8844
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	26.1 Å
skewness	0.159
kurtosis	-0.375
angular_range	— – 0.3950 Å⁻¹
current_alpha	0.0000
highest_alpha	3415000.0000
n_real_points	71
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.848; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.957

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Beta-1,3-galactosyltransferase 6
formula_weight	33378.0 kDa
ec_number	2.4.1.134
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	3002

PGDPRAMSGRSPPPPAPARAAAFLAVLVASAPRAAERRSVIRSTWLARRGAPGDVWARFAVGTAGLGAEERRALEREQARHGDLLLLPALRDAYENLTAKVLAMLAWLDEHVAFEFVLKADDDSFARLDALLAELRAREPARRRRLYWGFFSGRGRVKPGGRWREAAWQLCDYYLPYALGGGYVLSADLVHYLRLSRDYLRAWHSEDVSLGAWLAPVDVQREHDPRFDTEYRSRGCSNQYLVTHKQSLEDMLEKHATLAREGRLCKREVQLRLSYVYDWSAPPSQCCQRREGIP

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	;Escherichia coli 'BL21-Gold(DE3)pLysS AG' ;

Entity 2 non-polymer

description	MANGANESE (II) ION
formula_weight	54.9 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	MALONATE ION
formula_weight	102.0 kDa
src_method	nat
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	373

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6. Citations (1)

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length_a	59.250 Å
length_b	77.460 Å
length_c	151.080 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	C 2 2 21
int_tables_number	20
crystal_system	—

resolution	1.200 Å
resolution_low	47.060 Å
r_factor	0.1683
r_work	0.1680
r_free	0.2024

fit	/app/data/saxs_computation/sp/9sp7/9sp7.fit
pddf	/app/data/pr_computation/sp/9sp7/9sp7.pr.out
profile	/app/data/saxs_computation/sp/9sp7/9sp7.dat

Human galactosyltransferase B3GalT6

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