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9v4g

Prenyltransferase Ord1 wild type

Method: X-RAY DIFFRACTION D_max: 116.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9v4g
deposition_date	2025-05-23
title	Prenyltransferase Ord1 wild type
keywords	Transferase, Prenyltransferase; TRANSFERASE
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	35.26 Å
rg_electron	34.58 Å
i0	240339000.00
molecular_weight	121890.0 kDa
excluded_volume	151660 Å³
envelope_volume	202860 Å³
shell_volume	49107 Å³
envelope_diameter	121.2 Å
shell_rg	40.89 Å
envelope_rg	34.21 Å
shape_rg	34.59 Å
total_rg	35.00 Å
total_atoms	8541
n_residues	1138
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	116.9 Å
rg_real	35.23 Å
rg_real_error	0.90 Å
i0_real	2.4030e+08
i0_real_error	4.1190e+06
rg_reciprocal	35.25 Å
i0_reciprocal	240300000.0000
total_estimate	0.8793
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	44.2 Å
skewness	0.344
kurtosis	-0.249
angular_range	— – 0.2250 Å⁻¹
current_alpha	0.0000
highest_alpha	31820000.0000
n_real_points	46
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.856; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.858

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	prenyltransferase
formula_weight	36195.3 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,C,D,B
atom_count	8714

MTDIDVPQVADPEVAAMVRAEVEGRWPLGVSGLDEVVRYGLVPFGKMMGPWLLIRSALAVGGDIATALPAAVALECVQVGAMMHDDIIDCDAQRRSKPAAHTVFGEPTAIVGGDGLFFHGFAALSECREAGAPAERVAQAFTVLSRAGLRIGSAALREIRMSREICSVQDYLDMIADKSGALLWMACGVGGTLGGADEAALKALSQYSDQLGIAYQIRDDLMAYDGTRAGKPNISDVRNGRPTLPVLLAHERAPREQQLRIERLLADTAAPAAERYKAMADLVGAYDGAQAAREVSHRHVQLATRALQTLPPSPHRDALEDLTVPGRLVLEHHHHHH

Source

organism	Streptomyces sp. KS84
ncbi_taxonomy_id	746563
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	3

Entity 3 non-polymer

description	1,2-ETHANEDIOL
formula_weight	62.1 kDa
src_method	syn
entity_count	5

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	173

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6. Citations (1)

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length_a	59.000 Å
length_b	72.210 Å
length_c	84.190 Å
angle_alpha	86.04 °
angle_beta	69.50 °
angle_gamma	90.02 °
z_pdb	4

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.100 Å
resolution_low	44.400 Å
r_factor	0.2324
r_work	0.2287
r_free	0.2459

fit	/app/data/saxs_computation/v4/9v4g/9v4g.fit
pddf	/app/data/pr_computation/v4/9v4g/9v4g.pr.out
profile	/app/data/saxs_computation/v4/9v4g/9v4g.dat

Prenyltransferase Ord1 wild type

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