Cryo-EM structure of the catalytically inactive DRT4

Method: ELECTRON MICROSCOPY D_max: 137.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vdv
deposition_date	2025-06-09
title	Cryo-EM structure of the catalytically inactive DRT4
keywords	UG15, DRT4, Reverse transcriptases, UG/Abi system, DNA BINDING PROTEIN/DNA, DNA BINDING PROTEIN-DNA complex; DNA BINDING PROTEIN/DNA
method	ELECTRON MICROSCOPY

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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	45.69 Å
rg_electron	44.89 Å
i0	1672890000.00
molecular_weight	344150.0 kDa
excluded_volume	431770 Å³
envelope_volume	560540 Å³
shell_volume	100120 Å³
envelope_diameter	135.4 Å
shell_rg	52.86 Å
envelope_rg	43.51 Å
shape_rg	44.92 Å
total_rg	45.11 Å
total_atoms	24258
n_residues	2964
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	137.1 Å
rg_real	45.34 Å
rg_real_error	0.79 Å
i0_real	1.6730e+09
i0_real_error	2.6920e+07
rg_reciprocal	45.69 Å
i0_reciprocal	1674000000.0000
total_estimate	0.8978
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	58.7 Å
skewness	0.026
kurtosis	-0.626
angular_range	— – 0.1750 Å⁻¹
current_alpha	0.0000
highest_alpha	181300000.0000
n_real_points	36
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.950; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.966; Smooth: 0.853

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.700 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.70 Å
resolution_method	—
num_particles	126192

description	Reverse transcriptase domain-containing protein
formula_weight	63823.0 kDa
src_method	man
entity_count	6

Cryo-EM structure of the catalytically inactive DRT4

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

EM 3D

5. Entities & Polymer Info (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Escherichia coli
ncbi_taxonomy_id	562
host_organism	Escherichia coli

fit	/app/data/saxs_computation/vd/9vdv/9vdv.fit
pddf	/app/data/pr_computation/vd/9vdv/9vdv.pr.out
profile	/app/data/saxs_computation/vd/9vdv/9vdv.dat

type	polypeptide(L)
strand_id	A,B,C,D,E,F
atom_count	24258