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1dct

DNA (CYTOSINE-5) METHYLASE FROM HAEIII COVALENTLY BOUND TO DNA

Method: X-RAY DIFFRACTION D_max: 100.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dct
deposition_date	1995-05-17
title	DNA (CYTOSINE-5) METHYLASE FROM HAEIII COVALENTLY BOUND TO DNA
keywords	ENZYME, CYTOSINE METHYLASE, TRANSFERASE-DNA COMPLEX; TRANSFERASE/DNA
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	31.12 Å
rg_electron	31.04 Å
i0	181716000.00
molecular_weight	95408.0 kDa
excluded_volume	114040 Å³
envelope_volume	143060 Å³
shell_volume	38732 Å³
envelope_diameter	105.7 Å
shell_rg	37.79 Å
envelope_rg	30.76 Å
shape_rg	31.03 Å
total_rg	31.55 Å
total_atoms	6908
n_residues	713
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	100.4 Å
rg_real	31.15 Å
rg_real_error	0.81 Å
i0_real	1.8170e+08
i0_real_error	2.7580e+06
rg_reciprocal	31.14 Å
i0_reciprocal	181700000.0000
total_estimate	0.8933
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	33.5 Å
skewness	0.347
kurtosis	-0.504
angular_range	— – 0.2550 Å⁻¹
current_alpha	0.0000
highest_alpha	24390000.0000
n_real_points	52
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.902; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.972; Smooth: 0.931

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	;DNA (5'-D(APCPCPAPGPCPAPGPGP(C49)PCPAPCPCPAPGPTPG)-3') ;
formula_weight	5559.7 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	F,G
atom_count	6908

ACCAGCAGGCCACCAGTG

Entity 2 polymer

description	;DNA (5'-D(TPCPAPCPTPGPGPTPGPGP(C5M)PCPTPGPCPTPGPG)-3') ;
formula_weight	5553.6 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	M,N

TCACTGGTGGCCTGCTGG

Entity 3 polymer

description	PROTEIN (MODIFICATION METHYLASE HAEIII)
formula_weight	37093.6 kDa
ec_number	2.1.1.73
src_method	nat
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B

MNLISLFSGAGGLDLGFQKAGFRIICANEYDKSIWKTYESNHSAKLIKGDISKISSDEFPKCDGIIGGPPCQSWSEGGSLRGIDDPRGKLFYEYIRILKQKKPIFFLAENVKGMMAQRHNKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKRVFYIGFRKELNINYLPPIPHLIKPTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEYFIGSYSTIFMSRNRVRQWNEPAFTVQASGRQCQLHPQAPVMLKVSKNLNKFVEGKEHLYRRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSAL

Entity 4 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	2

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6. Citations (2)

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length_a	57.570 Å
length_b	108.040 Å
length_c	155.790 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.800 Å
resolution_low	10.000 Å
r_factor	0.2260
r_work	0.2260
r_free	0.3260

fit	/app/data/saxs_computation/dc/1dct/1dct.fit
pddf	/app/data/pr_computation/dc/1dct/1dct.pr.out
profile	/app/data/saxs_computation/dc/1dct/1dct.dat

DNA (CYTOSINE-5) METHYLASE FROM HAEIII COVALENTLY BOUND TO DNA

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 (4)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 non-polymer

6. Citations (2)

7. Files & Curves (10)

Files (7)

Curves (3)