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1dj5

CRYSTAL STRUCTURE OF R48A MUTANT OF CYTOCHROME C PEROXIDASE WITH N-HYDROXYGUANIDINE BOUND

Method: X-RAY DIFFRACTION D_max: 62.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dj5
deposition_date	1999-12-01
title	CRYSTAL STRUCTURE OF R48A MUTANT OF CYTOCHROME C PEROXIDASE WITH N-HYDROXYGUANIDINE BOUND
keywords	HEME ENZYME, CAVITY MUTANT, OXIDOREDUCTASE; OXIDOREDUCTASE
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	19.48 Å
rg_electron	18.40 Å
i0	19537200.00
molecular_weight	33677.0 kDa
excluded_volume	42007 Å³
envelope_volume	46637 Å³
shell_volume	20712 Å³
envelope_diameter	66.4 Å
shell_rg	25.15 Å
envelope_rg	18.71 Å
shape_rg	18.37 Å
total_rg	19.38 Å
total_atoms	2385
n_residues	291
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	62.1 Å
rg_real	19.34 Å
rg_real_error	0.38 Å
i0_real	1.9540e+07
i0_real_error	2.4280e+05
rg_reciprocal	19.36 Å
i0_reciprocal	19540000.0000
total_estimate	0.8089
solution_quality	GOOD a GOOD solution
n_peaks	3
r_peak_primary	25.4 Å
skewness	0.143
kurtosis	-0.376
angular_range	— – 0.4100 Å⁻¹
current_alpha	0.0000
highest_alpha	6221000.0000
n_real_points	72
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.839; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	CYTOCHROME C PEROXIDASE
formula_weight	33139.8 kDa
ec_number	1.11.1.5
mutation	R48A
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2775

LVHVASVEKGRSYEDFQKVYNAIALKLREDDEYDNYIGYGPVLVALAWHISGTWDKHDNTGGSYGGTYRFKKEFNDPSNAGLQNGFKFLEPIHKEFPWISSGDLFSLGGVTAVQEMQGPKIPWRCGRVDTPEDTTPDNGRLPDADKDAGYVRTFFQRLNMNDREVVALMGAHALGKTHLKNSGYEGPWGAANNVFTNEFYLNLLNEDWKLEKNDANNEQWDSKSGYMMLPTDYSLIQDPKYLSIVKEYANDQDKFFKDFSKAFEKLLENGITFPKDAPSPFIFKTLEEQGL

Source

organism	Saccharomyces cerevisiae
common_name	;baker's yeast ;
ncbi_taxonomy_id	4932
host_organism	Escherichia coli

Entity 2 non-polymer

description	PROTOPORPHYRIN IX CONTAINING FE
formula_weight	616.5 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	N-HYDROXYGUANIDINE
formula_weight	75.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	390

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6. Citations (1)

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length_a	105.480 Å
length_b	74.320 Å
length_c	44.310 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	1.930 Å
resolution_low	10.000 Å
r_factor	—
r_work	—
r_free	—

fit	/app/data/saxs_computation/dj/1dj5/1dj5.fit
pddf	/app/data/pr_computation/dj/1dj5/1dj5.pr.out
profile	/app/data/saxs_computation/dj/1dj5/1dj5.dat

CRYSTAL STRUCTURE OF R48A MUTANT OF CYTOCHROME C PEROXIDASE WITH N-HYDROXYGUANIDINE BOUND

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