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9yv5

Crystal structure of cytochrome P450 enzyme Bmp7

Method: X-RAY DIFFRACTION D_max: 71.2 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9yv5
deposition_date	2025-10-23
title	Crystal structure of cytochrome P450 enzyme Bmp7
keywords	cytochrome P450 enzyme, biaryl coupling, 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	23.74 Å
rg_electron	22.39 Å
i0	49088200.00
molecular_weight	54935.0 kDa
excluded_volume	68823 Å³
envelope_volume	78642 Å³
shell_volume	28477 Å³
envelope_diameter	74.4 Å
shell_rg	30.12 Å
envelope_rg	22.61 Å
shape_rg	22.38 Å
total_rg	23.26 Å
total_atoms	3877
n_residues	473
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	71.2 Å
rg_real	23.57 Å
rg_real_error	0.35 Å
i0_real	4.9090e+07
i0_real_error	6.2160e+05
rg_reciprocal	23.62 Å
i0_reciprocal	49090000.0000
total_estimate	0.9100
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	30.1 Å
skewness	0.111
kurtosis	-0.537
angular_range	— – 0.3350 Å⁻¹
current_alpha	0.0000
highest_alpha	9845000.0000
n_real_points	65
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.954; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.986; Smooth: 0.976

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Polybrominated aromatic compounds synthase
formula_weight	56486.4 kDa
ec_number	1.14.19.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4173

MRYYEEDANVTDSPNRNAAPKLIPTIKLGSQDNHDMMWNEDFHLTITNMAKKYGAIYALETGKTTLIALNDHNAVREALVNQSDVFNIRADLEILQVAPQKHFLELEAGELWSLHRKTFATAMRDYFRDRWDTMDQWLVTEIDDIEAAWKSQGDQAVFDPNRDISIKLASFLHRVMFDRRFGEFEESVFDEKSLSWLPAGFINSTRYELMPEHNKESYYAHYGDVIEKFASNLNGLDAYVSMNVLKEKECYNKGQYRHLTDFLLNACDDIPNDVKQQVGATEKEIIIGSLTQVAGAGGGVGAFALRWMLLYLASFPEKQKQVHAELDQVIGQNETPQQSHKGDLHYTQAFIAEVLRHCSITSMPASNYAASKDTFIDGYFVAKGTPLIVNNYGMTRDEALWENPDEFIPERFLEADGTFSKKQQAKSFPFGIGQRRCLGELFGKFLINTLFTHLAHRFEFSLPNNEPINLRAISGVFLVPEKVDIKAKSRSLSDS

Source

organism	Marinomonas mediterranea
ncbi_taxonomy_id	119864
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	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	5

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	296

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6. Citations (1)

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length_a	101.270 Å
length_b	101.270 Å
length_c	159.692 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 32 2 1
int_tables_number	154
crystal_system	—

resolution	2.280 Å
resolution_low	48.270 Å
r_factor	0.2018
r_work	0.1996
r_free	0.2485

fit	/app/data/saxs_computation/yv/9yv5/9yv5.fit
pddf	/app/data/pr_computation/yv/9yv5/9yv5.pr.out
profile	/app/data/saxs_computation/yv/9yv5/9yv5.dat

Crystal structure of cytochrome P450 enzyme Bmp7

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