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9rcn

;Laccase (multicopper oxidase) from Pediococcus pentosaceus 4618 mutant E451L co-crystallized with Silver Nitrate (2 molecules in assymetric unit) ;

Method: X-RAY DIFFRACTION D_max: 105.1 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9rcn
deposition_date	2025-05-29
title	;Laccase (multicopper oxidase) from Pediococcus pentosaceus 4618 mutant E451L co-crystallized with Silver Nitrate (2 molecules in assymetric unit) ;
keywords	Laccase, oxidoreductase, multicopper oxidase; 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	31.22 Å
rg_electron	31.04 Å
i0	179810000.00
molecular_weight	105450.0 kDa
excluded_volume	130710 Å³
envelope_volume	156440 Å³
shell_volume	41725 Å³
envelope_diameter	112.0 Å
shell_rg	38.35 Å
envelope_rg	31.45 Å
shape_rg	31.10 Å
total_rg	31.43 Å
total_atoms	7408
n_residues	932
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	105.1 Å
rg_real	31.32 Å
rg_real_error	0.76 Å
i0_real	1.7980e+08
i0_real_error	2.8790e+06
rg_reciprocal	31.28 Å
i0_reciprocal	179800000.0000
total_estimate	0.6454
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	33.0 Å
skewness	0.463
kurtosis	-0.279
angular_range	— – 0.2550 Å⁻¹
current_alpha	0.0001
highest_alpha	61670000.0000
n_real_points	52
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.789; Stabil: 1.000; Sysdev: 0.040; Positv: 1.000; Valcen: 0.942; Smooth: 0.958

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Multicopper oxidase domain-containing protein
formula_weight	59837.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,C,G
atom_count	7457

MGSSHHHHHHSSGLVPRGSHMASMKNYTDYFFDEPAFDLHDGGYVPLEVSDAPEKPLNVPPLLKPDKETATDVYYTVTAEAGETQLLPGAKTKTWGYNTSLLGQTIVYRRGQHTHVTLKNTLPELTTFHWHGANVSGPYVDGGCHAPVYPGESKHIDFTLEQPATTLWLHAHPCPSTAEQVWHGLAAMVIVKDDHEASLPLPRNYGVDDIPVILQDRRFHENNQWDYRADYDPDGVAGPTAMINGTINPYFDVTTQKVRLRFLNGANRREWRLHFADDLPFTQIGGDGSLLPEPVKFTHLMLTCAERAEVIVDFGQYHEGDEVTLYTDDVPLLKFRIHAFKPDQTTLPDKLFDVKAPVVDPALPVRHVVMQGMDEGVAIDGKKFAMQRIDATQPIGKAQYWDVTNSNDAPGMVHPFHVHGTQFLVLSRNGHAPYPNEHGFKDTIGVNPGETVRLLVRFDLPGVYMYHCHIIEHLDGGMMAQIETFDPAKPKQEYKLMDMDTLMMALAKERGVKPSEIWMGGMQSYEKMGMKM

Source

organism	Pediococcus pentosaceus
ncbi_taxonomy_id	1255
host_organism	Escherichia coli K-12

Entity 2 non-polymer

description	COPPER (II) ION
formula_weight	63.5 kDa
src_method	syn
entity_count	8

Entity 3 non-polymer

description	SILVER ION
formula_weight	107.9 kDa
src_method	syn
entity_count	3

Entity 4 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	3

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	49

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6. Citations (2)

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length_a	119.807 Å
length_b	119.807 Å
length_c	174.255 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	18

space_group	P 32 2 1
int_tables_number	154
crystal_system	—

resolution	2.500 Å
resolution_low	103.760 Å
r_factor	0.1815
r_work	0.1794
r_free	0.2183

fit	/app/data/saxs_computation/rc/9rcn/9rcn.fit
pddf	/app/data/pr_computation/rc/9rcn/9rcn.pr.out
profile	/app/data/saxs_computation/rc/9rcn/9rcn.dat