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1e7l

Endonuclease VII (EndoVII) N62D mutant from phage T4

Method: X-RAY DIFFRACTION D_max: 98.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1e7l
deposition_date	2000-08-29
title	Endonuclease VII (EndoVII) N62D mutant from phage T4
keywords	ENDONUCLEASE, RESOLVASE, HOLLIDAY JUNCTION, DNASE; ENDONUCLEASE
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	26.99 Å
rg_electron	27.12 Å
i0	28189200.00
molecular_weight	37771.0 kDa
excluded_volume	45975 Å³
envelope_volume	59359 Å³
shell_volume	20777 Å³
envelope_diameter	101.3 Å
shell_rg	30.43 Å
envelope_rg	27.32 Å
shape_rg	27.10 Å
total_rg	27.55 Å
total_atoms	2616
n_residues	314
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	98.2 Å
rg_real	27.32 Å
rg_real_error	1.02 Å
i0_real	2.8190e+07
i0_real_error	4.6090e+05
rg_reciprocal	27.22 Å
i0_reciprocal	28190000.0000
total_estimate	0.8009
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	23.3 Å
skewness	0.592
kurtosis	-0.073
angular_range	— – 0.2950 Å⁻¹
current_alpha	0.0000
highest_alpha	4263000.0000
n_real_points	60
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.678; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.429; Smooth: 0.945

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	RECOMBINATION ENDONUCLEASE VII
formula_weight	18174.8 kDa
ec_number	3.1.22.4
mutation	YES
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	3257

MLLTGKLYKEEKQKFYDAQNGKCLICQRELNPDVQANHLDHDHELNGPKAGKVRGLLCNLCDAAEGQMKHKFNRSGLKGQGVDYLEWLENLLTYLKSDYTQNNIHPNFVGDKSKEFSRLGKEEMMAEMLQRGFEYNESDTKTQLIASFKKQLRKSLK

Source

organism	BACTERIOPHAGE T4
ncbi_taxonomy_id	10665
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	14

Entity 3 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	428

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6. Citations (2)

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length_a	58.240 Å
length_b	35.830 Å
length_c	91.930 Å
angle_alpha	90.00 °
angle_beta	103.93 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	1.320 Å
resolution_low	35.000 Å
r_factor	0.1450
r_work	0.1460
r_free	0.1860

fit	/app/data/saxs_computation/e7/1e7l/1e7l.fit
pddf	/app/data/pr_computation/e7/1e7l/1e7l.pr.out
profile	/app/data/saxs_computation/e7/1e7l/1e7l.dat

Endonuclease VII (EndoVII) N62D mutant from phage T4

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