← Back to search

9rad

PhiC31 integrase-attL complex: B-bound subregion

Method: ELECTRON MICROSCOPY D_max: 112.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9rad
deposition_date	2025-05-20
title	PhiC31 integrase-attL complex: B-bound subregion
keywords	Serine integrase, Recombinase, Site-specific DNA recombination, Bacteriophage, DNA BINDING PROTEIN; DNA BINDING PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	32.77 Å
rg_electron	32.46 Å
i0	117254000.00
molecular_weight	72443.0 kDa
excluded_volume	84983 Å³
envelope_volume	127460 Å³
shell_volume	34281 Å³
envelope_diameter	118.7 Å
shell_rg	37.53 Å
envelope_rg	32.06 Å
shape_rg	32.47 Å
total_rg	32.83 Å
total_atoms	5025
n_residues	552
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

▼

3. P(r) Analysis (GNOM)

dmax	112.3 Å
rg_real	32.88 Å
rg_real_error	0.99 Å
i0_real	1.1730e+08
i0_real_error	1.9500e+06
rg_reciprocal	32.84 Å
i0_reciprocal	117200000.0000
total_estimate	0.8765
solution_quality	GOOD a GOOD solution
n_peaks	0
r_peak_primary	— Å
skewness	0.361
kurtosis	-0.307
angular_range	— – 0.2400 Å⁻¹
current_alpha	0.0000
highest_alpha	8242000.0000
n_real_points	49
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.872; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.896; Smooth: 0.878

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	PhiC31 integrase
formula_weight	69394.2 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	5025

MGSSHHHHHHSSGLVPRGSHMDTYAGAYDRQSRERENSSAASPATQRSANEDKAADLQREVERDGGRFRFVGHFSEAPGTSAFGTAERPEFERILNECRAGRLNMIIVYDVSRFSRLKVMDAIPIVSELLALGVTIVSTQEGVFRQGNVMDLIHLIMRLDASHKESSLKSAKILDTKNLQRELGGYVGGKAPYGFELVSETKEITRNGRMVNVVINKLAHSTTPLTGPFEFEPDVIRWWWREIKTHKHLPFKPGSQAAIHPGSITGLCKRMDADAVPTRGETIGKKTASSAWDPATVMRILRDPRIAGFAAEVIYKKKPDGTPTTKIEGYRIQRDPITLRPVELDCGPIIEPAEWYELQAWLDGRGRGKGLSRGQAILSAMDKLYCECGAVMTSKRGEESIKDSYRCRRRKVVDPSAPGQHEGTCNVSMAALDKFVAERIFNKIRHAEGDEETLALLWEAARRFGKLTEAPEKSGERANLVAERADALNALEELYEDRAAGAYDGPVGRKHFRKQQAALTLRQQGAEERLAELEAAEAPKLPLDQWFPEDADADPTGPKSWWGRASVDDKRVFVGLFVDKIVVTKSTTGRGQGTPIEKRASITWAKPPTDDDEDDAQDGTEDVAA

Source

organism	Lomovskayavirus C31
ncbi_taxonomy_id	10719
host_organism	Escherichia coli BL21(DE3)

Entity 2 polymer

description	attL_Fw
formula_weight	18701.9 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	E

AGCCGCGGTGCGGGTGCCAGGGCGTGCCCTTGAGTTCTCTCAGTTGGGGGCGTAGGGTCG

Entity 3 polymer

description	attL_Rv
formula_weight	18293.7 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	F

CGACCCTACGCCCCCAACTGAGAGAACTCAAGGGCACGCCCTGGCACCCGCACCGCGGCT

Entity 4 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	1

▶

6. Citations (1)

▶

length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	3.36 Å
resolution_method	—
num_particles	112514

fit	/app/data/saxs_computation/ra/9rad/9rad.fit
pddf	/app/data/pr_computation/ra/9rad/9rad.pr.out
profile	/app/data/saxs_computation/ra/9rad/9rad.dat

PhiC31 integrase-attL complex: B-bound subregion

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

EM 3D

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)