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9u2t

PhiC31 integrase-attB-attP synaptic complex: attP-bound dimer subregion

Method: ELECTRON MICROSCOPY D_max: 165.9 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9u2t
deposition_date	2026-01-30
title	PhiC31 integrase-attB-attP synaptic complex: attP-bound dimer subregion
keywords	Serine integrase, Recombinase, Site-specific DNA recombination, Bacteriophage, RECOMBINATION; RECOMBINATION
method	ELECTRON MICROSCOPY

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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	48.80 Å
rg_electron	49.56 Å
i0	367672000.00
molecular_weight	133440.0 kDa
excluded_volume	156750 Å³
envelope_volume	239220 Å³
shell_volume	44245 Å³
envelope_diameter	174.2 Å
shell_rg	46.69 Å
envelope_rg	48.83 Å
shape_rg	49.53 Å
total_rg	49.51 Å
total_atoms	9248
n_residues	1008
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	165.9 Å
rg_real	49.84 Å
rg_real_error	2.06 Å
i0_real	3.6770e+08
i0_real_error	7.5720e+06
rg_reciprocal	48.81 Å
i0_reciprocal	367200000.0000
total_estimate	0.7115
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	36.3 Å
skewness	0.596
kurtosis	-0.446
angular_range	— – 0.1600 Å⁻¹
current_alpha	0.0000
highest_alpha	14100000.0000
n_real_points	33
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.577; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.460; Smooth: 0.056

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Integrase
formula_weight	69378.2 kDa
mutation	S12A
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	9248

MGSSHHHHHHSSGLVPRGSHMDTYAGAYDRQARERENSSAASPATQRSANEDKAADLQREVERDGGRFRFVGHFSEAPGTSAFGTAERPEFERILNECRAGRLNMIIVYDVSRFSRLKVMDAIPIVSELLALGVTIVSTQEGVFRQGNVMDLIHLIMRLDASHKESSLKSAKILDTKNLQRELGGYVGGKAPYGFELVSETKEITRNGRMVNVVINKLAHSTTPLTGPFEFEPDVIRWWWREIKTHKHLPFKPGSQAAIHPGSITGLCKRMDADAVPTRGETIGKKTASSAWDPATVMRILRDPRIAGFAAEVIYKKKPDGTPTTKIEGYRIQRDPITLRPVELDCGPIIEPAEWYELQAWLDGRGRGKGLSRGQAILSAMDKLYCECGAVMTSKRGEESIKDSYRCRRRKVVDPSAPGQHEGTCNVSMAALDKFVAERIFNKIRHAEGDEETLALLWEAARRFGKLTEAPEKSGERANLVAERADALNALEELYEDRAAGAYDGPVGRKHFRKQQAALTLRQQGAEERLAELEAAEAPKLPLDQWFPEDADADPTGPKSWWGRASVDDKRVFVGLFVDKIVVTKSTTGRGQGTPIEKRASITWAKPPTDDDEDDAQDGTEDVAA

Source

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

Entity 2 polymer

description	attP60_Fw
formula_weight	18667.9 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	E

CGGGAGTAGTGCCCCAACTGGGGTAACCTTTGAGTTCTCTCAGTTGGGGGCGTAGGGTCG

Entity 3 polymer

description	attP60_Rv
formula_weight	18321.7 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	F

CGACCCTACGCCCCCAACTGAGAGAACTCAAAGGTTACCCCAGTTGGGGCACTACTCCCG

Entity 4 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

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6. Citations (1)

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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	triclinic

resolution	3.26 Å
resolution_method	—
num_particles	253292

fit	/app/data/saxs_computation/u2/9u2t/9u2t.fit
pddf	/app/data/pr_computation/u2/9u2t/9u2t.pr.out
profile	/app/data/saxs_computation/u2/9u2t/9u2t.dat

PhiC31 integrase-attB-attP synaptic complex: attP-bound dimer 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)