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9y66

attLsym bound serine integrase complex in the dimeric state

Method: ELECTRON MICROSCOPY D_max: 172.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9y66
deposition_date	2025-09-08
title	attLsym bound serine integrase complex in the dimeric state
keywords	;Site-specific DNA Recombinase, Large serine integrase, DNA binding domains, Recombinase, Resolvase, Zinc ribbon recombinase, 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	46.57 Å
rg_electron	45.39 Å
i0	524683000.00
molecular_weight	162840.0 kDa
excluded_volume	193430 Å³
envelope_volume	296040 Å³
shell_volume	58126 Å³
envelope_diameter	179.7 Å
shell_rg	46.17 Å
envelope_rg	45.36 Å
shape_rg	45.29 Å
total_rg	45.68 Å
total_atoms	21561
n_residues	1196
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	172.2 Å
rg_real	47.05 Å
rg_real_error	2.52 Å
i0_real	5.2470e+08
i0_real_error	1.0940e+07
rg_reciprocal	46.57 Å
i0_reciprocal	524400000.0000
total_estimate	0.8355
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	50.6 Å
skewness	0.577
kurtosis	0.061
angular_range	— – 0.1700 Å⁻¹
current_alpha	0.0000
highest_alpha	26320000.0000
n_real_points	35
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.723; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.897; Smooth: 0.791

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Site-specific recombinase
formula_weight	63232.1 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,C
atom_count	21561

MELKNIVNSYNITNILGYLRRSRQDMEREKRTGEDTLTEQKELMNKILTAIEIPYELKMEIGSGESIDGRPVFKECLKDLEEGKYQAIAVKEITRLSRGSYSDAGQIVNLLQSKRLIIITPYKVYDPRNPVDMRQIRFELFMAREEFEMTRERMTGAKYTYAAQGKWISGLAPYGYQLNKKTSKLDPVEDEAKVVQLIFNIFLNGLNGKDYSYTAIASHLTNLQIPTPSGKKRWNQYTIKAILQNEVYIGTVKYKVREKTKDGKRTIRPEKEQIVVQDAHAPIIDKEQFQQSQVKIANKVPLLPNKDEFELSELAGVCTCSKCGEPLSKYESKRIRKNKDGTESVYHVKSLTCKKNKCTYVRYNDVENAILDYLSSLNDLNDSTLTKHINSMLSKYEDDNSNMKTKKQMSEHLSQKEKELKNKENFIFDKYESGIYSDELFLKRKAALDEEFKELQNAKNELNGLQDTQSEIDSNTVRNNINKIIDQYHIESSSEKKNELLRMVLKDVIVNMTQKRKGPIPAQFEITPILRFNFIFDLTATNSFH

Source

organism	Spbetavirus SPbeta
ncbi_taxonomy_id	66797
host_organism	;Escherichia coli 'BL21-Gold(DE3)pLysS AG' ;

Entity 2 polymer

description	attLsym
formula_weight	19436.6 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	E

GCAGCATGTCATTAATATCAGTACAGATATAGCTGTATATTAAGATACTTACTACAAAAAAAA

Entity 3 polymer

description	attLsym
formula_weight	19386.5 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	F

TTTTTTTTGTAGTAAGTATCTTAATATACAGCTATATCTGTACTGATATTAATGACATGCTGC

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	—

resolution	3.31 Å
resolution_method	—
num_particles	263209

fit	/app/data/saxs_computation/y6/9y66/9y66.fit
pddf	/app/data/pr_computation/y6/9y66/9y66.pr.out
profile	/app/data/saxs_computation/y6/9y66/9y66.dat

attLsym bound serine integrase complex in the dimeric state

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)