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1c7y

E.COLI RUVA-HOLLIDAY JUNCTION COMPLEX

Method: X-RAY DIFFRACTION D_max: 78.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1c7y
deposition_date	2000-04-03
title	E.COLI RUVA-HOLLIDAY JUNCTION COMPLEX
keywords	helix-hairpin-helix, protein-DNA complex, homologous recombination, Holliday junction, RECOMBINATION-DNA COMPLEX; RECOMBINATION/DNA
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	23.24 Å
rg_electron	22.00 Å
i0	20135700.00
molecular_weight	29537.0 kDa
excluded_volume	35118 Å³
envelope_volume	45558 Å³
shell_volume	18732 Å³
envelope_diameter	78.4 Å
shell_rg	27.13 Å
envelope_rg	22.07 Å
shape_rg	21.95 Å
total_rg	22.80 Å
total_atoms	2045
n_residues	224
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	78.8 Å
rg_real	23.29 Å
rg_real_error	0.88 Å
i0_real	2.0140e+07
i0_real_error	2.7870e+05
rg_reciprocal	23.28 Å
i0_reciprocal	20140000.0000
total_estimate	0.8818
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	30.3 Å
skewness	0.349
kurtosis	-0.347
angular_range	— – 0.3400 Å⁻¹
current_alpha	0.0000
highest_alpha	1930000.0000
n_real_points	66
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.870; Stabil: 0.997; Sysdev: 1.000; Positv: 1.000; Valcen: 0.893; Smooth: 0.964

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4. Crystallography & Experiment

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5. Entities & Polymer Info (9)

Entity 1 polymer

description	;DNA (5'-D(PDAPDAPDGPDTPDTPDGPDGPDGPDAPDTPDTPDGP*DT)-3') ;
formula_weight	4061.7 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	B
atom_count	3565

AAGTTGGGATTGT

Entity 2 polymer

description	;DNA (5'-D(PDCPDTPDGPDTPDGPDTPDGPDTPDAPDAPDGPDC)-3') ;
formula_weight	3693.4 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	C

CTGTGTGTAAGC

Entity 3 polymer

description	;DNA (5'-D(PDGPDCPDTPDTPDAPDCPDAPDCPDAPDCPDAPDGP*DA)-3') ;
formula_weight	3944.6 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	D

GCTTACACACAGA

Entity 4 polymer

description	;DNA (5'-D(PDGPDGPDTPDTPDAPDGPDGPDGPDTPDGPDAPDA)-3') ;
formula_weight	3782.5 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	E

GGTTAGGGTGAA

Entity 5 polymer

description	;DNA (5'-D(PDTPDTPDCPDAPDCPDCPDCPDTPDAPDAPDCPDCP*DA)-3') ;
formula_weight	3855.5 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	F

TTCACCCTAACCA

Entity 6 polymer

description	;DNA (5'-D(PDGPDAPDCPDAPDCPDAPDCPDAPDTPDTPDCPDG)-3') ;
formula_weight	3631.4 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	G

GACACACATTCG

Entity 7 polymer

description	;DNA (5'-D(PDCPDGPDAPDAPDTPDGPDTPDGPDTPDGPDTPDCP*DT)-3') ;
formula_weight	3997.6 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	H

CGAATGTGTGTCT

Entity 8 polymer

description	;DNA (5'-D(PDCPDAPDAPDTPDCPDCPDCPDAPDAPDCPDTPDT)-3') ;
formula_weight	3566.4 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	I

CAATCCCAACTT

Entity 9 polymer

description	HOLLIDAY JUNCTION DNA HELICASE RUVA
formula_weight	22111.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

MIGRLRGIIIEKQPPLVLIEVGGVGYEVHMPMTCFYELPEAGQEAIVFTHFVVREDAQLLYGFNNKQERTLFKELIKTNGVGPKLALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMKDRFKGLHGDLFTPAADLVLTSPASPATDDAEQEAVAALVALGYKPQEASRMVSKIARPDASSETLIREALRAAL

Source

organism	Escherichia coli
ncbi_taxonomy_id	562
host_organism	Escherichia coli

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6. Citations (1)

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length_a	158.650 Å
length_b	158.650 Å
length_c	158.650 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	48

space_group	I 4 3 2
int_tables_number	211
crystal_system	—

resolution	3.100 Å
resolution_low	45.800 Å
r_factor	0.2500
r_work	0.2490
r_free	0.2790

fit	/app/data/saxs_computation/c7/1c7y/1c7y.fit
pddf	/app/data/pr_computation/c7/1c7y/1c7y.pr.out
profile	/app/data/saxs_computation/c7/1c7y/1c7y.dat

E.COLI RUVA-HOLLIDAY JUNCTION COMPLEX

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

5. Entities & Polymer Info (9)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 polymer

Polymer

Entity 5 polymer

Polymer

Entity 6 polymer

Polymer

Entity 7 polymer

Polymer

Entity 8 polymer

Polymer

Entity 9 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)