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1bix

;THE CRYSTAL STRUCTURE OF THE HUMAN DNA REPAIR ENDONUCLEASE HAP1 SUGGESTS THE RECOGNITION OF EXTRA-HELICAL DEOXYRIBOSE AT DNA ABASIC SITES ;

Method: X-RAY DIFFRACTION D_max: 55.5 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1bix
deposition_date	1998-06-19
title	;THE CRYSTAL STRUCTURE OF THE HUMAN DNA REPAIR ENDONUCLEASE HAP1 SUGGESTS THE RECOGNITION OF EXTRA-HELICAL DEOXYRIBOSE AT DNA ABASIC SITES ;
keywords	DNA REPAIR, ENDONUCLEASE, HAP1, REF-1, ABASIC SITE RECOGNITION; DNA REPAIR
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	18.94 Å
rg_electron	17.57 Å
i0	18588900.00
molecular_weight	31831.0 kDa
excluded_volume	39223 Å³
envelope_volume	43863 Å³
shell_volume	20153 Å³
envelope_diameter	56.0 Å
shell_rg	24.43 Å
envelope_rg	17.86 Å
shape_rg	17.44 Å
total_rg	18.87 Å
total_atoms	2195
n_residues	275
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	55.5 Å
rg_real	18.77 Å
rg_real_error	0.26 Å
i0_real	1.8590e+07
i0_real_error	2.2820e+05
rg_reciprocal	18.80 Å
i0_reciprocal	18590000.0000
total_estimate	0.9073
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	23.9 Å
skewness	0.028
kurtosis	-0.530
angular_range	— – 0.4200 Å⁻¹
current_alpha	0.0000
highest_alpha	3583000.0000
n_real_points	73
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.944; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.968; Smooth: 0.993

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	AP ENDONUCLEASE 1
formula_weight	32287.7 kDa
ec_number	4.2.99.18
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2350

KNDKEAAGEGPALYEDPPDQKTSPSGKPATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLYLAL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	SAMARIUM (III) ION
formula_weight	150.4 kDa
src_method	syn
entity_count	4

Entity 3 non-polymer

description	PLATINUM (II) ION
formula_weight	195.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	155

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6. Citations (2)

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length_a	87.260 Å
length_b	44.701 Å
length_c	78.778 Å
angle_alpha	90.00 °
angle_beta	103.45 °
angle_gamma	90.00 °
z_pdb	4

space_group	C 1 2 1
int_tables_number	5
crystal_system	—

resolution	2.200 Å
resolution_low	20.000 Å
r_factor	0.1840
r_work	0.1840
r_free	0.2690

fit	/app/data/saxs_computation/bi/1bix/1bix.fit
pddf	/app/data/pr_computation/bi/1bix/1bix.pr.out
profile	/app/data/saxs_computation/bi/1bix/1bix.dat

;THE CRYSTAL STRUCTURE OF THE HUMAN DNA REPAIR ENDONUCLEASE HAP1 SUGGESTS THE RECOGNITION OF EXTRA-HELICAL DEOXYRIBOSE AT DNA ABASIC SITES ;

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