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1d9x

CRYSTAL STRUCTURE OF THE DNA REPAIR PROTEIN UVRB

Method: X-RAY DIFFRACTION D_max: 92.0 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1d9x
deposition_date	1999-10-30
title	CRYSTAL STRUCTURE OF THE DNA REPAIR PROTEIN UVRB
keywords	apo protein, GENE REGULATION; GENE REGULATION
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	29.22 Å
rg_electron	28.18 Å
i0	71897600.00
molecular_weight	65818.0 kDa
excluded_volume	82261 Å³
envelope_volume	106780 Å³
shell_volume	32181 Å³
envelope_diameter	98.5 Å
shell_rg	35.09 Å
envelope_rg	28.02 Å
shape_rg	28.16 Å
total_rg	28.96 Å
total_atoms	4634
n_residues	590
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	92.0 Å
rg_real	29.21 Å
rg_real_error	0.73 Å
i0_real	7.1900e+07
i0_real_error	1.0760e+06
rg_reciprocal	29.22 Å
i0_reciprocal	71900000.0000
total_estimate	0.9062
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	30.7 Å
skewness	0.272
kurtosis	-0.560
angular_range	— – 0.2700 Å⁻¹
current_alpha	0.0000
highest_alpha	20340000.0000
n_real_points	55
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.950; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.933

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	EXCINUCLEASE UVRABC COMPONENT UVRB
formula_weight	75501.0 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4717

VEGRFQLVAPYEPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNKTLAGQLYSELKEFFPHNAVEYFVSYYDYYQPEAYVPQTDTYIEKDAKINDEIDKLRHSATSALFERRDVIIVASVSCIYGLGSPEEYRELVVSLRVGMEIERNALLRRLVDIQYDRNDIDFRGTFRVRGDVVEIFPASRDEHCIRVEFFGDEIERIRAEVDALTGKVLGEREHVAIFPASHFVTREEKMRLAIQNIEQELEERLAELRAQGKLLEAQRLEQRTRYDLEMMREMGFCSGIENYSRHLALRPPGSTPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGFRLPSALDNRPLTFEEFEQKINQIIYVSATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQEEYNRKHGIVPRTVKKEIRDVIRATYAAEETEMYEAKPAAAMTKQEREELIRTLEAEMKEAAKALDFERAAQLRDIIFELKAEG

Source

organism	Bacillus caldotenax
ncbi_taxonomy_id	1395
host_organism	Escherichia coli

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	83

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6. Citations (2)

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length_a	150.207 Å
length_b	150.207 Å
length_c	79.516 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 31 2 1
int_tables_number	152
crystal_system	—

resolution	2.600 Å
resolution_low	20.000 Å
r_factor	—
r_work	0.2560
r_free	0.3240

fit	/app/data/saxs_computation/d9/1d9x/1d9x.fit
pddf	/app/data/pr_computation/d9/1d9x/1d9x.pr.out
profile	/app/data/saxs_computation/d9/1d9x/1d9x.dat

CRYSTAL STRUCTURE OF THE DNA REPAIR PROTEIN UVRB

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