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1dc1

;RESTRICTION ENZYME BSOBI/DNA COMPLEX STRUCTURE: ENCIRCLEMENT OF THE DNA AND HISTIDINE-CATALYZED HYDROLYSIS WITHIN A CANONICAL RESTRICTION ENZYME FOLD ;

Method: X-RAY DIFFRACTION D_max: 84.7 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dc1
deposition_date	1999-11-04
title	;RESTRICTION ENZYME BSOBI/DNA COMPLEX STRUCTURE: ENCIRCLEMENT OF THE DNA AND HISTIDINE-CATALYZED HYDROLYSIS WITHIN A CANONICAL RESTRICTION ENZYME FOLD ;
keywords	PROTEIN-DNA COMPLEX, RESTRICTION ENDONUCLEASE, THERMOPHILIC ENZYME, DEGENERATE DNA RECOGNITION, HYDROLASE-DNA COMPLEX; HYDROLASE/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	26.65 Å
rg_electron	26.31 Å
i0	107284000.00
molecular_weight	78640.0 kDa
excluded_volume	97217 Å³
envelope_volume	114480 Å³
shell_volume	35363 Å³
envelope_diameter	89.4 Å
shell_rg	34.47 Å
envelope_rg	26.63 Å
shape_rg	26.34 Å
total_rg	27.03 Å
total_atoms	5513
n_residues	646
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	84.7 Å
rg_real	26.55 Å
rg_real_error	0.38 Å
i0_real	1.0730e+08
i0_real_error	1.4010e+06
rg_reciprocal	26.58 Å
i0_reciprocal	107300000.0000
total_estimate	0.9008
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	31.1 Å
skewness	0.246
kurtosis	-0.445
angular_range	— – 0.3000 Å⁻¹
current_alpha	0.0000
highest_alpha	24850000.0000
n_real_points	61
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.904; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.994

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	;DNA (5'-D(TAPTPAPCPTPCPGPAPGPTPAP*T)-3') ;
formula_weight	3965.6 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	W,C
atom_count	6020

TATACTCGAGTAT

Entity 2 polymer

description	BSOBI RESTRICTION ENDONUCLEASE
formula_weight	36742.8 kDa
ec_number	3.1.21.4
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B

MNTQKPFENHLKSVDDLKTTYEEYRAGFIAFALEKNKRSTPYIERARALKVAASVAKTPKDLLYLEDIQDALLYASGISDKAKKFLTEDDKKESINNLIENFLEPAGEEFIDELIFRYLLFQGDSLGGTMRNIAGALAQQKLTRAIISALDIANIPYKWLDSRDKKYTNWMDKPEDDYELETFAKGISWTINGKHRTLMYNITVSLVKKNVDICLFNCEPEIYTPQKVHQQPEKYLLLGELKGGIDPAGADEHWKTANTALTRIRNKFSEKGLSPKTIFIGAAIEHSMAEEIWDQLQSGSLTNSANLTKTEQVGSLCRWIINI

Source

organism	Geobacillus stearothermophilus
ncbi_taxonomy_id	1422
host_organism	Escherichia coli

Entity 3 non-polymer

description	1,4-DIETHYLENE DIOXIDE
formula_weight	88.1 kDa
src_method	syn
entity_count	10

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	474

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6. Citations (2)

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length_a	80.294 Å
length_b	87.823 Å
length_c	99.454 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	1.700 Å
resolution_low	8.000 Å
r_factor	0.1900
r_work	0.1900
r_free	0.2530

fit	/app/data/saxs_computation/dc/1dc1/1dc1.fit
pddf	/app/data/pr_computation/dc/1dc1/1dc1.pr.out
profile	/app/data/saxs_computation/dc/1dc1/1dc1.dat

;RESTRICTION ENZYME BSOBI/DNA COMPLEX STRUCTURE: ENCIRCLEMENT OF THE DNA AND HISTIDINE-CATALYZED HYDROLYSIS WITHIN A CANONICAL RESTRICTION ENZYME FOLD ;

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 (4)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 water

6. Citations (2)

7. Files & Curves (10)

Files (7)

Curves (3)