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1d5y

CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA

Method: X-RAY DIFFRACTION D_max: 153.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1d5y
deposition_date	1999-10-12
title	CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA
keywords	Protein-DNA complex, Rob Transcription factor, DNA, transcription-DNA COMPLEX; transcription/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	46.17 Å
rg_electron	47.20 Å
i0	439645000.00
molecular_weight	157230.0 kDa
excluded_volume	190060 Å³
envelope_volume	303730 Å³
shell_volume	54985 Å³
envelope_diameter	162.6 Å
shell_rg	50.55 Å
envelope_rg	45.34 Å
shape_rg	47.28 Å
total_rg	47.08 Å
total_atoms	10986
n_residues	1236
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	153.4 Å
rg_real	46.16 Å
rg_real_error	1.77 Å
i0_real	4.3960e+08
i0_real_error	8.5370e+06
rg_reciprocal	46.17 Å
i0_reciprocal	439600000.0000
total_estimate	0.8798
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	58.6 Å
skewness	0.250
kurtosis	-0.380
angular_range	— – 0.1700 Å⁻¹
current_alpha	0.0000
highest_alpha	12090000.0000
n_real_points	35
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.867; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.832

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	;DNA (5'-D(TPGPAPCPAPGPCPAPCPTPGPAPAPTPGPTPCPAPAPAP*G)-3') ;
formula_weight	6480.2 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	M,O
atom_count	10986

TGACAGCACTGAATGTCAAAG

Entity 2 polymer

description	;DNA (5'-D(APCPTPTPTPGPAPCPAPTPTPCPAPGPTPGPCPTPGPTP*C)-3') ;
formula_weight	6404.1 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	N,P

ACTTTGACATTCAGTGCTGTC

Entity 3 polymer

description	ROB TRANSCRIPTION FACTOR
formula_weight	33394.1 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,D,C,B

QAGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKSAVALRLTARPILDIALQYRFDSQQTFTRAFKKQFAQTPALYRRSPEWSAFGIRPPLRLGEFTMPEHKFVTLEDTPLIGVTQSYSCSLEQISDFRHEMRYQFWHDFLGNAPTIPPVLYGLNETRPSQDKDDEQEVFYTTALAQDQADGYVLTGHPVMLQGGEYVMFTYEGLGTGVQEFILTVYGTCMPMLNLTRRKGQDIERYYPAEDAKAGDRPINLRCELLIPIRRKLAAA

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	75.384 Å
length_b	208.012 Å
length_c	67.731 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	2.700 Å
resolution_low	30.000 Å
r_factor	0.2540
r_work	0.2540
r_free	0.3020

fit	/app/data/saxs_computation/d5/1d5y/1d5y.fit
pddf	/app/data/pr_computation/d5/1d5y/1d5y.pr.out
profile	/app/data/saxs_computation/d5/1d5y/1d5y.dat

CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA

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 (3)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)