← Back to search

1c3d

X-RAY CRYSTAL STRUCTURE OF C3D: A C3 FRAGMENT AND LIGAND FOR COMPLEMENT RECEPTOR 2

Method: X-RAY DIFFRACTION D_max: 58.4 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1c3d
deposition_date	1998-05-19
title	X-RAY CRYSTAL STRUCTURE OF C3D: A C3 FRAGMENT AND LIGAND FOR COMPLEMENT RECEPTOR 2
keywords	COMPLEMENT, C3, C3D, ALPHA-ALPHA BARREL; COMPLEMENT
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	19.30 Å
rg_electron	18.05 Å
i0	18024800.00
molecular_weight	33325.0 kDa
excluded_volume	42202 Å³
envelope_volume	46183 Å³
shell_volume	20684 Å³
envelope_diameter	59.9 Å
shell_rg	25.09 Å
envelope_rg	18.34 Å
shape_rg	18.04 Å
total_rg	19.11 Å
total_atoms	2347
n_residues	294
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

▼

3. P(r) Analysis (GNOM)

dmax	58.4 Å
rg_real	19.14 Å
rg_real_error	0.26 Å
i0_real	1.8020e+07
i0_real_error	2.1820e+05
rg_reciprocal	19.16 Å
i0_reciprocal	18030000.0000
total_estimate	0.9023
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	25.5 Å
skewness	0.077
kurtosis	-0.510
angular_range	— – 0.4100 Å⁻¹
current_alpha	0.0000
highest_alpha	7495000.0000
n_real_points	72
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.923; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.984; Smooth: 0.973

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	C3D
formula_weight	32898.7 kDa
mutation	C17A
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2449

MLDAERLKHLIVTPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAP

Source

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

Entity 2 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	5

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	102

▶

6. Citations (1)

▶

length_a	60.820 Å
length_b	64.378 Å
length_c	87.160 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	1.800 Å
resolution_low	5.000 Å
r_factor	0.1880
r_work	0.1880
r_free	0.2300

fit	/app/data/saxs_computation/c3/1c3d/1c3d.fit
pddf	/app/data/pr_computation/c3/1c3d/1c3d.pr.out
profile	/app/data/saxs_computation/c3/1c3d/1c3d.dat

X-RAY CRYSTAL STRUCTURE OF C3D: A C3 FRAGMENT AND LIGAND FOR COMPLEMENT RECEPTOR 2

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