← Back to search

1afd

STRUCTURAL BASIS OF GALACTOSE RECOGNITION IN C-TYPE ANIMAL LECTINS

Method: X-RAY DIFFRACTION D_max: 80.8 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1afd
deposition_date	1995-11-03
title	STRUCTURAL BASIS OF GALACTOSE RECOGNITION IN C-TYPE ANIMAL LECTINS
keywords	C-TYPE LECTIN, CALCIUM-BINDING PROTEIN, LECTIN; LECTIN
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	27.31 Å
rg_electron	26.41 Å
i0	45360000.00
molecular_weight	51395.0 kDa
excluded_volume	63954 Å³
envelope_volume	77736 Å³
shell_volume	25728 Å³
envelope_diameter	82.3 Å
shell_rg	32.22 Å
envelope_rg	26.44 Å
shape_rg	26.40 Å
total_rg	27.06 Å
total_atoms	3589
n_residues	462
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	80.8 Å
rg_real	27.18 Å
rg_real_error	0.57 Å
i0_real	4.5360e+07
i0_real_error	6.6120e+05
rg_reciprocal	27.22 Å
i0_reciprocal	45360000.0000
total_estimate	0.9140
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	40.4 Å
skewness	0.038
kurtosis	-0.782
angular_range	— – 0.2900 Å⁻¹
current_alpha	0.0000
highest_alpha	8912000.0000
n_real_points	59
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.973; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.995; Smooth: 0.963

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	MANNOSE-BINDING PROTEIN-A
formula_weight	17025.3 kDa
mutation	E185Q, N187D, H189W, G190Y, S191G, INS(H192, G193, L194, G195, G196)
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	1,2,3
atom_count	3911

AIEVKLANMEAEINTLKSKLELTNKLHAFSMGKKSGKKFFVTNHERMPFSKVKALCSELRGTVAIPRNAEENKAIQEVAKTSAFLGITDEVTEGQFMYVTGGRLTYSNWKKDQPDDWYGHGLGGGEDCVTIVDNGLWNDISCQASHTAVCEFPA

Source

organism	Rattus norvegicus
common_name	Norway rat
ncbi_taxonomy_id	10116
host_organism	Escherichia coli

Entity 2 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	8

Entity 3 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	317

▶

6. Citations (3)

▶

length_a	80.400 Å
length_b	84.700 Å
length_c	98.000 Å
angle_alpha	90.00 °
angle_beta	105.40 °
angle_gamma	90.00 °
z_pdb	12

space_group	C 1 2 1
int_tables_number	5
crystal_system	—

resolution	2.000 Å
resolution_low	10.000 Å
r_factor	0.2340
r_work	0.2340
r_free	0.2820

fit	/app/data/saxs_computation/af/1afd/1afd.fit
pddf	/app/data/pr_computation/af/1afd/1afd.pr.out
profile	/app/data/saxs_computation/af/1afd/1afd.dat

STRUCTURAL BASIS OF GALACTOSE RECOGNITION IN C-TYPE ANIMAL LECTINS

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