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1dyp

1,3-ALPHA-1,4-BETA-D-GALACTOSE-4-SULFATE-3,6-ANHYDRO-D-GALACTOSE 4 GALACTOHYDROLASE

Method: X-RAY DIFFRACTION D_max: 61.2 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dyp
deposition_date	2000-02-04
title	1,3-ALPHA-1,4-BETA-D-GALACTOSE-4-SULFATE-3,6-ANHYDRO-D-GALACTOSE 4 GALACTOHYDROLASE
keywords	HYDROLASE, KAPPA-CARRAGEENAN DOUBLE HELIX DEGRADATION; HYDROLASE
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	19.14 Å
rg_electron	18.15 Å
i0	20690900.00
molecular_weight	32435.0 kDa
excluded_volume	39248 Å³
envelope_volume	43547 Å³
shell_volume	19753 Å³
envelope_diameter	63.6 Å
shell_rg	24.83 Å
envelope_rg	18.46 Å
shape_rg	18.09 Å
total_rg	19.16 Å
total_atoms	2220
n_residues	266
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	61.2 Å
rg_real	19.01 Å
rg_real_error	0.29 Å
i0_real	2.0690e+07
i0_real_error	2.2030e+05
rg_reciprocal	19.03 Å
i0_reciprocal	20690000.0000
total_estimate	0.6966
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	23.8 Å
skewness	0.166
kurtosis	-0.357
angular_range	— – 0.4150 Å⁻¹
current_alpha	0.0000
highest_alpha	3163000.0000
n_real_points	73
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.859; Stabil: 1.000; Sysdev: 0.182; Positv: 1.000; Valcen: 0.994; Smooth: 0.935

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	KAPPA-CARRAGEENASE
formula_weight	31559.3 kDa
ec_number	3.2.1.83
mutation	YES
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2641

SMQPPIAKPGETWILQAKRSDEFNVKDATKWNFQTENYGVWSWKNENATVSKGKLKLTTKRESHQRTFWDGCNQQQVANYPLYYTSGVAKSRATGNYGYYEARIKGASTFPGVSPAFWMYSTIDRSLTKEGDVQYSEIDVVELTQKSAVRESDHDLHNIVVKNGKPTWMRPGSFPQTNHNGYHLPFDPRNDFHTYGVNVTKDKITWYVDGEIVGEKDNLYWHRQMNLTLSQGLRAPHTQWKCNQFYPSANKSAEGFPTSMEVDYVRTWVKV

Source

organism	PSEUDOALTEROMONAS CARRAGEENOVORA
ncbi_taxonomy_id	227
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	CADMIUM ION
formula_weight	112.4 kDa
src_method	syn
entity_count	7

Entity 3 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	7

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	405

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6. Citations (2)

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length_a	56.408 Å
length_b	61.120 Å
length_c	75.523 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	1.540 Å
resolution_low	24.250 Å
r_factor	0.1780
r_work	0.1780
r_free	0.1930

fit	/app/data/saxs_computation/dy/1dyp/1dyp.fit
pddf	/app/data/pr_computation/dy/1dyp/1dyp.pr.out
profile	/app/data/saxs_computation/dy/1dyp/1dyp.dat

1,3-ALPHA-1,4-BETA-D-GALACTOSE-4-SULFATE-3,6-ANHYDRO-D-GALACTOSE 4 GALACTOHYDROLASE

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