SAXSdb — 1ck7

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1. Structure Basics

entry_id	1ck7
deposition_date	1999-04-28
title	GELATINASE A (FULL-LENGTH)
keywords	HYDROLASE (METALLOPROTEASE), FULL-LENGTH, METALLOPROTEINASE, GELATINASE A, HYDROLASE; 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	28.18 Å
rg_electron	27.37 Å
i0	80811600.00
molecular_weight	70266.0 kDa
excluded_volume	87524 Å³
envelope_volume	108910 Å³
shell_volume	33267 Å³
envelope_diameter	99.7 Å
shell_rg	34.46 Å
envelope_rg	27.16 Å
shape_rg	27.37 Å
total_rg	28.09 Å
total_atoms	4947
n_residues	619
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	95.4 Å
rg_real	28.10 Å
rg_real_error	0.72 Å
i0_real	8.0810e+07
i0_real_error	1.2490e+06
rg_reciprocal	28.13 Å
i0_reciprocal	80810000.0000
total_estimate	0.8820
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	35.8 Å
skewness	0.273
kurtosis	-0.271
angular_range	— – 0.2800 Å⁻¹
current_alpha	0.0000
highest_alpha	14690000.0000
n_real_points	57
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.832; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.976

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4. Crystallography & Experiment

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5. Entities & Polymer Info (7)

Entity 1 polymer

description	PROTEIN (GELATINASE A)
formula_weight	70995.4 kDa
ec_number	3.4.24.24
mutation	E404A
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	5051

APSPIIKFPGDVAPKTDKELAVQYLNTFYGCPKESCNLFVLKDTLKKMQKFFGLPQTGDLDQNTIETMRKPRCGNPDVANYNFFPRKPKWDKNQITYRIIGYTPDLDPETVDDAFARAFQVWSDVTPLRFSRIHDGEADIMINFGRWEHGDGYPFDGKDGLLAHAFAPGTGVGGDSHFDDDELWTLGEGQVVRVKYGNADGEYCKFPFLFNGKEYNSCTDTGRSDGFLWCSTTYNFEKDGKYGFCPHEALFTMGGNAEGQPCKFPFRFQGTSYDSCTTEGRTDGYRWCGTTEDYDRDKKYGFCPETAMSTVGGNSEGAPCVFPFTFLGNKYESCTSAGRSDGKMWCATTANYDDDRKWGFCPDQGYSLFLVAAHAFGHAMGLEHSQDPGALMAPIYTYTKNFRLSQDDIKGIQELYGASPDIDLGTGPTPTLGPVTPEICKQDIVFDGIAQIRGEIFFFKDRFIWRTVTPRDKPMGPLLVATFWPELPEKIDAVYEAPQEEKAVFFAGNEYWIYSASTLERGYPKPLTSLGLPPDVQRVDAAFNWSKNKKTYIFAGDKFWRYNEVKKKMDPGFPKLIADAWNAIPDNLDAVVDLQGGGHSYFFKGAYYLKLENQSLKSVKFGSIKSDWLGC

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Trichoplusia ni

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	3

Entity 4 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	1

Entity 5 non-polymer

description	SODIUM ION
formula_weight	23.0 kDa
src_method	syn
entity_count	1

Entity 6 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	2

Entity 7 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	104

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6. Citations (1)

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length_a	121.320 Å
length_b	121.320 Å
length_c	345.110 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

space_group	I 41 2 2
int_tables_number	98
crystal_system	—

resolution	2.800 Å
resolution_low	34.000 Å
r_factor	—
r_work	0.2860
r_free	0.3270

fit	/app/data/saxs_computation/ck/1ck7/1ck7.fit
pddf	/app/data/pr_computation/ck/1ck7/1ck7.pr.out
profile	/app/data/saxs_computation/ck/1ck7/1ck7.dat

GELATINASE A (FULL-LENGTH)

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