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1bqy

Plasminogen activator (TSV-PA) from snake venom

Method: X-RAY DIFFRACTION D_max: 142.5 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1bqy
deposition_date	1998-08-20
title	Plasminogen activator (TSV-PA) from snake venom
keywords	FIBRINOLYSIS, PLASMINOGEN ACTIVATOR, SERINE PROTEINASE, SNAKE VENOM, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, BLOOD CLOTTING; HYDROLASE/HYDROLASE INHIBITOR
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	48.04 Å
rg_electron	48.69 Å
i0	79155900.00
molecular_weight	48355.0 kDa
excluded_volume	46334 Å³
envelope_volume	98429 Å³
shell_volume	16680 Å³
envelope_diameter	143.2 Å
shell_rg	55.67 Å
envelope_rg	45.38 Å
shape_rg	48.69 Å
total_rg	48.87 Å
total_atoms	3644
n_residues	468
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	142.5 Å
rg_real	48.90 Å
rg_real_error	1.69 Å
i0_real	7.9160e+07
i0_real_error	1.4650e+06
rg_reciprocal	48.05 Å
i0_reciprocal	79070000.0000
total_estimate	0.5405
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	21.6 Å
skewness	0.156
kurtosis	-1.595
angular_range	— – 0.1650 Å⁻¹
current_alpha	0.0000
highest_alpha	917200.0000
n_real_points	34
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.000; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.000; Smooth: 0.022

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	PLASMINOGEN ACTIVATOR
formula_weight	25634.0 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	3806

VFGGDECNINEHRSLVVLFNSNGFLCGGTLINQDWVVTAAHCDSNNFQLLFGVHSKKILNEDEQTRDPKEKFFCPNRKKDDEVDKDIMLIKLDSSVSNSEHIAPLSLPSSPPSVGSVCRIMGWGKTIPTKEIYPDVPHCANINILDHAVCRTAYSWRQVANTTLCAGILQGGRDTCHFDSGGPLICNGIFQGIVSWGGHPCGQPGEPGVYTKVFDYLDWIKSIIAGNKDATCPP

Source

organism	Viridovipera stejnegeri
common_name	;Stejneger's pit viper ;
ncbi_taxonomy_id	39682
host_organism	Escherichia coli

Entity 2 non-polymer

description	L-alpha-glutamyl-N-{(1S)-4-{[amino(iminio)methyl]amino}-1-[(1S)-2-chloro-1-hydroxyethyl]butyl}glycinamide
formula_weight	395.9 kDa
src_method	syn
entity_count	2

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	162

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6. Citations (1)

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length_a	45.290 Å
length_b	67.420 Å
length_c	163.670 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.500 Å
resolution_low	30.000 Å
r_factor	0.1780
r_work	0.1780
r_free	0.2580

fit	/app/data/saxs_computation/bq/1bqy/1bqy.fit
pddf	/app/data/pr_computation/bq/1bqy/1bqy.pr.out
profile	/app/data/saxs_computation/bq/1bqy/1bqy.dat

Plasminogen activator (TSV-PA) from snake venom

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