← Back to search

1e3h

SeMet derivative of Streptomyces antibioticus PNPase/GPSI enzyme

Method: X-RAY DIFFRACTION D_max: 87.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1e3h
deposition_date	2000-06-15
title	SeMet derivative of Streptomyces antibioticus PNPase/GPSI enzyme
keywords	POLYRIBONUCLEOTIDE TRANSFERASE, ATP:GTP DIPHOSPHOTRANSFERASE, RNA PROCESSING, RNA DEGRADATION; POLYRIBONUCLEOTIDE TRANSFERASE
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	26.40 Å
rg_electron	25.48 Å
i0	76890800.00
molecular_weight	65697.0 kDa
excluded_volume	80882 Å³
envelope_volume	102020 Å³
shell_volume	33003 Å³
envelope_diameter	92.8 Å
shell_rg	33.05 Å
envelope_rg	25.69 Å
shape_rg	25.54 Å
total_rg	26.08 Å
total_atoms	4547
n_residues	585
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	87.7 Å
rg_real	26.31 Å
rg_real_error	0.56 Å
i0_real	7.6890e+07
i0_real_error	1.1090e+06
rg_reciprocal	26.34 Å
i0_reciprocal	76890000.0000
total_estimate	0.8843
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	32.1 Å
skewness	0.268
kurtosis	-0.325
angular_range	— – 0.3000 Å⁻¹
current_alpha	0.0000
highest_alpha	14130000.0000
n_real_points	61
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.837; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.981

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	GUANOSINE PENTAPHOSPHATE SYNTHETASE
formula_weight	82163.3 kDa
ec_number	2.7.7.8, 2.7.6.5
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4842

ASMTGGQQMGRGSGSEFMENETHYAEAVIDNGAFGTRTIRFETGRLARQAAGSAVAYLDDDTMVLSATTASKNPKDQLDFFPLTVDVEERMYAAGKIPGSFFRREGRPSEDAILTCRLIDRPLRPSFKKGLRNEIQVVATIMALNPDHLYDVVAINAASASTQLAGLPFSGPIGGVRVALIRGQWVAFPTHTELEDAVFDMVVAGRVLEDGDVAIMMVEAEATEKTIQLVKDGAEAPTEEVVAAGLDAAKPFIKVLCKAQADLAAKAAKPTGEFPVFLDYQDDVLEALSAAVRPELSAALTIAGKQDREAELDRVKALAAEKLLPEFEGREKEISAAYRALTKSLVRERVIAEKKRIDGRGVTDIRTLAAEVEAIPRVHGSALFERGETQILGVTTLNMLRMEQQLDTLSPVTRKRYMHNYNFPPYSVGETGRVGSPKRREIGHGALAERAIVPVLPTREEFPYAIRQVSEALGSNGSTSMGSVCASTMSLLNAGVPLKAPVAGIAMGLISQEINGETHYVALTDILGAEDAFGDMDFKVAGTKEFVTALQLDTKLDGIPASVLAAALKQARDARLHILDVMMEAIDTPDEMSPNAPRIITVKIPVDKIGEVIGPKRQMINQIQEDTGAEITIEDDGTIYIGAADGPAAEAARATINGIANPTSPEVGERILGSVVKTTTFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLGVGQKVQVEIAEIDSRGKLSLIPVIEGEEAASDEKKDDAEQ

Source

organism	STREPTOMYCES ANTIBIOTICUS
ncbi_taxonomy_id	1890
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	9

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	291

▶

6. Citations (1)

▶

length_a	133.610 Å
length_b	133.610 Å
length_c	344.470 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	18

space_group	H 3 2
int_tables_number	155
crystal_system	—

resolution	2.600 Å
resolution_low	38.990 Å
r_factor	0.2010
r_work	0.2010
r_free	0.2260

fit	/app/data/saxs_computation/e3/1e3h/1e3h.fit
pddf	/app/data/pr_computation/e3/1e3h/1e3h.pr.out
profile	/app/data/saxs_computation/e3/1e3h/1e3h.dat

SeMet derivative of Streptomyces antibioticus PNPase/GPSI enzyme

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