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1a79

CRYSTAL STRUCTURE OF THE TRNA SPLICING ENDONUCLEASE FROM METHANOCOCCUS JANNASCHII

Method: X-RAY DIFFRACTION D_max: 114.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1a79
deposition_date	1998-03-23
title	CRYSTAL STRUCTURE OF THE TRNA SPLICING ENDONUCLEASE FROM METHANOCOCCUS JANNASCHII
keywords	ENDONUCLEASE, TRNA ENDONUCLEASE; ENDONUCLEASE
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	31.17 Å
rg_electron	31.05 Å
i0	92830500.00
molecular_weight	79859.0 kDa
excluded_volume	101160 Å³
envelope_volume	120490 Å³
shell_volume	33976 Å³
envelope_diameter	118.1 Å
shell_rg	36.15 Å
envelope_rg	31.41 Å
shape_rg	31.08 Å
total_rg	31.37 Å
total_atoms	5598
n_residues	684
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	114.3 Å
rg_real	31.42 Å
rg_real_error	1.16 Å
i0_real	9.2830e+07
i0_real_error	1.7160e+06
rg_reciprocal	31.31 Å
i0_reciprocal	92820000.0000
total_estimate	0.8105
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	31.4 Å
skewness	0.582
kurtosis	-0.012
angular_range	— – 0.2550 Å⁻¹
current_alpha	0.0000
highest_alpha	38920000.0000
n_real_points	52
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.646; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.687; Smooth: 0.907

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	TRNA ENDONUCLEASE
formula_weight	19745.8 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	5651

KITGLLDGDRVIVFDKNGISKLSARHYGNVEGNFLSLSLVEALYLINLGWLEVKYKDNKPLSFEELYEYARNVEERLCLKYLVYKDLRTRGYIVKTGLKYGADFRLYERGANIDKEHSVYLVKVFPEDSSFLLSELTGFVRVAHSVRKKLLIAIVDADGDIVYYNMTYVKP

Source

organism	Methanocaldococcus jannaschii
ncbi_taxonomy_id	2190
host_organism	Escherichia coli

Entity 2 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	GOLD ION
formula_weight	197.0 kDa
src_method	syn
entity_count	4

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	53

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6. Citations (1)

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length_a	61.950 Å
length_b	80.040 Å
length_c	193.590 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.280 Å
resolution_low	50.000 Å
r_factor	0.2000
r_work	0.2000
r_free	0.2670

fit	/app/data/saxs_computation/a7/1a79/1a79.fit
pddf	/app/data/pr_computation/a7/1a79/1a79.pr.out
profile	/app/data/saxs_computation/a7/1a79/1a79.dat

CRYSTAL STRUCTURE OF THE TRNA SPLICING ENDONUCLEASE FROM METHANOCOCCUS JANNASCHII

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