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1av6

VACCINIA METHYLTRANSFERASE VP39 COMPLEXED WITH M7G CAPPED RNA HEXAMER AND S-ADENOSYLHOMOCYSTEINE

Method: X-RAY DIFFRACTION D_max: 62.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1av6
deposition_date	1997-09-26
title	VACCINIA METHYLTRANSFERASE VP39 COMPLEXED WITH M7G CAPPED RNA HEXAMER AND S-ADENOSYLHOMOCYSTEINE
keywords	;SINGLE-STRANDED RNA, METHYLTRANSFERASE, RNA CAP, POLY(A) POLYMERASE, VACCINIA, MRNA PROCESSING, TRANSCRIPTION, COMPLEX (TRANSFERASE-RNA), TRANSFERASE-RNA complex ;; TRANSFERASE/RNA
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	20.10 Å
rg_electron	18.99 Å
i0	23233500.00
molecular_weight	36628.0 kDa
excluded_volume	45738 Å³
envelope_volume	51598 Å³
shell_volume	22071 Å³
envelope_diameter	62.8 Å
shell_rg	25.98 Å
envelope_rg	19.27 Å
shape_rg	19.00 Å
total_rg	19.88 Å
total_atoms	3127
n_residues	295
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	62.3 Å
rg_real	19.96 Å
rg_real_error	0.31 Å
i0_real	2.3230e+07
i0_real_error	2.5610e+05
rg_reciprocal	19.98 Å
i0_reciprocal	23230000.0000
total_estimate	0.8963
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.8 Å
skewness	0.099
kurtosis	-0.488
angular_range	— – 0.3950 Å⁻¹
current_alpha	0.0000
highest_alpha	5653000.0000
n_real_points	71
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.891; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.981; Smooth: 0.995

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	;RNA (5'-R(GPAPAPAPAPA)-3') ;
formula_weight	1946.3 kDa
src_method	man
entity_count	1

Polymer

type	polyribonucleotide
strand_id	B
atom_count	3127

GAAAAA

Entity 2 polymer

description	;Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase ;
formula_weight	34573.0 kDa
ec_number	2.1.1.57
mutation	C-TERMINAL DELETION OF 26 RESIDUES
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

VVSLDKPFMYFEEIDNELDYEPESANEVAKKLPYQGQLKLLLGELFFLSKLQRHGILDGATVVYIGSAPGTHIRYLRDHFYNLGVIIKWMLIDGRHHDPILNGLRDVTLVTRFVDEEYLRSIKKQLHPSKIILISDVRSKRGGNEPSTADLLSNYALQNVMISILNPVASSLKWRCPFPDQWIKDFYIPHGNKMLQPFAPSYSAEMRLLSIYTGENMRLTRVTKSDAVNYEKKMYYLNKIVRNKVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQSIFRFLNIP

Source

organism	Vaccinia virus WR
common_name	VACV
ncbi_taxonomy_id	10254
host_organism	Escherichia coli BL21(DE3)

Entity 3 non-polymer

description	7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE
formula_weight	539.2 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	S-ADENOSYL-L-HOMOCYSTEINE
formula_weight	384.4 kDa
src_method	syn
entity_count	1

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6. Citations (1)

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length_a	61.800 Å
length_b	64.600 Å
length_c	99.500 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	2.800 Å
resolution_low	8.000 Å
r_factor	0.2150
r_work	0.2150
r_free	0.2850

fit	/app/data/saxs_computation/av/1av6/1av6.fit
pddf	/app/data/pr_computation/av/1av6/1av6.pr.out
profile	/app/data/saxs_computation/av/1av6/1av6.dat

VACCINIA METHYLTRANSFERASE VP39 COMPLEXED WITH M7G CAPPED RNA HEXAMER AND S-ADENOSYLHOMOCYSTEINE

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

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)