← Back to search

9vm1

MVM NS2 mutant Nm42 in complex with CRM1-Ran-RanBP1

Method: X-RAY DIFFRACTION D_max: 111.3 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9vm1
deposition_date	2025-06-27
last_revision	2025-08-06
title	MVM NS2 mutant Nm42 in complex with CRM1-Ran-RanBP1
keywords	transport protein, nuclear export, complex, mutant, inhibitor; TRANSPORT PROTEIN
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	36.44 Å
rg_electron	35.59 Å
i0	344794000.00
molecular_weight	154890.0 kDa
excluded_volume	195820 Å³
envelope_volume	255250 Å³
shell_volume	57796 Å³
envelope_diameter	109.4 Å
shell_rg	43.88 Å
envelope_rg	34.78 Å
shape_rg	35.59 Å
total_rg	36.16 Å
total_atoms	10901
n_residues	1344
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	111.3 Å
rg_real	36.18 Å
rg_real_error	0.62 Å
i0_real	3.4480e+08
i0_real_error	4.9380e+06
rg_reciprocal	36.35 Å
i0_reciprocal	344800000.0000
total_estimate	0.9070
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	49.2 Å
skewness	0.027
kurtosis	-0.618
angular_range	— – 0.2150 Å⁻¹
current_alpha	0.0000
highest_alpha	42890000.0000
n_real_points	44
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.943; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.985; Smooth: 0.974

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (10)

Entity 1 polymer

description	GTP-binding nuclear protein Ran
formula_weight	26496.3 kDa
ec_number	3.6.5.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	11191

GSSHHHHHHSSGLVPRGSHMAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAAQYEHDLEVAQTTALPDEDDDL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 polymer

description	Ran-specific GTPase-activating protein 1
formula_weight	16521.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

GGSDIHFEPVVHLEKVDVKTMEEDEEVLYKVRAKLFRFDADAKEWKERGTGDCKFLKNKKTNKVRILMRRDKTLKICANHIIAPEYTLKPNVGSDRSWVYACTADIAEGEAEAFTFAIRFGSKENADKFKEEFEKAQEINKKA

Source

organism	Saccharomyces cerevisiae S288C
ncbi_taxonomy_id	559292
host_organism	Escherichia coli

Entity 3 polymer

description	Exportin-1
formula_weight	115052.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

GGSMEGILDFSNDLDIALLDQVVSTFYQGSGVQQKQAQEILTKFQDNPDAWQKADQILQFSTNPQSKFIALSILDKLITRKWKLLPNDHRIGIRNFVVGMIISMCQDDEVFKTQKNLINKSDLTLVQILKQEWPQNWPEFIPELIGSSSSSVNVCENNMIVLKLLSEEVFDFSAEQMTQAKALHLKNSMSKEFEQIFKLCFQVLEQGSSSSLIVATLESLLRYLHWIPYRYIYETNILELLSTKFMTSPDTRAITLKCLTEVSNLKIPQDNDLIKRQTVLFFQNTLQQIATSVMPVTADLKATYANANGNDQSFLQDLAMFLTTYLARNRALLESDESLRELLLNAHQYLIQLSKIEERELFKTTLDYWHNLVADLFYEPLKKHIYEEICSQLRLVIIENMVRPEEIQLYKSEREVLVYLTHLNVIDTEEIMISKLARQIDGSEWSWHNINTLSWAIGSISGTMSEDTEKRFVVTVIKDLLGLCEQKRGKDNKAVVASDIMYVVGQYPRFLKAHWNFLRTVILKLFEFMHETHEGVQDMACDTFIKIVQKCKYHFVIQQPRESEPFIQTIIRDIQKTTADLQPQQVHTFYKACGIIISEERSVAERNRLLSDLMQLPNMAWDTIVEQSTANPTLLLDSETVKIIANIIKTNVAVCTSMGADFYPQLGHIYYNMLQLYRAVSSMISAQVAAEGLIATKTPKVRGLRTIKKEILKLVETYISKARNLDDVVKVLVEPLLNAVLEDYMNNVPDARDAEVLNCMTTVVEKVGHMIPQGVILILQSVFECTLDMINKDFTEYPEHRVEFYKLLKVINEKSFAAFLELPPAAFKLFVDAICWAFKHNNRDVEVNGLQIALDLVKNIERMGNVPFANEFHKNYFFIFVSETFFVLTDSDHKSGFSKQALLLMKLISLVYDNKISVPLYQEAEVPQGTSNQVYLSQYLANMLSNAFPHLTSEQIASFLSALTKQCKDLVVFKGTLRDFLVQIKEVGGDPTDYLFAEDKENA

Source

organism	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
common_name	;brewer's yeast ;
ncbi_taxonomy_id	559292
host_organism	Escherichia coli

Entity 4 polymer

description	ASP-GLY-TYR-ILE-GLU-GLU-LEU-ILE-ARG-MET-PHE-GLY-LYS-LEU-SER-ILE-HIS-ASP-ASP
formula_weight	2254.5 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

DGYIEELIRMFGKLSIHDD

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 5 non-polymer

description	GUANOSINE-5'-TRIPHOSPHATE
formula_weight	523.2 kDa
src_method	syn
entity_count	1

Entity 6 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	1

Entity 7 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	1

Entity 8 non-polymer

description	SODIUM ION
formula_weight	23.0 kDa
src_method	syn
entity_count	1

Entity 9 non-polymer

description	NITRATE ION
formula_weight	62.0 kDa
src_method	syn
entity_count	1

Entity 10 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	284

▶

6. Citations (1)

▶

length_a	105.920 Å
length_b	105.920 Å
length_c	303.450 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 43 21 2
int_tables_number	96
crystal_system	—

resolution	2.450 Å
resolution_low	86.850 Å
r_factor	0.1996
r_work	0.1978
r_free	0.2349

fit	/app/data/saxs_computation/vm/9vm1/9vm1.fit
pddf	/app/data/pr_computation/vm/9vm1/9vm1.pr.out
profile	/app/data/saxs_computation/vm/9vm1/9vm1.dat

MVM NS2 mutant Nm42 in complex with CRM1-Ran-RanBP1

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 (10)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 non-polymer

Entity 6 non-polymer

Entity 7 non-polymer

Entity 8 non-polymer

Entity 9 non-polymer

Entity 10 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)