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9qpp

CryoEM structure of human MATa2 in complex with MAT2B isoform v1 at 2.6 A resolution

Method: ELECTRON MICROSCOPY D_max: 148.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qpp
deposition_date	2025-03-27
title	CryoEM structure of human MATa2 in complex with MAT2B isoform v1 at 2.6 A resolution
keywords	Methylation, Adomet, SAMe, protein-protein complexes, TRANSFERASE; TRANSFERASE
method	ELECTRON MICROSCOPY

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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	43.74 Å
rg_electron	44.16 Å
i0	611523000.00
molecular_weight	203720.0 kDa
excluded_volume	255230 Å³
envelope_volume	326970 Å³
shell_volume	64270 Å³
envelope_diameter	161.9 Å
shell_rg	46.15 Å
envelope_rg	44.50 Å
shape_rg	44.15 Å
total_rg	44.26 Å
total_atoms	14351
n_residues	1838
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	148.7 Å
rg_real	44.19 Å
rg_real_error	1.65 Å
i0_real	6.1150e+08
i0_real_error	1.2450e+07
rg_reciprocal	43.74 Å
i0_reciprocal	611200000.0000
total_estimate	0.7909
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	41.3 Å
skewness	0.651
kurtosis	-0.075
angular_range	— – 0.1800 Å⁻¹
current_alpha	0.0000
highest_alpha	245300000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.701; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.882; Smooth: 0.292

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	S-adenosylmethionine synthase isoform type-2
formula_weight	43720.6 kDa
ec_number	2.5.1.6
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	B,A,C,D
atom_count	14658

MNGQLNGFHEAFIEEGTFLFTSESVGEGHPDKICDQISDAVLDAHLQQDPDAKVACETVAKTGMILLAGEITSRAAVDYQKVVREAVKHIGYDDSSKGFDYKTCNVLVALEQQSPDIAQGVHLDRNEEDIGAGDQGLMFGYATDETEECMPLTIVLAHKLNAKLAELRRNGTLPWLRPDSKTQVTVQYMQDRGAVLPIRVHTIVISVQHDEEVCLDEMRDALKEKVIKAVVPAKYLDEDTIYHLQPSGRFVIGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDYTKVDRSAAYAARWVAKSLVKGGLCRRVLVQVSYAIGVSHPLSISIFHYGTSQKSERELLEIVKKNFDLRPGVIVRDLDLKKPIYQRTAAYGHFGRDSFPWEVPKKLKY

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 polymer

description	Isoform 1 of Methionine adenosyltransferase 2 subunit beta
formula_weight	37603.8 kDa
mutation	NONE
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	E,F,G

MVGREKELSIHFVPGSCRLVEEEVNIPNRRVLVTGATGLLGRAVHKEFQQNNWHAVGCGFRRARPKFEQVNLLDSNAVHHIIHDFQPHVIVHCAAERRPDVVENQPDAASQLNVDASGNLAKEAAAVGAFLIYISSDYVFDGTNPPYREEDIPAPLNLYGKTKLDGEKAVLENNLGAAVLRIPILYGEVEKLEESAVTVMFDKVQFSNKSANMDHWQQRFPTHVKDVATVCRQLAEKRMLDPSIKGTFHWSGNEQMTKYEMACAIADAFNLPSSHLRPITDSPVLGAQRPRNAQLDCSKLETLGIGQRTPFRIGIKESLWPFLIDKRWRQTVFH

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	173

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.600 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.60 Å
resolution_method	—
num_particles	122584

fit	/app/data/saxs_computation/qp/9qpp/9qpp.fit
pddf	/app/data/pr_computation/qp/9qpp/9qpp.pr.out
profile	/app/data/saxs_computation/qp/9qpp/9qpp.dat

CryoEM structure of human MATa2 in complex with MAT2B isoform v1 at 2.6 A resolution

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

EM 3D

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)