7ppa

High resolution structure of bone morphogenetic protein receptor type II (BMPRII) extracellular domain in complex with BMP10

Method: X-RAY DIFFRACTION Dmax: 108.4 Å Quality: GOOD

1. Protein Identity and Related Structures Protein Identity & Related Structures

Bone morphogenetic protein 10

Homo sapiens

UniProt O95393

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 317–424 Chain B; UniProt 317–424 Not recorded Bone morphogenetic protein receptor type-2 × 2 (Q13873) GOL GLYCEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5.8;294.15 K;14% PEG 3350 0.19 M Ammonium citrate dibasic 0.02 M Sodium citrate tribasic dihydrate Resolution 1.48 Å R-free 0.207

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

7 other PDB entries and 8 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BMP10_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–108; UniProt 317–424 Author chain B; PDBConstruct 1–108; UniProt 317–424

Bone morphogenetic protein receptor type-2

Homo sapiens

UniProt Q13873

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain C; UniProt 27–150 Chain D; UniProt 27–150 Not recorded Bone morphogenetic protein 10 × 2 (O95393) GOL GLYCEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5.8;294.15 K;14% PEG 3350 0.19 M Ammonium citrate dibasic 0.02 M Sodium citrate tribasic dihydrate Resolution 1.48 Å R-free 0.207

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

5 other PDB entries and 10 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BMPR2_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain C; PDBConstruct 2–125; UniProt 27–150 Author chain D; PDBConstruct 2–125; UniProt 27–150

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 7ppa

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7ppa
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7ppa
Deposition date deposition_date2021-09-13
Structure title titleHigh resolution structure of bone morphogenetic protein receptor type II (BMPRII) extracellular domain in complex with BMP10
Keywords keywordsBMPRII BMP10 TGF-beta ligand and receptor Signalling complex, CYTOKINE; CYTOKINE
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier30.03
Radius of gyration Rg (electron density) rg_electron29.71
Forward intensity I(0) i035155600.00
Molecular weight molecular_weight45342.0 kDa
Excluded volume excluded_volume56276 ų
Envelope volume envelope_volume78169 ų
Hydration-shell volume shell_volume23069 ų
Envelope diameter envelope_diameter110.4
Shell Rg shell_rg34.97
Envelope Rg envelope_rg30.20
Shape Rg shape_rg29.74
Total Rg total_rg30.13
Total atoms total_atoms6207
Residues n_residues412
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax108.4
Rg (real space) rg_real30.34
Rg uncertainty (real space) rg_real_error1.09
I(0) (real space) i0_real3.5160e+07
I(0) uncertainty (real space) i0_real_error5.7980e+05
Rg (reciprocal space) rg_reciprocal30.21
I(0) (reciprocal space) i0_reciprocal35150000.0000
Solution quality estimate total_estimate0.7797
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary22.5
Skewness Skewness skewness0.473
Kurtosis Kurtosis kurtosis-0.514
Angular range angular_range— – 0.2650 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4946000.0000
Real-space data points n_real_points54
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.591; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.385; Smooth: 0.977

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

8. Citations (1)

9. Files and Curves (10)