8r7g

Crystal structure of the kinase domain of ACVR1 (ALK2) with M4K2234

Method: X-RAY DIFFRACTION Dmax: 104.6 Å Quality: EXCELLENT

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

Activin receptor type I

Homo sapiens

UniProt Q04771

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 201–499 Not recorded YEE 2-fluoranyl-6-methoxy-4-[4-methyl-5-[4-(4-propan-2-ylpiperazin-1-yl)phenyl]pyridin-3-yl]benzamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 4.2;277 K;5% PEG1000, 40% ethanol, 0.1M citrate pH 4.2 Resolution 2.09 Å R-free 0.253
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 201–499 Not recorded YEE 2-fluoranyl-6-methoxy-4-[4-methyl-5-[4-(4-propan-2-ylpiperazin-1-yl)phenyl]pyridin-3-yl]benzamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 4.2;277 K;5% PEG1000, 40% ethanol, 0.1M citrate pH 4.2 Resolution 2.09 Å R-free 0.253
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain C; UniProt 201–499 Not recorded YEE 2-fluoranyl-6-methoxy-4-[4-methyl-5-[4-(4-propan-2-ylpiperazin-1-yl)phenyl]pyridin-3-yl]benzamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 4.2;277 K;5% PEG1000, 40% ethanol, 0.1M citrate pH 4.2 Resolution 2.09 Å R-free 0.253
4 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain D; UniProt 201–499 Not recorded YEE 2-fluoranyl-6-methoxy-4-[4-methyl-5-[4-(4-propan-2-ylpiperazin-1-yl)phenyl]pyridin-3-yl]benzamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 4.2;277 K;5% PEG1000, 40% ethanol, 0.1M citrate pH 4.2 Resolution 2.09 Å R-free 0.253

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.

84 other PDB entries and 139 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ACVR1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 3–301; UniProt 201–499 Author chain B; PDBConstruct 3–301; UniProt 201–499 Author chain C; PDBConstruct 3–301; UniProt 201–499 Author chain D; PDBConstruct 3–301; UniProt 201–499

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 8r7g

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8r7g
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id8r7g
Deposition date deposition_date2023-11-24
Structure title titleCrystal structure of the kinase domain of ACVR1 (ALK2) with M4K2234
Keywords keywordsALK2, ACVR1, kinase, inhibitor, M4K2234, SIGNALING PROTEIN; SIGNALING PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier34.04
Radius of gyration Rg (electron density) rg_electron33.15
Forward intensity I(0) i0247160000.00
Molecular weight molecular_weight126250.0 kDa
Excluded volume excluded_volume157860 ų
Envelope volume envelope_volume207670 ų
Hydration-shell volume shell_volume51378 ų
Envelope diameter envelope_diameter112.5
Shell Rg shell_rg40.63
Envelope Rg envelope_rg32.61
Shape Rg shape_rg33.16
Total Rg total_rg33.72
Total atoms total_atoms8904
Residues n_residues1157
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 dmax104.6
Rg (real space) rg_real33.85
Rg uncertainty (real space) rg_real_error0.73
I(0) (real space) i0_real2.4720e+08
I(0) uncertainty (real space) i0_real_error3.8390e+06
Rg (reciprocal space) rg_reciprocal33.97
I(0) (reciprocal space) i0_reciprocal247200000.0000
Solution quality estimate total_estimate0.9033
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary46.7
Skewness Skewness skewness0.099
Kurtosis Kurtosis kurtosis-0.485
Angular range angular_range— – 0.2350 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha43080000.0000
Real-space data points n_real_points48
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.926; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.988; Smooth: 0.976

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

8. Citations (1)

9. Files and Curves (10)