MolNFT v1 · #185305 · protein
High resolution structure of bone morphogenetic protein receptor type II (bmprii) extracellular domain in complex with BMP10
7PPA · Bone morphogenetic protein 10: “High resolution structure of bone morphogenetic protein receptor type II (bmprii) extracellular domain in…”. X-ray diffraction, 5 pockets (best druggability 0.55). MolNFT v1 #185305 on GenesisL1: 3D…
- PDB
- 7PPA
- Type
- protein
- Length
- 412 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bone morphogenetic protein 10; Bone morphogenetic protein receptor type-2
- EC
- 2.7.11.30
- UniProt
- O95393, Q13873
- Pockets
- 5 · best druggability 0.55
Structure
x-ray diffraction · 4 distinct chains · 14% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bone morphogenetic protein 10 | protein | 104 | 18% helix, 48% strand | O95393 |
| B | Bone morphogenetic protein 10 | protein | 105 | 18% helix, 48% strand | O95393 |
| C | Bone morphogenetic protein receptor type-2 (EC 2.7.11.30) | protein | 105 | 10% helix, 36% strand | Q13873 |
| D | Bone morphogenetic protein receptor type-2 (EC 2.7.11.30) | protein | 98 | 10% helix, 37% strand | Q13873 |
Ligands and binding sites
- GOL · Glycerol · additive · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 57 | 0.55 | 0.89 | 23 | empty |
| 2 | 106 | 0.53 | 0.83 | 23 | empty |
| 3 | 117 | 0.39 | 0.75 | 29 | empty |
| 4 | 100 | 0.38 | 0.75 | 22 | empty |
| 5 | 68 | 0.31 | 0.74 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1487 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 948 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 788 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 17 disulfide (disulfide).
Compared structures
- 7PPA · High resolution structure of bone morphogenetic protein receptor type II (BMPRII)… · the same entry in another collection · chain D against D, TM-score 1.00
- O95393 · AlphaFold monomer V2.0 prediction for bone morphogenetic protein 10 (O95393) · a predicted model of the same protein · chain A against A, TM-score 0.97
- Q13873 · AlphaFold monomer V2.0 prediction for bone morphogenetic protein receptor type-2 (Q13873) · a predicted model of the same protein · chain D against A, TM-score 0.86
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt O95393
- Every structure of UniProt Q13873
- Elsewhere: RCSB PDB 7PPA · PDBe 7PPA · UniProt O95393 · UniProt Q13873
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