MolNFT v1 · #185287 · protein
Prodomain bound BMP10 crystal form 2
7POJ · Bone morphogenetic protein 10: “Prodomain bound BMP10 crystal form 2”. X-ray diffraction, 1 ligand (NAG), 5 pockets (best druggability 0.53). MolNFT v1 #185287 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7POJ
- Type
- protein
- Length
- 481 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bone morphogenetic protein 10
- UniProt
- O95393
- Ligands
- NAG
- Pockets
- 5 · best druggability 0.53
Structure
x-ray diffraction · 3 distinct chains · 16% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Bone morphogenetic protein 10 | protein | 104 | 14% helix, 48% strand | O95393 |
| C | Bone morphogenetic protein 10 | protein | 140 | 18% helix, 44% strand | O95393 |
| D | Bone morphogenetic protein 10 | protein | 133 | 17% helix, 45% strand | O95393 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains B, C, D
- PG4 · Tetraethylene glycol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 225 | 0.53 | 0.77 | 28 | empty |
| 2 | 128 | 0.43 | 0.76 | 20 | empty |
| 3 | 117 | 0.42 | 0.76 | 31 | empty |
| 4 | 59 | 0.34 | 0.77 | 13 | empty |
| 5 | 66 | 0.31 | 0.74 | 12 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1508 Ų buried · 14 hydrogen bonds · protein-protein
- A–D · 694 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 658 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
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
- Elsewhere: RCSB PDB 7POJ · PDBe 7POJ · UniProt O95393
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