Research workbench
Crystal structure of the complex of bmp-2 and the first von willebrand domain type C of crossveinless-2
Analyse Crystal structure of the complex of bmp-2 and the first von willebrand domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3BK3
- Type
- protein
- Length
- 342 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bone morphogenetic protein 2; Crossveinless 2
- UniProt
- P12643, Q5D734
- Pockets
- 2 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Bone morphogenetic protein 2 | protein | 104 | 15% helix, 46% strand | P12643 |
| C, D | Crossveinless 2 | protein | 67 | 0% helix, 30% strand | Q5D734 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 172 | 0.48 | 0.76 | 30 | empty |
| 2 | 55 | 0.30 | 0.76 | 15 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1229 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 739 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 724 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 166 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 161 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 17 disulfide (disulfide).
Compared structures
- 3BK3 · Crystal structure of the complex of BMP-2 and the first Von Willebrand domain type C of… · the same entry in another collection · chain A against A, TM-score 1.00
- P12643 · AlphaFold monomer V2.0 prediction for bone morphogenetic protein 2 (P12643) · a predicted model of the same protein · chain B against A, TM-score 0.90
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 P12643
- Every structure of UniProt Q5D734
- Elsewhere: RCSB PDB 3BK3 · PDBe 3BK3 · UniProt P12643 · UniProt Q5D734
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