Research workbench
Crystal structure of the BMP7/ACTRII extracellular domain complex
Analyse Crystal structure of the BMP7/ACTRII extracellular domain complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1LX5
- Type
- protein
- Length
- 198 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bone morphogenetic protein 7; Activin type II receptor
- UniProt
- P18075, P27038
- Ligands
- NAG, BMA, MAN
- Pockets
- 3 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 16% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bone morphogenetic protein 7 | protein | 104 | 18% helix, 45% strand | P18075 |
| B | Activin type II receptor | protein | 94 | 14% helix, 41% strand | P27038 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · 2 copies
- MAN · alpha-D-mannopyranose · sugar · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 204 | 0.60 | 0.81 | 33 | empty |
| 2 | 78 | 0.44 | 0.80 | 21 | empty |
| 3 | 76 | 0.35 | 0.76 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 776 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 1LX5 · Crystal Structure of the BMP7/ActRII Extracellular Domain Complex · the same entry in another collection · chain A against A, TM-score 1.00
- P27038 · AlphaFold monomer V2.0 prediction for activin receptor type-2A (P27038) · a predicted model of the same protein · chain B against A, TM-score 0.93
- P18075 · AlphaFold monomer V2.0 prediction for bone morphogenetic protein 7 (P18075) · a predicted model of the same protein · chain A against A, TM-score 0.92
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 P18075
- Every structure of UniProt P27038
- Elsewhere: RCSB PDB 1LX5 · PDBe 1LX5 · UniProt P18075 · UniProt P27038
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