MolNFT v1 · #14176 · protein
Crystal structure of the von willebrand factor binding domain of glycoprotein ib alpha
1M0Z: “Crystal structure of the von willebrand factor binding domain of glycoprotein ib alpha”. X-ray diffraction, 4 pockets (best druggability 0.38). MolNFT v1 #14176 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1M0Z
- Type
- protein
- Length
- 525 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycoprotein ib alpha
- UniProt
- P07359
- Pockets
- 4 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycoprotein ib alpha | protein | 259 | 10% helix, 16% strand | P07359 |
| B | Glycoprotein ib alpha | protein | 266 | 11% helix, 17% strand | P07359 |
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 118 | 0.38 | 0.74 | 21 | empty |
| 2 | 111 | 0.36 | 0.73 | 23 | empty |
| 3 | 88 | 0.34 | 0.74 | 20 | empty |
| 4 | 50 | 0.28 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 536 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1M0Z · Crystal Structure of the von Willebrand Factor Binding Domain of Glycoprotein Ib alpha · the same entry in another collection · chain A against A, TM-score 1.00
- P07359 · AlphaFold monomer V2.0 prediction for platelet glycoprotein ib alpha chain (P07359) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P07359
- Elsewhere: RCSB PDB 1M0Z · PDBe 1M0Z · UniProt P07359
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