Research workbench
Crystal structure of the complex of the wild-type von willebrand factor A1 domain and glycoprotein ib alpha at 2.6 ångström resolution
Analyse Crystal structure of the complex of the wild-type von willebrand factor A1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1SQ0
- Type
- protein
- Length
- 463 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Von willebrand factor (vwf) [contains: von willebrand antigen II]; Platelet glycoprotein…
- UniProt
- P04275, P07359
- Pockets
- 3 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Von willebrand factor (vwf) [contains: von willebrand antigen II] | protein | 198 | 37% helix, 22% strand | P04275 |
| B | Platelet glycoprotein ib alpha chain (glycoprotein ibalpha) (gp-ib alpha) (gpiba) (gpib-alpha) (CD42B-alpha) (CD42B) [contains: glycocalicin] | protein | 265 | 8% helix, 21% strand | P07359 |
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 | 1110 | 0.81 | 0.82 | 89 | empty |
| 2 | 92 | 0.41 | 0.78 | 18 | empty |
| 3 | 65 | 0.26 | 0.72 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1157 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 1SQ0 · Crystal Structure of the Complex of the Wild-type Von Willebrand Factor A1 domain and… · 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 B against A, TM-score 0.96
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 P04275
- Every structure of UniProt P07359
- Elsewhere: RCSB PDB 1SQ0 · PDBe 1SQ0 · UniProt P04275 · UniProt P07359
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