Research workbench
VPS13 adaptor binding domain in complex with MCP1 pxp motif peptide
Analyse VPS13 adaptor binding domain in complex with MCP1 pxp motif peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7U8T
- Type
- protein
- Length
- 1,145 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MCP1 pxp MOTIF,PUTATIVE vacuolar protein sorting-associated protein
- UniProt
- G0S0T5, G0S3B8
- Pockets
- 12 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 3% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MCP1 pxp MOTIF,PUTATIVE vacuolar protein sorting-associated protein | protein | 540 | 3% helix, 49% strand | G0S0T5, G0S3B8 |
| B | MCP1 pxp MOTIF,PUTATIVE vacuolar protein sorting-associated protein | protein | 605 | 2% helix, 50% strand | G0S3B8 |
Pockets
12 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 888 | 0.72 | 0.77 | 90 | empty |
| 2 | 61 | 0.61 | 0.92 | 23 | empty |
| 3 | 138 | 0.56 | 0.82 | 30 | empty |
| 4 | 149 | 0.50 | 0.78 | 22 | empty |
| 5 | 106 | 0.49 | 0.81 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 1037 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 7U8T · Vps13 adaptor binding domain in complex with Mcp1 PxP motif peptide · the same entry in another collection · chain A against A, TM-score 1.00
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 G0S0T5
- Every structure of UniProt G0S3B8
- Elsewhere: RCSB PDB 7U8T · PDBe 7U8T · UniProt G0S0T5 · UniProt G0S3B8
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