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Crystal Structure of the ZnF4 of Nucleoporin NUP358/RanBP2 in complex with Ran-GDP
Analyse Crystal Structure of the ZnF4 of Nucleoporin NUP358/RanBP2 in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MNS
- Type
- protein
- Length
- 240 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.1
- Source
- Homo sapiens
- Molecule
- GTP-binding nuclear protein Ran; E3 SUMO-protein ligase RanBP2
- UniProt
- P62826, P49792
- Ligands
- GDP, MG, ZN
- Pockets
- 3 · best druggability 0.49
Structure
x-ray diffraction · resolution 2.1 · 2 distinct chains · 26% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GTP-binding nuclear protein Ran | protein | 202 | 31% helix, 27% strand | P62826 |
| B | E3 SUMO-protein ligase RanBP2 | protein | 38 | 0% helix, 16% strand | P49792 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
- ZN · Zinc ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 64 | 0.49 | 0.84 | 16 | empty |
| 2 | 82 | 0.39 | 0.78 | 17 | empty |
| 3 | 50 | 0.30 | 0.76 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 840 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7MNS · Crystal structure of the ZNF4 of nucleoporin NUP358/RANBP2 in complex with ran-GDP · 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 P62826
- Every structure of UniProt P49792
- Elsewhere: RCSB PDB 7MNS · PDBe 7MNS · UniProt P62826 · UniProt P49792
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