Research workbench
Crystal structure of chaetomium thermophilum NUP170 ctd Y905M L1007M L1183M V1292M mutant
Analyse Crystal structure of chaetomium thermophilum NUP170 ctd Y905M L1007M L1183M… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5HAY
- Type
- protein
- Length
- 1,076 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoporin NUP170
- UniProt
- G0S7B6
- Ligands
- NA
- Pockets
- 13 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 73% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleoporin NUP170 | protein | 559 | 72% helix, 1% strand | G0S7B6 |
| B | Nucleoporin NUP170 | protein | 517 | 75% helix, 0% strand | G0S7B6 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 367 | 0.77 | 0.87 | 50 | empty |
| 2 | 446 | 0.75 | 0.84 | 63 | empty |
| 3 | 461 | 0.72 | 0.82 | 57 | empty |
| 4 | 192 | 0.62 | 0.83 | 29 | empty |
| 5 | 212 | 0.61 | 0.82 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 2074 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 22 modified (engineered).
Compared structures
- 5HAY · Crystal structure of Chaetomium thermophilum Nup170 CTD Y905M L1007M L1183M V1292M mutant · the same entry in another collection · chain A against A, TM-score 1.00
- G0S7B6 · AlphaFold monomer V2.0 prediction for nucleoporin NUP170 (G0S7B6) · a predicted model of the same protein · chain B against A, TM-score 0.85
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 G0S7B6
- Elsewhere: RCSB PDB 5HAY · PDBe 5HAY · UniProt G0S7B6
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