MolNFT v1 · #110979 · protein
Y-complex hub (NUP85-NUP120-NUP145C-SEC13 complex) from M. thermophila (A.K.A. T. heterothallica)
4YCZ · Fusion protein of SEC13 and NUP145C: “Y-complex hub (NUP85-NUP120-NUP145C-SEC13 complex) from M. thermophila (A.K.A. T. heterothallica)”. X-ray diffraction, 20 pockets (best druggability 0.86). MolNFT v1 #110979 on GenesisL1: 3D…
- PDB
- 4YCZ
- Type
- protein
- Length
- 1,498 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fusion protein of SEC13 and NUP145C; NUP85; NUP120
- UniProt
- G2QES5, G2QEZ2, G2Q7J4, G2Q2S2
- Pockets
- 20 · best druggability 0.86
Structure
x-ray diffraction · 3 distinct chains · 49% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fusion protein of SEC13 and NUP145C | protein | 713 | 35% helix, 18% strand | G2QES5, G2QEZ2 |
| B | NUP85 | protein | 590 | 62% helix, 0% strand | G2Q7J4 |
| C | NUP120 | protein | 195 | 66% helix, 0% strand | G2Q2S2 |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 906 | 0.86 | 0.88 | 76 | empty |
| 2 | 989 | 0.80 | 0.81 | 112 | empty |
| 3 | 970 | 0.80 | 0.81 | 100 | empty |
| 4 | 703 | 0.74 | 0.79 | 66 | empty |
| 5 | 68 | 0.72 | 0.96 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1540 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 675 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 238 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 4YCZ · Y-complex hub (NUP85-NUP120-NUP145C-SEC13 complex) from M. thermophila (A.K.A. T.… · 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 G2QES5
- Every structure of UniProt G2QEZ2
- Every structure of UniProt G2Q7J4
- Every structure of UniProt G2Q2S2
- Elsewhere: RCSB PDB 4YCZ · PDBe 4YCZ · UniProt G2QES5 · UniProt G2QEZ2 · UniProt G2Q7J4 · UniProt G2Q2S2
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