MolNFT v1 · #119102 · protein
Cryo-EM structure of gamma-tusc oligomers in a closed conformation
5FLZ · Spindle pole body component SPC97: “Cryo-EM structure of gamma-tusc oligomers in a closed conformation”. Electron microscopy, 20 pockets (best druggability 0.89). MolNFT v1 #119102 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5FLZ
- Type
- protein
- Length
- 2,118 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spindle pole body component SPC97; Spindle pole body component SPC98; Tubulin gamma…
- UniProt
- P38863, P53540, P53378
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 4 distinct chains · 65% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Spindle pole body component SPC97 | protein | 575 | 73% helix, 3% strand | P38863 |
| B | Spindle pole body component SPC98 | protein | 565 | 72% helix, 3% strand | P53540 |
| C, D | Tubulin gamma chain | protein | 445 | 45% helix, 17% strand | P53378 |
| E, F | Spindle pole body component 110 | protein | 44 | 95% helix, 0% strand | — |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1090 | 0.89 | 0.91 | 122 | empty |
| 2 | 909 | 0.86 | 0.88 | 88 | empty |
| 3 | 728 | 0.84 | 0.86 | 79 | empty |
| 4 | 907 | 0.83 | 0.84 | 69 | empty |
| 5 | 971 | 0.83 | 0.83 | 82 | empty |
Interfaces
7 interfaces between chains.
- B–D · 2076 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 1753 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1030 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 400 Ų buried · 5 hydrogen bonds · protein-protein
- E–F · 201 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- P53378 · AlphaFold monomer V2.0 prediction for tubulin gamma chain (P53378) · a predicted model of the same protein · chain C against A, TM-score 0.93
- P53540 · AlphaFold monomer V2.0 prediction for spindle pole body component SPC98 (P53540) · a predicted model of the same protein · chain B against A, TM-score 0.88
- P38863 · AlphaFold monomer V2.0 prediction for spindle pole body component SPC97 (P38863) · a predicted model of the same protein · chain A against A, TM-score 0.87
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 P38863
- Every structure of UniProt P53540
- Every structure of UniProt P53378
- Elsewhere: RCSB PDB 5FLZ · PDBe 5FLZ · UniProt P38863 · UniProt P53540 · UniProt P53378
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