Research workbench
Crystal structure of S. cerevisiae GET3 in the open state in complex with GET1 cytosolic domain
Analyse Crystal structure of S. cerevisiae GET3 in the open state in complex with GET1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3SJA
- Type
- protein
- Length
- 2,002 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATPase GET3; Golgi to er traffic protein 1
- EC
- 3.6.-.-
- UniProt
- Q12154, P53192
- Ligands
- ZN, PO4
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 5 distinct chains · 54% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATPase GET3 (EC 3.6.-.-) | protein | 338 | 55% helix, 13% strand | Q12154 |
| B, F | ATPase GET3 (EC 3.6.-.-) | protein | 341 | 52% helix, 13% strand | Q12154 |
| C, D, G, H, J | Golgi to er traffic protein 1 | protein | 61 | 77% helix, 0% strand | P53192 |
| E | ATPase GET3 (EC 3.6.-.-) | protein | 338 | 52% helix, 13% strand | Q12154 |
| I | ATPase GET3 (EC 3.6.-.-) | protein | 339 | 55% helix, 13% strand | Q12154 |
Ligands and binding sites
- ZN · Zinc ion · metal · 3 copies · chains A, B, E, F, I
- PO4 · Phosphate ion · ion · 7 copies · chains A, B, C, D, E, G, F, H, I
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1118 | 0.82 | 0.83 | 99 | PO4 |
| 2 | 965 | 0.81 | 0.82 | 82 | empty |
| 3 | 1032 | 0.80 | 0.82 | 86 | empty |
| 4 | 582 | 0.78 | 0.84 | 50 | PO4 |
| 5 | 883 | 0.78 | 0.80 | 75 | empty |
Interfaces
15 interfaces between chains.
- E–F · 1184 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 1076 Ų buried · 12 hydrogen bonds · protein-protein
- F–G · 549 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 537 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 529 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3SJA · Crystal structure of S. cerevisiae Get3 in the open state in complex with Get1 cytosolic… · the same entry in another collection · chain J against J, TM-score 1.00
- P53192 · AlphaFold monomer V2.0 prediction for golgi to er traffic protein 1 (P53192) · a predicted model of the same protein · chain H against A, TM-score 0.90
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 Q12154
- Every structure of UniProt P53192
- Elsewhere: RCSB PDB 3SJA · PDBe 3SJA · UniProt Q12154 · UniProt P53192
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