Research workbench
Crystal structure of S. cerevisiae GET3 in the open conformation in complex with GET1 cytosolic domain
Analyse Crystal structure of S. cerevisiae GET3 in the open conformation in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3B2E
- Type
- protein
- Length
- 1,534 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATPase GET3; Golgi to er traffic protein 1
- EC
- 3.6.3.16
- UniProt
- P53192
- Ligands
- ADP
- Pockets
- 20 · best druggability 0.88
Structure
x-ray diffraction · 8 distinct chains · 44% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATPase GET3 (EC 3.6.3.16) | protein | 307 | 43% helix, 15% strand | — |
| E | Golgi to er traffic protein 1 | protein | 67 | 52% helix, 0% strand | P53192 |
| B | ATPase GET3 (EC 3.6.3.16) | protein | 325 | 38% helix, 14% strand | — |
| F | Golgi to er traffic protein 1 | protein | 62 | 61% helix, 0% strand | P53192 |
| C | ATPase GET3 (EC 3.6.3.16) | protein | 335 | 41% helix, 13% strand | — |
| G | Golgi to er traffic protein 1 | protein | 67 | 64% helix, 0% strand | P53192 |
| D | ATPase GET3 (EC 3.6.3.16) | protein | 307 | 44% helix, 15% strand | — |
| H | Golgi to er traffic protein 1 | protein | 64 | 55% helix, 0% strand | P53192 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 786 | 0.88 | 0.91 | 119 | ADP |
| 2 | 598 | 0.83 | 0.88 | 69 | ADP |
| 3 | 284 | 0.79 | 0.91 | 41 | empty |
| 4 | 221 | 0.79 | 0.93 | 34 | empty |
| 5 | 222 | 0.76 | 0.90 | 36 | empty |
Interfaces
11 interfaces between chains.
- C–D · 921 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 866 Ų buried · 2 hydrogen bonds · protein-protein
- D–H · 581 Ų buried · 8 hydrogen bonds · protein-protein
- A–E · 576 Ų buried · 6 hydrogen bonds · protein-protein
- B–F · 569 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 3B2E · Crystal structure of S. cerevisiae Get3 in the open conformation in complex with Get1… · the same entry in another collection · chain C against C, 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 0.92
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 P53192
- Elsewhere: RCSB PDB 3B2E · PDBe 3B2E · UniProt P53192
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