MolNFT v2 · #160004 · protein
S. pombe ubiquitin E1 complex with a ubiquitin-AMP mimic
6O82: “S. pombe ubiquitin E1 complex with a ubiquitin-AMP mimic”. X-ray diffraction at 2.604, 4 ligands (POP, JZU, MG). MolNFT v2 #160004 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6O82
- Type
- protein
- Length
- 2,113 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.604
- Source
- Schizosaccharomyces pombe (strain 972 / ATCC 24843)
- UniProt
- O94609, P0CH07
- Ligands
- POP, JZU, MG, SO4
Structure
x-ray diffraction · resolution 2.604 · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 986 | — | O94609 |
| B, D | — | protein | 76 | — | P0CH07 |
| C | — | protein | 975 | — | O94609 |
Ligands and binding sites
- POP · Pyrophosphate 2- · ligand · 3 copies · chains A, C
- JZU · 5'-deoxy-5'-(sulfamoylamino)adenosine · ligand · 2 copies · chains A, B, C, D
- MG · Magnesium ion · metal · 4 copies · chains A, C
- SO4 · Sulfate ion · ion · 7 copies · chains A, C
- EDO · 1,2-ethanediol · additive · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6O82 · S. pombe ubiquitin E1 complex with a ubiquitin-AMP mimic · the same entry in another collection · chain A against A, TM-score 1.00
- O94609 · AlphaFold monomer V2.0 prediction for ubiquitin-activating enzyme E1 1 (O94609) · a predicted model of the same protein · chain C against A, TM-score 0.99
- P0CH07 · AlphaFold monomer V2.0 prediction for ubiquitin-60S ribosomal protein L40 (P0CH07) · a predicted model of the same protein · chain B against A, TM-score 0.91
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 O94609
- Every structure of UniProt P0CH07
- Elsewhere: RCSB PDB 6O82 · PDBe 6O82 · UniProt O94609 · UniProt P0CH07
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