MolNFT v2 · #160005 · protein
S. pombe ubiquitin E1~ubiquitin-AMP tetrahedral intermediate mimic
6O83: “S. pombe ubiquitin E1~ubiquitin-AMP tetrahedral intermediate mimic”. X-ray diffraction at 3.153, 2 ligands (VMX, CA). MolNFT v2 #160005 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6O83
- Type
- protein
- Length
- 2,059 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.153
- Source
- Schizosaccharomyces pombe (strain 972 / ATCC 24843)
- UniProt
- O94609, P0CH07
- Ligands
- VMX, CA
Structure
x-ray diffraction · resolution 3.153 · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 954 | — | O94609 |
| B, D | — | protein | 75 | — | P0CH07 |
| C | — | protein | 955 | — | O94609 |
Ligands and binding sites
- VMX · 5'-{[(3-aminopropyl)sulfonyl]amino}-5'-deoxyadenosine · ligand · 2 copies · chains A, B, C, D
- CA · Calcium ion · metal · 2 copies · chains A, C
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 11 copies · chains A, C, D
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6O83 · S. pombe ubiquitin E1~UBIQUITIN-AMP tetrahedral intermediate mimic · 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 O94609
- Every structure of UniProt P0CH07
- Elsewhere: RCSB PDB 6O83 · PDBe 6O83 · UniProt O94609 · UniProt P0CH07
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