Research workbench
Crystal structure of the C30S/C133S mutant of ERV1 from saccharomyces cerevisiae
Analyse Crystal structure of the C30S/C133S mutant of ERV1 from saccharomyces cerevisiae in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4E0I
- Type
- protein
- Length
- 389 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mitochondrial FAD-linked sulfhydryl oxidase ERV1
- EC
- 1.8.3.2
- UniProt
- P27882
- Ligands
- FAD
- Pockets
- 4 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 60% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mitochondrial FAD-linked sulfhydryl oxidase ERV1 (EC 1.8.3.2) | protein | 152 | 54% helix, 4% strand | P27882 |
| B | Mitochondrial FAD-linked sulfhydryl oxidase ERV1 (EC 1.8.3.2) | protein | 119 | 64% helix, 2% strand | P27882 |
| C | Mitochondrial FAD-linked sulfhydryl oxidase ERV1 (EC 1.8.3.2) | protein | 118 | 64% helix, 2% strand | P27882 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 893 | 0.82 | 0.83 | 88 | FAD |
| 2 | 501 | 0.72 | 0.81 | 50 | FAD |
| 3 | 203 | 0.51 | 0.77 | 34 | empty |
| 4 | 104 | 0.41 | 0.76 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2315 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 702 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 191 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4E0I · Crystal structure of the C30S/C133S mutant of Erv1 from Saccharomyces cerevisiae · the same entry in another collection · chain A against A, TM-score 1.00
- P27882 · AlphaFold monomer V2.0 prediction for mitochondrial FAD-linked sulfhydryl oxidase ERV1… · a predicted model of the same protein · chain C against A, TM-score 0.99
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 P27882
- Elsewhere: RCSB PDB 4E0I · PDBe 4E0I · UniProt P27882
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