MolNFT v1 · #29036 · protein
H-METAP2 complexed with A849519
1YW9 · Methionine aminopeptidase 2: “H-METAP2 complexed with A849519”. X-ray diffraction, 2 ligands (A84, MN), 3 pockets (best druggability 0.68). MolNFT v1 #29036 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1YW9
- Type
- protein
- Length
- 369 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methionine aminopeptidase 2
- EC
- 3.4.11.18
- UniProt
- P50579
- Ligands
- A84, MN
- Pockets
- 3 · best druggability 0.68
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Methionine aminopeptidase 2 (EC 3.4.11.18) | protein | 369 | 31% helix, 25% strand | P50579 |
Ligands and binding sites
- A84 · 2-[({2-[(1Z)-3-(dimethylamino)prop-1-enyl]-4-fluorophenyl}sulfonyl)amino]-5,6,7,8-tetrahydronaphthalene-1-carboxylic acid · ligand · chains A
- MN · Manganese (II) ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 283 | 0.68 | 0.83 | 43 | A84 |
| 2 | 61 | 0.50 | 0.86 | 15 | empty |
| 3 | 120 | 0.40 | 0.75 | 20 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
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 P50579
- Elsewhere: RCSB PDB 1YW9 · PDBe 1YW9 · UniProt P50579
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