Research workbench
Mycobacterium tuberculosis methionine aminopeptidase type 1C (C105N mutant) in complex with methionine
Analyse Mycobacterium tuberculosis methionine aminopeptidase type 1C (C105N mutant) in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YPD
- Type
- protein
- Length
- 282 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methionine aminopeptidase
- EC
- 3.4.11.18
- UniProt
- A5U6L5
- Ligands
- MET, CO, NA, CL
- Pockets
- 3 · best druggability 0.55
Structure
x-ray diffraction · 1 distinct chain · 26% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Methionine aminopeptidase (EC 3.4.11.18) | protein | 282 | 26% helix, 24% strand | A5U6L5 |
Ligands and binding sites
- MET · Methionine · ligand · chains A
- CO · Cobalt (II) ion · metal · 2 copies · chains A
- NA · Sodium ion · metal · chains A
- CL · Chloride ion · ion · chains A
- GOL · Glycerol · additive · 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 | 55 | 0.55 | 0.89 | 18 | empty |
| 2 | 169 | 0.55 | 0.80 | 29 | MET, GOL |
| 3 | 74 | 0.36 | 0.76 | 17 | empty |
Compared structures
- 5YPD · Mycobacterium Tuberculosis Methionine aminopeptidase type 1c (C105N mutant) in complex… · 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 A5U6L5
- Elsewhere: RCSB PDB 5YPD · PDBe 5YPD · UniProt A5U6L5
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