Research workbench
Crystal structure of a methionine aminopeptidase from mycobacterium abscessus
Analyse Crystal structure of a methionine aminopeptidase from mycobacterium abscessus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3TAV
- Type
- protein
- Length
- 528 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methionine aminopeptidase
- EC
- 3.4.11.18
- UniProt
- B1MGB2
- Ligands
- MLT, LMR, MG, NA, CL
- Pockets
- 5 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Methionine aminopeptidase (EC 3.4.11.18) | protein | 264 | 30% helix, 26% strand | B1MGB2 |
Ligands and binding sites
- MLT · D-malate · ligand · chains A
- LMR · (2S)-2-hydroxybutanedioic acid · ligand · chains A
- MG · Magnesium ion · metal · 4 copies · chains A, B
- NA · Sodium ion · metal · 2 copies · chains A, B
- CL · Chloride ion · ion · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1005 | 0.79 | 0.80 | 94 | empty |
| 2 | 132 | 0.56 | 0.82 | 24 | CL |
| 3 | 137 | 0.55 | 0.81 | 22 | LMR |
| 4 | 57 | 0.42 | 0.82 | 18 | empty |
| 5 | 51 | 0.40 | 0.82 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 485 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3TAV · Crystal structure of a Methionine Aminopeptidase from Mycobacterium abscessus · the same entry in another collection · chain B against B, 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 B1MGB2
- Elsewhere: RCSB PDB 3TAV · PDBe 3TAV · UniProt B1MGB2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.