Research workbench
Mn substituted E. COLI aminopeptidase P in complex with product and zn
Analyse Mn substituted E. COLI aminopeptidase P in complex with product and zn in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2BN7
- Type
- protein
- Length
- 442 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Xaa-pro aminopeptidase
- EC
- 3.4.11.9
- UniProt
- P15034
- Ligands
- MN, MG, ZN
- Pockets
- 4 · best druggability 0.45
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Xaa-pro aminopeptidase (EC 3.4.11.9) | protein | 442 | 40% helix, 19% strand | P15034 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 2 copies · chains A
- MG · Magnesium ion · metal · chains A
- ZN · Zinc ion · metal · chains A
- FLC · Citrate anion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 128 | 0.45 | 0.77 | 19 | empty |
| 2 | 73 | 0.33 | 0.75 | 15 | empty |
| 3 | 60 | 0.30 | 0.74 | 15 | empty |
| 4 | 51 | 0.28 | 0.75 | 13 | empty |
Compared structures
- 2BN7 · Mn substituted E. coli Aminopeptidase P in complex with product and Zn · the same entry in another collection · chain A against A, TM-score 1.00
- P15034 · AlphaFold monomer V2.0 prediction for xaa-pro aminopeptidase (P15034) · a predicted model of the same protein · chain A 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 P15034
- Elsewhere: RCSB PDB 2BN7 · PDBe 2BN7 · UniProt P15034
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