MolNFT v1 · #125604 · protein
Crystal structures of momp from campylobacter jejuni
5LDT · Momp porin: “Crystal structures of momp from campylobacter jejuni”. X-ray diffraction, 1 ligand (CA), 13 pockets (best druggability 0.89). MolNFT v1 #125604 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LDT
- Type
- protein
- Length
- 1,209 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Momp porin
- UniProt
- Q659I5
- Ligands
- CA
- Pockets
- 13 · best druggability 0.89
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 61% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Momp porin | protein | 403 | 7% helix, 61% strand | Q659I5 |
Ligands and binding sites
- CA · Calcium ion · metal · 6 copies · chains A, B, C
- C8E · (hydroxyethyloxy)tri(ethyloxy)octane · additive · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1062 | 0.89 | 0.90 | 110 | C8E |
| 2 | 842 | 0.68 | 0.75 | 65 | empty |
| 3 | 815 | 0.68 | 0.75 | 65 | empty |
| 4 | 854 | 0.68 | 0.75 | 69 | empty |
| 5 | 200 | 0.52 | 0.78 | 43 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1297 Ų buried · 23 hydrogen bonds · protein-protein
- A–B · 1274 Ų buried · 24 hydrogen bonds · protein-protein
- A–C · 1251 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 5LDT · Crystal Structures of MOMP from Campylobacter jejuni · 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 Q659I5
- Elsewhere: RCSB PDB 5LDT · PDBe 5LDT · UniProt Q659I5
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