MolNFT v1 · #171516 · protein
Porcine insulin in complex with the analytical antibody oxi-005 Fab
6Z7Z · Oxi-005 Fab light chain: “Porcine insulin in complex with the analytical antibody oxi-005 Fab”. X-ray diffraction, 1 ligand (MG), 11 pockets (best druggability 0.54). MolNFT v1 #171516 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6Z7Z
- Type
- protein
- Length
- 949 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oxi-005 Fab light chain; Oxi-005 Fab heavy chain; Insulin
- UniProt
- P01315
- Ligands
- MG
- Pockets
- 11 · best druggability 0.54
Structure
x-ray diffraction · 6 distinct chains · 10% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Oxi-005 Fab light chain | protein | 211 | 7% helix, 50% strand | — |
| B | Oxi-005 Fab heavy chain | protein | 210 | 7% helix, 53% strand | — |
| D | Oxi-005 Fab heavy chain | protein | 218 | 6% helix, 50% strand | — |
| E, G | Insulin | protein | 21 | 43% helix, 5% strand | P01315 |
| F | Insulin | protein | 29 | 41% helix, 3% strand | P01315 |
| H | Insulin | protein | 28 | 43% helix, 4% strand | P01315 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains F, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 92 | 0.54 | 0.85 | 22 | empty |
| 2 | 233 | 0.52 | 0.76 | 36 | empty |
| 3 | 256 | 0.52 | 0.75 | 40 | empty |
| 4 | 160 | 0.47 | 0.77 | 28 | empty |
| 5 | 76 | 0.42 | 0.80 | 29 | empty |
Interfaces
13 interfaces between chains.
- C–D · 1916 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1707 Ų buried · 16 hydrogen bonds · protein-protein
- G–H · 753 Ų buried · 12 hydrogen bonds · protein-protein
- E–F · 741 Ų buried · 11 hydrogen bonds · protein-protein
- D–F · 405 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 14 disulfide (disulfide).
Compared structures
- 6Z7Z · Porcine insulin in complex with the analytical antibody OXI-005 Fab · the same entry in another collection · chain G against G, 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 P01315
- Elsewhere: RCSB PDB 6Z7Z · PDBe 6Z7Z · UniProt P01315
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