MolNFT v1 · #186676 · protein
Antibody 2F2 in complex with P. vivax csp peptide gdradgqpagdraagqpa
7RLX · 2F2 Fab light chain: “Antibody 2F2 in complex with P. vivax csp peptide gdradgqpagdraagqpa”. X-ray diffraction, 4 pockets (best druggability 0.61). MolNFT v1 #186676 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7RLX
- Type
- protein
- Length
- 450 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2F2 Fab light chain; 2F2 Fab heavy chain; Peptide from circumsporozoite protein variant…
- UniProt
- P08677
- Pockets
- 4 · best druggability 0.61
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | 2F2 Fab light chain | protein | 218 | 6% helix, 51% strand | — |
| A | 2F2 Fab heavy chain | protein | 221 | 10% helix, 53% strand | — |
| P | Peptide from circumsporozoite protein variant VK210 | protein | 11 | 27% helix, 0% strand | P08677 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 526 | 0.61 | 0.74 | 71 | empty |
| 2 | 72 | 0.49 | 0.85 | 22 | empty |
| 3 | 129 | 0.45 | 0.77 | 26 | empty |
| 4 | 52 | 0.31 | 0.77 | 19 | empty |
Interfaces
3 interfaces between chains.
- B–A · 2030 Ų buried · 19 hydrogen bonds · protein-protein
- A–P · 507 Ų buried · 6 hydrogen bonds · protein-protein
- B–P · 303 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7RLX · Antibody 2F2 in complex with P. vivax CSP peptide GDRADGQPAGDRAAGQPA · the same entry in another collection · chain B against B, TM-score 1.00
- P08677 · AlphaFold monomer V2.0 prediction for circumsporozoite protein (P08677) · a predicted model of the same protein · chain P against A, TM-score 0.32
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 P08677
- Elsewhere: RCSB PDB 7RLX · PDBe 7RLX · UniProt P08677
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.