MolNFT v1 · #137242 · protein
Crystal structure of monomeric near-infrared fluorescent protein MIRFP703
5VIK: “Crystal structure of monomeric near-infrared fluorescent protein MIRFP703”. X-ray diffraction, 1 ligand (BLA), 3 pockets (best druggability 0.77). MolNFT v1 #137242 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5VIK
- Type
- protein
- Length
- 296 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Near-infrared fluorescent protein MIRFP703
- Ligands
- BLA
- Pockets
- 3 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 29% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Near-infrared fluorescent protein MIRFP703 | protein | 296 | 29% helix, 28% strand | — |
Ligands and binding sites
- BLA · Biliverdine IX alpha · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 255 | 0.77 | 0.89 | 31 | BLA |
| 2 | 211 | 0.64 | 0.83 | 26 | empty |
| 3 | 82 | 0.36 | 0.76 | 20 | empty |
Modifications
Observed in the structure: 1 cofactor (biliverdin attachment).
Compared structures
- 5VIK · Crystal structure of monomeric near-infrared fluorescent protein miRFP703 · 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
- Elsewhere: RCSB PDB 5VIK · PDBe 5VIK
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