Research workbench
Crystal structures of the luciferase and green fluorescent protein from renilla reniformis
Analyse Crystal structures of the luciferase and green fluorescent protein from renilla… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2RH7
- Type
- protein
- Length
- 845 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Green fluorescent protein
- UniProt
- Q963I9
- Ligands
- CRO
- Pockets
- 8 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 57% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D | Green fluorescent protein | protein | 211 | 3% helix, 57% strand | Q963I9 |
| B | Green fluorescent protein | protein | 212 | 5% helix, 58% strand | Q963I9 |
Ligands and binding sites
- CRO · {2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1108 | 0.75 | 0.78 | 102 | empty |
| 2 | 68 | 0.74 | 0.99 | 22 | CRO |
| 3 | 64 | 0.72 | 0.98 | 23 | CRO |
| 4 | 86 | 0.37 | 0.76 | 16 | empty |
| 5 | 96 | 0.37 | 0.75 | 19 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1339 Ų buried · 18 hydrogen bonds · protein-protein
- C–D · 1327 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 168 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 162 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 83 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 2RH7 · Crystal Structures of the Luciferase and Green Fluorescent Protein from Renilla Reniformis · 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 Q963I9
- Elsewhere: RCSB PDB 2RH7 · PDBe 2RH7 · UniProt Q963I9
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