MolNFT v1 · #175005 · protein

GFP-40/GFPUV complex, form II

7CD8 · Green fluorescent protein: “GFP-40/GFPUV complex, form II”. X-ray diffraction, 1 ligand (CRO), 4 pockets (best druggability 0.74). MolNFT v1 #175005 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7CD8
Type: protein
Length: 327 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Green fluorescent protein; GFP-40
UniProt: P42212
Ligands: CRO
Pockets: 4 · best druggability 0.74

Structure

x-ray diffraction · 2 distinct chains · 14% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Green fluorescent protein	protein	228	12% helix, 52% strand	P42212
A	GFP-40	protein	99	17% helix, 47% strand	—

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 · chains B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	85	0.74	0.97	23	CRO
2	69	0.51	0.85	15	empty
3	52	0.43	0.83	17	empty
4	73	0.31	0.74	12	empty

Interfaces

1 interface between chains.

B–A · 735 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 cofactor (chromophore).

Compared structures

7CD8 · GFP-40/GFPuv complex, Form II · the same entry in another collection · chain B against B, TM-score 1.00
P42212 · AlphaFold monomer V2.0 prediction for green fluorescent protein (P42212) · a predicted model of the same protein · chain B 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 P42212
Elsewhere: RCSB PDB 7CD8 · PDBe 7CD8 · UniProt P42212

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.