MolNFT v1 · #177491 · protein

Prawn ferritin to coordinate with heavy metal ions

7EK4: “Prawn ferritin to coordinate with heavy metal ions”. X-ray diffraction, 2 ligands (HG, FE), 11 pockets (best druggability 0.79). MolNFT v1 #177491 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7EK4
Type: protein
Length: 1,008 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ferritin
EC: 1.16.3.1
UniProt: T2B7E1
Ligands: HG, FE
Pockets: 11 · best druggability 0.79

Structure

x-ray diffraction · 1 distinct chain · 73% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Ferritin (EC 1.16.3.1)	protein	168	73% helix, 1% strand	T2B7E1

Ligands and binding sites

HG · Mercury (II) ion · metal · 6 copies · chains A, B, C, D, E, F
FE · Fe (III) ion · metal · 6 copies · chains A, B, C, D, E, F

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

Pockets

11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	718	0.79	0.83	74	empty
2	95	0.77	0.97	16	empty
3	90	0.76	0.97	18	empty
4	95	0.76	0.97	17	empty
5	73	0.61	0.90	25	empty

Interfaces

9 interfaces between chains.

E–F · 1429 Å² buried · 24 hydrogen bonds · protein-protein
A–B · 1406 Å² buried · 25 hydrogen bonds · protein-protein
C–D · 1375 Å² buried · 22 hydrogen bonds · protein-protein
B–C · 772 Å² buried · 8 hydrogen bonds · protein-protein
B–D · 551 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

7EK4 · prawn ferritin to coordinate with heavy metal ions · 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 T2B7E1
Elsewhere: RCSB PDB 7EK4 · PDBe 7EK4 · UniProt T2B7E1

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