MolNFT v1 · #146543 · protein

DHD131

6DKM · DHD131_A: “DHD131”. X-ray diffraction, 6 pockets (best druggability 0.76). MolNFT v1 #146543 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6DKM
Type: protein
Length: 584 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DHD131_A; DHD131_B
Pockets: 6 · best druggability 0.76

Structure

x-ray diffraction · 8 distinct chains · 89% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	DHD131_A	protein	77	79% helix, 0% strand	—
B	DHD131_B	protein	74	93% helix, 0% strand	—
C	DHD131_A	protein	76	86% helix, 0% strand	—
D	DHD131_B	protein	79	90% helix, 0% strand	—
E	DHD131_A	protein	63	86% helix, 0% strand	—
F	DHD131_B	protein	67	94% helix, 0% strand	—
G	DHD131_A	protein	76	88% helix, 0% strand	—
H	DHD131_B	protein	72	94% helix, 0% strand	—

Pockets

6 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	958	0.76	0.79	72	empty
2	636	0.69	0.78	51	empty
3	118	0.47	0.79	17	empty
4	134	0.44	0.76	26	empty
5	66	0.32	0.74	15	empty

Interfaces

16 interfaces between chains.

C–D · 1628 Å² buried · 15 hydrogen bonds · protein-protein
A–B · 1571 Å² buried · 11 hydrogen bonds · protein-protein
G–H · 1509 Å² buried · 14 hydrogen bonds · protein-protein
E–F · 1268 Å² buried · 11 hydrogen bonds · protein-protein
B–D · 365 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

6DKM · DHD131 · 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 6DKM · PDBe 6DKM

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