MolNFT v1 · #61057 · protein

Structure of the human mdmx protein bound to the P53 tumor suppressor transactivation domain

3DAB · MDM4 protein: “Structure of the human mdmx protein bound to the P53 tumor suppressor transactivation domain”. X-ray diffraction, 3 pockets (best druggability 0.67). MolNFT v1 #61057 on GenesisL1: 3D structure, binding sites and…

PDB: 3DAB
Type: protein
Length: 394 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: MDM4 protein; Cellular tumor antigen P53
UniProt: O15151, P04637
Pockets: 3 · best druggability 0.67

Structure

x-ray diffraction · 6 distinct chains · 46% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, G	MDM4 protein	protein	88	44% helix, 16% strand	O15151
B	Cellular tumor antigen P53	protein	12	50% helix, 0% strand	P04637
C, E	MDM4 protein	protein	86	45% helix, 13% strand	O15151
D	Cellular tumor antigen P53	protein	11	45% helix, 0% strand	P04637
F	Cellular tumor antigen P53	protein	12	50% helix, 0% strand	P04637
H	Cellular tumor antigen P53	protein	11	55% helix, 0% strand	P04637

Pockets

3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	417	0.67	0.80	35	empty
2	427	0.64	0.78	51	empty
3	184	0.52	0.79	33	empty

Interfaces

9 interfaces between chains.

A–B · 595 Å² buried · 5 hydrogen bonds · protein-protein
G–H · 567 Å² buried · 4 hydrogen bonds · protein-protein
E–F · 543 Å² buried · 7 hydrogen bonds · protein-protein
C–D · 486 Å² buried · 2 hydrogen bonds · protein-protein
E–G · 336 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

3DAB · Structure of the human Mdmx protein bound to the p53 tumor suppressor transactivation… · the same entry in another collection · chain H against H, TM-score 1.00
O15151 · AlphaFold monomer V2.0 prediction for protein MDM4 (O15151) · a predicted model of the same protein · chain A against A, TM-score 0.95

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 O15151
Every structure of UniProt P04637
Elsewhere: RCSB PDB 3DAB · PDBe 3DAB · UniProt O15151 · UniProt P04637

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