SMTL ID : 7ygi.1

Crystal structure of p53 DBD domain in complex with azurin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 5 residues within 4Å: Chain A: Y.72, K.73, Q.74, H.77, P.159 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.73, A:Q.74, A:Q.74 NA.3: 4 residues within 4Å: Chain B: D.95, V.106, V.112, Y.114 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.106, B:Y.114, B:Y.114

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.85, H.88, C.147, C.151 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.85, A:H.88, A:C.147, A:C.151 ZN.4: 4 residues within 4Å: Chain B: C.85, H.88, C.147, C.151 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.85, B:H.88, B:C.147, B:C.151

2 x K: POTASSIUM ION(Non-covalent)

K.5: 1 residues within 4Å: Chain B: L.20 No protein-ligand interaction detected (PLIP) K.7: 2 residues within 4Å: Chain D: P.34, G.35 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 1 residues within 4Å: Chain D: N.40 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, J. et al., Structural basis of bacterial effector protein azurin targeting tumor suppressor p53 and inhibiting its ubiquitination. Commun Biol (2023)

Release Date

2023-02-08

Peptides

Cellular tumor antigen p53: AB
Azurin: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Cellular tumor antigen p53

Azurin