SMTL ID : 4ibu.1

Human p53 core domain with hot spot mutation R273C and second-site suppressor mutation T284R in sequence-specific complex with DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.83, H.86, C.145, C.149 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.83, A:H.86, A:C.145, A:C.149 ZN.7: 4 residues within 4Å: Chain B: C.83, H.86, C.145, C.149 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.83, B:H.86, B:C.145, B:C.149 ZN.12: 4 residues within 4Å: Chain C: C.83, H.86, C.145, C.149 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.83, C:H.86, C:C.145, C:C.149 ZN.16: 4 residues within 4Å: Chain D: C.83, H.86, C.145, C.149 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.83, D:H.86, D:C.145, D:C.149

16 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 2 residues within 4Å: Chain A: K.27, R.187 Ligand excluded by PLIP EDO.3: 9 residues within 4Å: Chain A: K.39, S.147, R.155, R.156, P.157, I.158, E.178, V.179, C.180 Ligand excluded by PLIP EDO.4: 3 residues within 4Å: Chain A: L.37, N.38, E.178 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain A: L.44, A.45, D.91, M.144 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: L.113, D.114, D.115, R.116 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain B: L.21, P.49, T.138, H.140 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain B: A.45, D.91, M.144 Ligand excluded by PLIP EDO.10: 3 residues within 4Å: Chain B: S.92, D.93 Ligands: ACT.11 Ligand excluded by PLIP EDO.13: 4 residues within 4Å: Chain C: L.21, P.49, T.138, H.140 Ligand excluded by PLIP EDO.14: 6 residues within 4Å: Chain C: L.37, K.39, K.71, E.178, E.192 Ligands: EDO.15 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain C: L.37, N.38, K.71, E.178 Ligands: EDO.14 Ligand excluded by PLIP EDO.17: 4 residues within 4Å: Chain D: A.45, K.46, T.47, E.105 Ligand excluded by PLIP EDO.18: 3 residues within 4Å: Chain D: R.63, E.111, P.126 Ligand excluded by PLIP EDO.19: 3 residues within 4Å: Chain D: P.97, Y.112, D.114 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain D: L.21, P.49, T.138, H.140 Ligand excluded by PLIP EDO.21: 2 residues within 4Å: Chain D: L.108, R.109 Ligand excluded by PLIP

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.11: 4 residues within 4Å: Chain B: S.90, D.91, S.92 Ligands: EDO.10 No protein-ligand interaction detected (PLIP) ACT.22: 3 residues within 4Å: Chain C: A.26, K.27 Chain H: G.2 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.27 Water bridges: C:T.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eldar, A. et al., Structural studies of p53 inactivation by DNA-contact mutations and its rescue by suppressor mutations via alternative protein-DNA interactions. Nucleic Acids Res. (2013)

Release Date

2013-08-14

Peptides

Cellular tumor antigen p53: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Cellular tumor antigen p53

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