SMTL ID : 4ibw.1

Human p53 core domain with hot spot mutation R273H and second-site suppressor mutation T284R in sequence-specific complex with DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

homo-dimer

Ligands

2 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.19: 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

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

EDO.2: 1 residues within 4Å: Chain A: V.4 Ligand excluded by PLIP EDO.3: 2 residues within 4Å: Chain A: D.115, N.117 Ligand excluded by PLIP EDO.4: 3 residues within 4Å: Chain A: Y.10, L.171, R.174 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain A: R.17, L.18, G.19, W.53 Ligand excluded by PLIP EDO.6: 5 residues within 4Å: Chain A: R.17, W.53, V.54, D.55, D.135 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: L.21, P.49, T.138, H.140 Ligand excluded by PLIP EDO.8: 6 residues within 4Å: Chain A: F.20, L.21, H.22, Y.33, P.35, R.189 Ligand excluded by PLIP EDO.9: 8 residues within 4Å: Chain A: K.39, S.147, R.155, P.157, I.158, E.178, V.179, H.180 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain A: D.93, R.103, V.104, E.105, N.142 Ligand excluded by PLIP EDO.11: 5 residues within 4Å: Chain A: A.45, K.46, T.47, E.105, N.142 Ligand excluded by PLIP EDO.12: 3 residues within 4Å: Chain A: C.136, T.137, T.138 Ligand excluded by PLIP EDO.13: 1 residues within 4Å: Chain A: S.3 Ligand excluded by PLIP EDO.14: 4 residues within 4Å: Chain A: K.27, R.187, R.190 Chain D: G.3 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain A: E.128, T.137, T.138, I.139 Ligand excluded by PLIP EDO.16: 3 residues within 4Å: Chain A: R.190, E.193, E.194 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: R.155 Chain B: T.7, G.8 Ligands: EDO.35, EDO.36 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain B: C.9 Chain C: S.148, N.154, R.155 Ligands: EDO.35 Ligand excluded by PLIP EDO.20: 1 residues within 4Å: Chain C: V.4 Ligand excluded by PLIP EDO.21: 2 residues within 4Å: Chain C: D.115, N.117 Ligand excluded by PLIP EDO.22: 3 residues within 4Å: Chain C: Y.10, L.171, R.174 Ligand excluded by PLIP EDO.23: 4 residues within 4Å: Chain C: R.17, L.18, G.19, W.53 Ligand excluded by PLIP EDO.24: 5 residues within 4Å: Chain C: R.17, W.53, V.54, D.55, D.135 Ligand excluded by PLIP EDO.25: 4 residues within 4Å: Chain C: L.21, P.49, T.138, H.140 Ligand excluded by PLIP EDO.26: 6 residues within 4Å: Chain C: F.20, L.21, H.22, Y.33, P.35, R.189 Ligand excluded by PLIP EDO.27: 8 residues within 4Å: Chain C: K.39, S.147, R.155, P.157, I.158, E.178, V.179, H.180 Ligand excluded by PLIP EDO.28: 5 residues within 4Å: Chain C: D.93, R.103, V.104, E.105, N.142 Ligand excluded by PLIP EDO.29: 5 residues within 4Å: Chain C: A.45, K.46, T.47, E.105, N.142 Ligand excluded by PLIP EDO.30: 3 residues within 4Å: Chain C: C.136, T.137, T.138 Ligand excluded by PLIP EDO.31: 1 residues within 4Å: Chain C: S.3 Ligand excluded by PLIP EDO.32: 4 residues within 4Å: Chain B: G.3 Chain C: K.27, R.187, R.190 Ligand excluded by PLIP EDO.33: 4 residues within 4Å: Chain C: E.128, T.137, T.138, I.139 Ligand excluded by PLIP EDO.34: 3 residues within 4Å: Chain C: R.190, E.193, E.194 Ligand excluded by PLIP EDO.35: 5 residues within 4Å: Chain C: R.155 Chain D: T.7, G.8 Ligands: EDO.17, EDO.18 Ligand excluded by PLIP EDO.36: 5 residues within 4Å: Chain A: S.148, N.154, R.155 Chain D: C.9 Ligands: EDO.17 Ligand excluded by PLIP

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: AC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

Cellular tumor antigen p53

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