SMTL ID : 8gla.1 (1 other biounit)

Co-crystal structure of caPCNA bound to the AOH1996 derivative, AOH1996-1LE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.77 Å

Oligo State

homo-trimer

Ligands

6 x ZQZ: N-[2-(3-methoxyphenoxy)phenyl]-N~2~-(naphthalene-1-carbonyl)-L-alpha-glutamine(Non-covalent)

ZQZ.1: 10 residues within 4Å: Chain A: M.40, H.44, V.45, S.46, L.47, L.126, Y.250, A.252 Ligands: ZQZ.2, ZQZ.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.44, A:L.126, A:Y.250, A:A.252 ZQZ.2: 8 residues within 4Å: Chain A: I.128, Q.131, D.232, V.233, P.234, Y.250, P.253 Ligands: ZQZ.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.233 Hydrogen bonds: A:D.232 ZQZ.3: 11 residues within 4Å: Chain A: E.25, A.26, Q.38, S.39, M.40, D.41, H.44, L.121, V.123, L.126 Ligands: ZQZ.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Q.38, A:H.44, A:L.121, A:L.126 Hydrogen bonds: A:M.40 pi-Stacking: A:H.44 pi-Cation interactions: A:H.44 ZQZ.6: 9 residues within 4Å: Chain B: M.40, H.44, V.45, S.46, L.47, L.126, Y.250 Ligands: ZQZ.7, ZQZ.8 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.47, B:L.126, B:Y.250 ZQZ.7: 8 residues within 4Å: Chain B: I.128, A.231, D.232, V.233, P.234, Y.250, P.253 Ligands: ZQZ.6 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:D.232, B:V.233, B:P.234 Hydrogen bonds: B:D.232, B:D.232 ZQZ.8: 12 residues within 4Å: Chain B: E.25, A.26, Q.38, S.39, M.40, D.41, H.44, L.121, V.123, Q.125, L.126 Ligands: ZQZ.6 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Q.38, B:H.44, B:L.121, B:L.126 Hydrogen bonds: B:M.40 pi-Stacking: B:H.44, B:H.44

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: N.24, S.42 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: R.53, K.240, H.246 Ligand excluded by PLIP CL.9: 1 residues within 4Å: Chain B: N.24 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: R.53, K.240, H.246 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain C: N.24 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain C: R.53, K.240, H.246 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gu, L. et al., Small molecule targeting of transcription-replication conflict for selective chemotherapy. Cell Chem Biol (2023)

Release Date

2023-07-26

Peptides

Proliferating cell nuclear antigen: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Proliferating cell nuclear antigen

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