SMTL ID : 9inr.1

Crystal structure of PIN1 in complex with inhibitor C3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

homo-dimer

Ligands

2 x 01: ~{N}-[(2~{S})-3-[1-[4-(4-cyanophenyl)phenyl]-1,2,3-triazol-4-yl]-1-[(3-oxidanylcyclobutyl)amino]-1-oxidanylidene-propan-2-yl]-1-phenyl-cyclopropane-1-carboxamide

01.1: 25 residues within 4Å: Chain A: H.59, L.61, K.63, R.68, C.113, S.114, S.115, K.117, A.118, D.121, L.122, Q.129, M.130, Q.131, F.134, T.152, S.154, H.157 Chain B: K.63, R.69, S.114, K.117 Ligands: SO4.2, 01.4, SO4.6 17 PLIP interactions: 13 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:L.61, A:A.118, A:L.122, A:Q.131, A:F.134, A:F.134 Hydrogen bonds: A:R.68, A:R.68, A:Q.129, A:Q.129, A:Q.131, A:Q.131, B:R.69, B:S.114 Water bridges: A:G.128, B:K.63, B:K.63 01.4: 23 residues within 4Å: Chain A: R.68, R.69 Chain B: H.59, L.61, K.63, R.68, C.113, S.114, S.115, K.117, A.118, D.121, L.122, Q.129, M.130, Q.131, F.134, T.152, S.154, H.157 Ligands: 01.1, SO4.2, SO4.6 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.61, B:L.122, B:Q.131, B:F.134, B:F.134 Hydrogen bonds: B:R.68, B:R.68, B:Q.129, B:Q.129, B:Q.131, B:Q.131 pi-Cation interactions: A:R.68

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: L.61, K.63, R.68, R.69, S.154 Ligands: 01.1, 01.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.154 Water bridges: A:K.63, A:R.68, A:R.68, A:R.69 Salt bridges: A:K.63, A:R.68, A:R.69 SO4.3: 4 residues within 4Å: Chain A: S.16, R.17, S.18, Y.23 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.17, A:S.18 Water bridges: A:Y.23 Salt bridges: A:R.17 SO4.6: 7 residues within 4Å: Chain B: L.61, K.63, R.68, R.69, S.154 Ligands: 01.1, 01.4 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:S.154, B:S.154 Water bridges: B:K.63, B:K.63, B:R.68, B:R.68, B:R.68, B:R.69, B:R.69, B:S.71 Salt bridges: B:K.63, B:R.68

1 x PE3: 3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL(Non-functional Binders)

PE3.5: 18 residues within 4Å: Chain B: W.11, S.16, Y.23, N.30, A.31, S.32, Q.33, W.34, E.35, I.93, I.96, K.97, S.98, G.99, M.146, S.147, G.148, P.149 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.23 Hydrogen bonds: B:S.32, B:K.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, C. et al., Re-Evaluating PIN1 as a Therapeutic Target in Oncology Using Neutral Inhibitors and PROTACs. J.Med.Chem. (2024)

Release Date

2024-09-25

Peptides

Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1

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