SMTL ID : 6m8q.1 (1 other biounit)

Cleavage and Polyadenylation Specificity Factor Subunit 3 (CPSF3) in complex with NVP-LTM531

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.94, H.95, D.198, H.437 Ligands: ZN.2, PO4.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.94, A:H.95, A:D.198, A:H.437, H2O.2 ZN.2: 7 residues within 4Å: Chain A: H.90, H.92, H.95, H.177, D.198 Ligands: ZN.1, PO4.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.90, A:H.92, A:H.177, A:D.198, H2O.2

1 x JBG: N-{3,5-dichloro-2-hydroxy-4-[2-(4-methylpiperazin-1-yl)ethoxy]benzene-1-carbonyl}-L-phenylalanine(Non-covalent)

JBG.3: 18 residues within 4Å: Chain A: I.62, H.63, P.64, L.66, E.67, A.71, L.93, Y.129, P.258, V.259, F.260, P.348, G.349, M.350, M.351, Q.352, G.375, Y.376 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:P.64, A:L.93, A:V.259 Hydrogen bonds: A:Y.129, A:F.260, A:G.349, A:M.350 Water bridges: A:R.264, A:R.264 Salt bridges: A:E.67, A:E.67 pi-Stacking: A:F.260

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

PO4.4: 5 residues within 4Å: Chain A: Y.226, H.231, E.232, R.237, S.411 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Y.226, A:Y.226, A:E.232, A:E.232, A:R.240, A:S.411 Water bridges: A:R.237, A:S.411 Salt bridges: A:H.231, A:R.237 PO4.5: 10 residues within 4Å: Chain A: H.92, D.94, H.177, D.198, Y.376, S.413, H.415, H.437 Ligands: ZN.1, ZN.2 5 PLIP interactions: 5 interactions with chain A Water bridges: A:Y.376 Salt bridges: A:H.92, A:H.177, A:H.415, A:H.437

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ross, N.T. et al., CPSF3-dependent pre-mRNA processing as a druggable node in AML and Ewing's sarcoma. Nat.Chem.Biol. (2020)

Release Date

2019-11-27

Peptides

Cleavage and polyadenylation specificity factor subunit 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cleavage and polyadenylation specificity factor subunit 3

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