SMTL ID : 6q55.1

Crystal structure of Cryptosporidium hominis CPSF3 in complex with Compound 61

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.88, H.89, D.203, H.446 Ligands: ZN.2, HJB.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.88, A:H.89, A:D.203, A:H.446 ZN.2: 6 residues within 4Å: Chain A: H.84, H.86, H.182, D.203 Ligands: ZN.1, HJB.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.84, A:H.86, A:H.182, A:D.203

1 x HJB: 3-[7,7-bis(oxidanyl)-8-oxa-7-boranuidabicyclo[4.3.0]nona-1(6),2,4-trien-5-yl]propanoic acid(Non-covalent)

HJB.3: 13 residues within 4Å: Chain A: V.36, H.84, H.86, D.88, H.89, H.182, D.203, F.265, Y.386, H.424, H.446 Ligands: ZN.1, ZN.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.265, A:Y.386 Hydrogen bonds: A:F.265 Water bridges: A:R.269 Salt bridges: A:H.86

4 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.4: 4 residues within 4Å: Chain A: K.46, R.48, G.172, I.193 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.46, A:I.193 IPA.5: 6 residues within 4Å: Chain A: I.63, L.66, P.67, V.68, F.69, D.70 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.66, A:D.70 Hydrogen bonds: A:F.69, A:D.70, A:Y.95, A:Y.95 IPA.6: 5 residues within 4Å: Chain A: Q.167, R.174, S.176, E.192, R.197 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.192, A:R.197 Hydrogen bonds: A:Q.167, A:R.174 IPA.7: 3 residues within 4Å: Chain A: Q.475, K.476 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Q.475

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 5 residues within 4Å: Chain A: R.197, D.221, V.222, H.223, K.438 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.197, A:R.197, A:V.222 Water bridges: A:D.221 GOL.9: 3 residues within 4Å: Chain A: K.476 Ligands: IPA.7, GOL.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.476 GOL.10: 6 residues within 4Å: Chain A: S.44, F.45, K.46, G.47, R.48, S.49 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.47 Water bridges: A:T.24, A:K.46, A:G.47, A:S.49 GOL.11: 5 residues within 4Å: Chain A: F.469, K.476, V.477, G.478 Ligands: GOL.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.476, A:G.478 GOL.12: 6 residues within 4Å: Chain A: S.75, T.76, I.77, D.78, N.103, G.104 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.76, A:D.78, A:N.103, A:N.103 Water bridges: A:N.103

2 x MG: MAGNESIUM ION(Non-covalent)

MG.13: 5 residues within 4Å: Chain A: R.210, L.247, I.276, E.279, H.280 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:I.276, A:E.279, H2O.1, H2O.1 MG.14: 4 residues within 4Å: Chain A: E.138, G.359, M.360, Q.362 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.138, A:E.138

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Swale, C. et al., Metal-captured inhibition of pre-mRNA processing activity by CPSF3 controls Cryptosporidium infection. Sci Transl Med (2019)

Release Date

2019-11-20

Peptides

Cleavage and Polyadenylation Specificity Factor 3 (CPSF3): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cleavage and Polyadenylation Specificity Factor 3 (CPSF3)

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