SMTL ID : 7otj.1 (1 other biounit)

Crystal structure of Pif1 helicase from Candida albicans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.58 Å

Oligo State

monomer

Ligands

1 x DT- DT- DT- DT- DT- DT: DNA (5'-D(P*TP*TP*TP*TP*TP*T)-3')(Non-covalent)

DT-DT-DT-DT-DT-DT.1: 19 residues within 4Å: Chain A: S.55, T.56, G.57, T.67, H.69, S.70, G.75, L.76, V.151, V.152, K.153, A.238, T.239, R.240, N.280, S.451, H.453, K.454, F.471 Protein-ligand interaction information (PLIP) not available

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 15 residues within 4Å: Chain A: I.2, I.3, Q.8, S.26, G.28, T.29, G.30, K.31, S.32, V.33, F.190, R.191, T.459 Ligands: ALF.3, MG.4 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:S.5, A:Q.8, A:Q.8, A:G.28, A:T.29, A:T.29, A:G.30, A:K.31, A:S.32, A:V.33, A:T.459 Water bridges: A:S.32, A:S.32, A:S.32, A:R.36, A:D.107, A:E.108, A:G.457, A:T.459 Salt bridges: A:K.31, A:R.191, A:R.191 pi-Stacking: A:F.190, A:F.190

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 10 residues within 4Å: Chain A: A.27, G.28, K.31, E.108, Q.147, R.191, G.457, R.482 Ligands: ADP.2, MG.4 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: S.32, D.107, E.108 Ligands: ADP.2, ALF.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.32, H2O.1, H2O.1, H2O.2

7 x K: POTASSIUM ION(Non-covalent)(Non-functional Binders)

K.5: 3 residues within 4Å: Chain A: D.217, R.220, R.486 No protein-ligand interaction detected (PLIP) K.6: 7 residues within 4Å: Chain A: Y.237, A.238, E.242, D.466, K.468, K.469, I.470 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.242, A:D.466 K.7: 1 residues within 4Å: Chain A: R.129 No protein-ligand interaction detected (PLIP) K.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.9: 2 residues within 4Å: Chain A: G.194, Q.196 No protein-ligand interaction detected (PLIP) K.10: 1 residues within 4Å: Chain A: S.497 No protein-ligand interaction detected (PLIP) K.11: 2 residues within 4Å: Chain A: P.211, D.212 No protein-ligand interaction detected (PLIP)

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

PO4.12: 2 residues within 4Å: Chain A: V.420, E.422 No protein-ligand interaction detected (PLIP) PO4.13: 4 residues within 4Å: Chain A: G.18, Y.46, R.102, Q.138 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.46, A:G.136 Water bridges: A:G.18, A:Y.46, A:R.102, A:Q.138, A:Q.138 Salt bridges: A:R.102 PO4.14: 1 residues within 4Å: Chain A: R.486 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.486 PO4.15: 5 residues within 4Å: Chain A: A.215, C.219, F.494, N.495, R.496 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.215, A:R.496 Salt bridges: A:R.496

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, K.Y. et al., Structural study of the function of Candida Albicans Pif1. Biochem.Biophys.Res.Commun. (2021)

Release Date

2021-07-07

Peptides

ATP-dependent DNA helicase PIF1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ATP-dependent DNA helicase PIF1

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