SMTL ID : 7sz2.1

Mouse PARP13/ZAP ZnF5-WWE1-WWE2 bound to ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: C.59, D.60 Chain B: P.182, V.183, F.184 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.182, B:F.184 GOL.2: 6 residues within 4Å: Chain A: W.106, F.141, M.165, R.180 Chain B: L.17, Y.58 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.58, B:Y.58, A:R.180 Water bridges: A:R.180

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.3: 16 residues within 4Å: Chain A: W.110, E.113, Y.120, S.124, S.126, T.128, S.129, S.130, F.151, A.153, Y.158, Q.167, N.169, S.172, T.174, R.176 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:E.113, A:S.124, A:S.126, A:T.128, A:S.130, A:Q.167, A:Q.167, A:N.169, A:S.172, A:T.174, A:R.176 Salt bridges: A:R.176 pi-Stacking: A:W.110, A:W.110 ATP.7: 16 residues within 4Å: Chain B: W.110, E.113, Y.120, S.124, S.126, T.128, S.129, S.130, F.151, A.153, Y.158, Q.167, N.169, S.172, T.174, R.176 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:E.113, B:S.124, B:S.126, B:S.126, B:S.130, B:Y.158, B:Q.167, B:Q.167, B:N.169, B:S.172, B:R.176 Salt bridges: B:R.176 pi-Stacking: B:W.110, B:W.110

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

PO4.4: 6 residues within 4Å: Chain A: E.64, K.76 Chain B: H.177, V.179, R.181 Ligands: PO4.6 4 PLIP interactions: 4 interactions with chain B Water bridges: B:R.181, B:R.181 Salt bridges: B:H.177, B:R.181 PO4.5: 4 residues within 4Å: Chain A: E.138, S.139, H.142 Chain B: Y.18 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Water bridges: A:S.139 Salt bridges: A:H.142 Hydrogen bonds: B:Y.18 PO4.6: 5 residues within 4Å: Chain A: E.64, K.76 Chain B: R.111, H.177 Ligands: PO4.4 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.64 Salt bridges: A:K.76, B:R.111, B:H.177 PO4.8: 6 residues within 4Å: Chain A: Y.117, H.177, V.179, R.181 Chain B: E.64, K.76 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.117 Salt bridges: A:H.177, A:R.181 PO4.9: 6 residues within 4Å: Chain B: E.64, I.65, N.74, K.76, K.77 Ligands: PO4.10 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.64, B:N.74 Salt bridges: B:K.76, B:K.77 PO4.10: 4 residues within 4Å: Chain B: R.72, N.74, K.77 Ligands: PO4.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.74 Water bridges: B:T.79 Salt bridges: B:R.72 PO4.11: 5 residues within 4Å: Chain B: E.159, T.168, N.169, I.170, K.173 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.159, B:E.159 Salt bridges: B:K.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuttiyatveetil, J.R.A. et al., Crystal structures and functional analysis of the ZnF5-WWE1-WWE2 region of PARP13/ZAP define a distinctive mode of engaging poly(ADP-ribose). Cell Rep (2022)

Release Date

2022-10-05

Peptides

Zinc finger CCCH-type antiviral protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Zinc finger CCCH-type antiviral protein 1

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