SMTL ID : 2ygn.1

WIF domain of human Wnt inhibitory factor 1 in complex with 1,2- dipalmitoylphosphatidylcholine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x PCF: 1,2-DIACYL-SN-GLYCERO-3-PHOSHOCHOLINE(Non-covalent)

PCF.1: 18 residues within 4Å: Chain A: L.5, I.9, L.17, I.18, I.24, M.32, F.35, R.45, M.46, P.47, I.49, M.56, F.58, V.121, V.123, V.125, K.135, F.142 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.5, A:I.9, A:L.17, A:M.46, A:I.49, A:F.58, A:F.58, A:F.58, A:V.121, A:V.121, A:V.123, A:V.125, A:F.142, A:F.142 Hydrogen bonds: A:R.45 pi-Cation interactions: A:F.35 PCF.4: 18 residues within 4Å: Chain B: L.5, I.9, L.17, I.18, I.24, M.32, F.35, R.45, M.46, P.47, I.49, M.56, F.58, V.121, V.123, V.125, K.135, F.142 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.5, B:I.9, B:L.17, B:M.46, B:I.49, B:F.58, B:F.58, B:F.58, B:V.121, B:V.121, B:V.123, B:V.125, B:F.142, B:F.142 Hydrogen bonds: B:R.45 pi-Cation interactions: B:F.35

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 4 residues within 4Å: Chain A: Q.13, V.16, N.57, Q.104 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.16 Hydrogen bonds: A:N.57 NAG.5: 4 residues within 4Å: Chain B: Q.13, V.16, N.57, Q.104 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.16 Hydrogen bonds: B:N.57

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 3 residues within 4Å: Chain A: Y.70, V.90, T.95 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.70, A:Y.70 ACT.6: 3 residues within 4Å: Chain B: Y.70, V.90, T.95 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.70, B:Y.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Malinauskas, T. et al., Modular Mechanism of Wnt Signaling Inhibition by Wnt Inhibitory Factor 1. Nat.Struct.Mol.Biol. (2011)

Release Date

2011-07-20

Peptides

WNT INHIBITORY FACTOR 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

WNT INHIBITORY FACTOR 1