SMTL ID : 5fb7.1

Ligand binding domain 2 of Penicillium marneffei MP1 protein complexed with multiple arachidonic acids

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

8 x ACD: ARACHIDONIC ACID(Non-covalent)

ACD.1: 19 residues within 4Å: Chain A: I.16, F.23, L.38, L.39, G.42, L.45, T.49, I.81, A.84, I.85, L.88, N.107, Q.111, A.115, L.118, S.119, S.138, I.145 Ligands: ACD.2 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:I.16, A:F.23, A:F.23, A:F.23, A:L.39, A:L.45, A:I.81, A:I.81, A:I.81, A:A.84, A:I.85, A:L.88, A:A.115, A:L.118, A:I.145, A:I.145 Water bridges: A:S.119, A:S.119, A:S.138 ACD.2: 14 residues within 4Å: Chain A: F.9, A.67, L.70, V.74, L.77, L.118, V.122, V.126, I.133, S.134, L.137, S.138, I.141 Ligands: ACD.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.9, A:L.70, A:V.74, A:V.74, A:L.77, A:L.118, A:V.122, A:V.122, A:V.126, A:I.133, A:L.137, A:I.141 ACD.3: 19 residues within 4Å: Chain B: I.16, F.23, L.38, L.39, G.42, L.45, T.49, I.81, I.85, L.88, N.107, Q.111, A.115, L.118, S.119, V.122, S.138, I.145 Ligands: ACD.4 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.16, B:F.23, B:F.23, B:L.39, B:L.45, B:I.81, B:I.81, B:I.85, B:L.88, B:L.118, B:L.118, B:I.145, B:I.145 Water bridges: B:S.119, B:S.123 ACD.4: 15 residues within 4Å: Chain B: F.9, I.13, L.62, A.67, L.70, V.74, L.77, V.122, V.126, I.133, S.134, L.137, S.138, I.141 Ligands: ACD.3 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:F.9, B:I.13, B:L.62, B:L.70, B:L.70, B:V.74, B:V.74, B:L.77, B:V.122, B:V.122, B:V.126, B:I.133, B:L.137, B:I.141 ACD.5: 18 residues within 4Å: Chain C: F.23, L.38, L.39, L.45, T.49, I.81, I.85, L.88, N.107, L.108, Q.111, A.115, L.118, S.119, V.122, S.138, I.145 Ligands: ACD.6 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:F.23, C:F.23, C:L.38, C:I.81, C:I.81, C:N.107, C:L.108, C:Q.111, C:A.115, C:L.118, C:I.145 Water bridges: C:S.119, C:S.138 ACD.6: 17 residues within 4Å: Chain C: F.9, V.12, I.13, I.16, L.62, A.67, L.70, V.71, V.74, L.118, V.122, V.126, S.134, L.137, S.138, I.141 Ligands: ACD.5 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:F.9, C:V.12, C:I.13, C:I.16, C:L.62, C:L.70, C:V.74, C:V.74, C:L.118, C:V.122, C:V.122, C:V.126, C:L.137, C:I.141 ACD.7: 15 residues within 4Å: Chain D: F.23, L.45, T.49, I.81, L.88, N.107, L.108, Q.111, A.115, L.118, S.119, S.138, I.141, I.145 Ligands: ACD.8 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:F.23, D:F.23, D:F.23, D:L.45, D:L.45, D:I.81, D:I.81, D:L.88, D:N.107, D:L.108, D:Q.111, D:Q.111, D:L.118, D:I.141, D:I.145, D:I.145 Hydrogen bonds: D:S.138 Water bridges: D:S.119 ACD.8: 16 residues within 4Å: Chain D: F.9, V.12, I.13, I.16, L.62, A.67, L.70, V.71, V.74, L.77, V.122, S.134, L.137, S.138, I.141 Ligands: ACD.7 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:F.9, D:V.12, D:I.13, D:I.13, D:I.16, D:L.62, D:L.70, D:V.71, D:V.74, D:V.74, D:L.77, D:V.122, D:L.137, D:I.141 Hydrogen bonds: D:S.138 Water bridges: D:S.138

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sze, K.H. et al., Talaromyces marneffei Mp1p Is a Virulence Factor that Binds and Sequesters a Key Proinflammatory Lipid to Dampen Host Innate Immune Response. Cell Chem Biol (2017)

Release Date

2016-12-14

Peptides

Envelope glycoprotein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Envelope glycoprotein