SMTL ID : 6kc6.3 (5 other biounits)

HOIP-HOIPIN8 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

monomer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.24, C.27, C.43, C.46 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.24, A:C.27, A:C.43, A:C.46 ZN.2: 5 residues within 4Å: Chain A: C.51, C.54, H.79, C.83, F.85 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.51, A:C.54, A:H.79, A:C.83 ZN.3: 4 residues within 4Å: Chain A: C.64, C.69, H.76, H.78 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.64, A:C.69, A:H.76, A:H.78 ZN.4: 4 residues within 4Å: Chain A: C.122, C.139, C.151, H.154 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.122, A:C.139, A:C.151, A:H.154

1 x D60: 2-[3-[2,6-bis(fluoranyl)-4-(1~{H}-pyrazol-4-yl)phenyl]-3-oxidanylidene-propyl]-4-(1-methylpyrazol-4-yl)benzoic acid(Covalent)

D60.5: 10 residues within 4Å: Chain A: G.37, C.38, M.39, H.40, F.58, L.75, F.85, R.88, D.89 Ligands: GOL.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:H.40, A:F.58 Hydrogen bonds: A:M.39, A:D.89 Salt bridges: A:R.88 pi-Stacking: A:H.40 pi-Cation interactions: A:R.88

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 3 residues within 4Å: Chain A: Y.174, A.182, R.185 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: G.37, C.38, M.39, R.88, A.153, E.157 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.88, A:E.157 GOL.8: 3 residues within 4Å: Chain A: L.75, F.85 Ligands: D60.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.88

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oikawa, D. et al., Molecular bases for HOIPINs-mediated inhibition of LUBAC and innate immune responses. Commun Biol (2020)

Release Date

2020-04-15

Peptides

E3 ubiquitin-protein ligase RNF31: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

E3 ubiquitin-protein ligase RNF31

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