SMTL ID : 4nqj.1

Structure of coiled-coil domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-hexamer

Ligands

10 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.1: 6 residues within 4Å: Chain A: D.13, F.17 Chain B: F.125, K.129 Chain E: F.17 Ligands: LMT.10 8 PLIP interactions: 6 interactions with chain A, 1 interactions with chain E, 1 interactions with chain B Hydrophobic interactions: A:D.13, A:F.17, A:F.17, E:F.17 Hydrogen bonds: A:D.13, B:F.125 Water bridges: A:F.8, A:D.13 LMT.2: 4 residues within 4Å: Chain A: K.67, L.68, F.71 Chain C: I.164 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:I.164, A:F.71 Hydrogen bonds: A:K.67 LMT.3: 7 residues within 4Å: Chain B: K.67, L.68, F.71 Chain E: K.75, I.164, E.171 Ligands: LMT.8 4 PLIP interactions: 1 interactions with chain E, 3 interactions with chain B Hydrophobic interactions: E:I.164 Hydrogen bonds: B:K.67 Water bridges: B:L.68, B:L.68 LMT.4: 5 residues within 4Å: Chain A: I.164, M.167 Chain C: K.67, L.68, F.71 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:L.68, A:I.164 Water bridges: C:L.68, C:L.68 LMT.5: 12 residues within 4Å: Chain C: K.6, L.9, D.13, A.14, H.16, F.17 Chain D: F.18, E.21 Chain F: F.125, L.128, K.129 Ligands: LMT.6 7 PLIP interactions: 4 interactions with chain C, 2 interactions with chain F, 1 interactions with chain D Hydrophobic interactions: C:F.17, C:F.17, C:F.17, D:F.18 Hydrogen bonds: C:K.6 Water bridges: F:T.132, F:T.132 LMT.6: 6 residues within 4Å: Chain B: F.17 Chain D: D.13, F.17 Chain E: F.125, K.129 Ligands: LMT.5 7 PLIP interactions: 5 interactions with chain D, 1 interactions with chain B, 1 interactions with chain E Hydrophobic interactions: D:D.13, D:F.17, D:F.17, B:F.17 Hydrogen bonds: D:D.13, E:F.125 Water bridges: D:F.8 LMT.7: 4 residues within 4Å: Chain D: K.67, L.68, F.71 Chain F: I.164 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain F Hydrophobic interactions: D:F.71, F:I.164 Hydrogen bonds: D:K.67 LMT.8: 7 residues within 4Å: Chain B: K.75, I.164, E.171 Chain E: K.67, L.68, F.71 Ligands: LMT.3 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain E Hydrophobic interactions: B:I.164 Hydrogen bonds: E:K.67 Water bridges: E:L.68, E:L.68 LMT.9: 5 residues within 4Å: Chain D: I.164, M.167 Chain F: K.67, L.68, F.71 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain F Hydrophobic interactions: D:I.164, F:L.68 Water bridges: F:L.68, F:L.68 LMT.10: 12 residues within 4Å: Chain A: F.18, E.21 Chain C: F.125, L.128, K.129 Chain F: K.6, L.9, D.13, A.14, H.16, F.17 Ligands: LMT.1 7 PLIP interactions: 1 interactions with chain A, 4 interactions with chain F, 2 interactions with chain C Hydrophobic interactions: A:F.18, F:F.17, F:F.17, F:F.17 Hydrogen bonds: F:K.6 Water bridges: C:T.132, C:T.132

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Y. et al., Structural insights into the TRIM family of ubiquitin E3 ligases. Cell Res. (2014)

Release Date

2014-05-21

Peptides

E3 ubiquitin-protein ligase TRIM69: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

E3 ubiquitin-protein ligase TRIM69