SMTL ID : 7qs3.1

Crystal structure of B30.2 PRYSPRY domain of TRIM16

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: E.12, P.13, Y.149, I.156, Y.160, K.172 Ligand excluded by PLIP EDO.2: 1 residues within 4Å: Chain A: W.52 Ligand excluded by PLIP EDO.3: 5 residues within 4Å: Chain A: K.45, E.85, F.87, A.193, R.195 Ligand excluded by PLIP EDO.4: 4 residues within 4Å: Chain A: R.145, R.195, V.197, D.198 Ligand excluded by PLIP EDO.5: 6 residues within 4Å: Chain A: D.58, L.59, R.62, L.64, K.103 Ligands: EDO.6 Ligand excluded by PLIP EDO.6: 5 residues within 4Å: Chain A: D.58, L.59, P.60, K.103 Ligands: EDO.5 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain A: Q.72, Q.73, S.74 Ligand excluded by PLIP EDO.8: 3 residues within 4Å: Chain A: G.99, F.116, E.179 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain A: N.108, N.114, N.115, F.116 Ligand excluded by PLIP EDO.10: 7 residues within 4Å: Chain A: A.129, Y.131, M.134, E.135, T.136, F.173 Ligands: EDO.11 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain A: W.118, Y.131, A.174 Ligands: EDO.10 Ligand excluded by PLIP EDO.12: 6 residues within 4Å: Chain A: C.97, K.176, F.177, S.178, E.179, V.181 Ligand excluded by PLIP EDO.13: 2 residues within 4Å: Chain A: H.65, E.105 Ligand excluded by PLIP EDO.14: 7 residues within 4Å: Chain A: P.11, E.12, P.13, Q.18, Q.21, Y.22, R.79 Ligand excluded by PLIP EDO.15: 2 residues within 4Å: Chain A: Q.40, E.41 Ligand excluded by PLIP

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

CL.16: 3 residues within 4Å: Chain A: W.66, R.67, W.186 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhubi, R. et al., Structural analysis of TRIM family PRYSPRY domains and its implications for E3-ligand design. J Struct Biol X (2025)

Release Date

2022-05-04

Peptides

Tripartite motif-containing protein 16: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tripartite motif-containing protein 16