SMTL ID : 8ei5.2 (3 other biounits)

Crystal structure of the WWP2 HECT domain in complex with H301, a Helicon Polypeptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: Y.98, T.310, T.348, N.351 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.310, A:T.348

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: M.86, C.88, I.108, N.109, P.110 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.109 GOL.3: 7 residues within 4Å: Chain A: C.99, L.100, Q.101, T.138, P.140, F.141, F.224 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.138 Water bridges: A:T.138, A:T.138

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

EDO.4: 4 residues within 4Å: Chain A: G.262, M.263, Q.264, C.313 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.262 EDO.5: 1 residues within 4Å: Chain A: G.318 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.318 EDO.7: 5 residues within 4Å: Chain A: E.161, N.164, S.165 Chain B: Q.10, R.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.10, B:R.13

1 x WHL: N,N'-(1,4-phenylene)diacetamide(Covalent)

WHL.6: 7 residues within 4Å: Chain A: G.178, L.179, E.180 Chain B: C.8, A.11, A.12, C.15 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.11, B:A.12 Hydrogen bonds: B:C.8, A:G.178, A:E.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tokareva, O.S. et al., Recognition and reprogramming of E3 ubiquitin ligase surfaces by alpha-helical peptides. Nat Commun (2023)

Release Date

2023-10-25

Peptides

NEDD4-like E3 ubiquitin-protein ligase WWP2: A
H301: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
F

NEDD4-like E3 ubiquitin-protein ligase WWP2

H301

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