SMTL ID : 5bqe.1

Crystal structure of Norrin in complex with the cysteine-rich domain of Frizzled 4 -Methylated form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

4 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.1: 1 residues within 4Å: Chain D: F.97 No protein-ligand interaction detected (PLIP) PG0.2: 9 residues within 4Å: Chain A: L.82, T.98, R.100 Chain B: L.57, V.58, S.59, K.65, Q.66, P.67 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.98, A:R.100, B:S.59 Water bridges: B:L.57 PG0.5: 10 residues within 4Å: Chain C: Q.55, C.79, G.81, M.82, S.85, P.112, E.122, G.123, P.124, G.125 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Q.55, C:G.81, C:M.82, C:G.123 Water bridges: C:R.88 PG0.8: 10 residues within 4Å: Chain D: Q.55, C.79, G.81, M.82, S.85, P.112, E.122, G.123, P.124, G.125 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:Q.55, D:G.81, D:M.82, D:E.122, D:G.123 Water bridges: D:R.88

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain C: K.87, E.103, N.106, S.108 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.108 NAG.6: 4 residues within 4Å: Chain D: K.87, E.103, N.106, S.108 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:S.108

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

CL.4: 2 residues within 4Å: Chain C: S.53, S.54 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain D: S.53, S.54 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, T.H. et al., Structure and functional properties of Norrin mimic Wnt for signalling with Frizzled4, Lrp5/6, and proteoglycan. Elife (2015)

Release Date

2015-07-01

Peptides

Norrin: AB
Frizzled-4: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
C

Norrin

Frizzled-4

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