SMTL ID : 6ne4.1

Designed repeat protein specifically in complex with Fz7CRD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

14 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: G.49, H.50, K.51, E.52 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.51, A:E.52 Water bridges: A:G.49, A:H.50, A:H.50 SO4.2: 4 residues within 4Å: Chain A: G.148, H.149, K.150, E.151 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.150, A:E.151 Water bridges: A:V.152 SO4.3: 4 residues within 4Å: Chain A: H.83, K.84, E.85, V.86 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.83, A:K.84, A:E.85, A:V.86 Salt bridges: A:H.83 SO4.4: 6 residues within 4Å: Chain A: M.36, S.37 Chain B: Y.61, P.98, R.100, L.101 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Y.61, B:Y.61 Water bridges: B:R.100, B:R.100, A:S.37 SO4.5: 3 residues within 4Å: Chain A: L.5, R.8, N.27 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.27 Salt bridges: A:R.8 SO4.6: 5 residues within 4Å: Chain A: D.135, H.136, G.137, K.168 Chain B: K.92 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.135, A:D.135, A:H.136, A:H.136 Water bridges: A:G.137, A:G.137 Salt bridges: B:K.92 SO4.8: 8 residues within 4Å: Chain B: C.75, S.77, L.78, R.81, G.117, Q.118, H.119, H.120 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:L.78, B:Q.118, B:H.119, B:H.120 Water bridges: B:R.81, B:R.81 Salt bridges: B:R.81, B:H.119, B:H.120 SO4.9: 3 residues within 4Å: Chain B: Q.5, S.8, Q.31 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.8 Water bridges: B:Q.31, B:Q.31, B:Q.31, B:Q.31 SO4.10: 4 residues within 4Å: Chain A: F.80 Chain B: P.10, H.39, Y.42 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:H.39 Water bridges: A:S.81 SO4.11: 2 residues within 4Å: Chain B: Q.48, R.54 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.48 Water bridges: B:P.51 Salt bridges: B:R.54 SO4.12: 2 residues within 4Å: Chain B: Y.42, R.54 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Water bridges: A:R.147, A:R.147, B:P.10, B:K.46, B:R.54 Hydrogen bonds: B:Y.42 Salt bridges: B:R.54 SO4.13: 4 residues within 4Å: Chain B: R.83, R.102, C.103, E.104 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:C.103, B:E.104 Water bridges: B:R.83, B:R.83, B:E.104 Salt bridges: B:R.83, B:R.102 SO4.14: 1 residues within 4Å: Chain B: R.76 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.76 Salt bridges: B:R.76 SO4.15: 4 residues within 4Å: Chain B: R.76, S.77, E.80, V.108 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.80 Water bridges: B:R.76

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

EDO.7: 4 residues within 4Å: Chain A: H.116, N.117, E.118, V.119 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.117, A:E.118, A:V.119 EDO.16: 7 residues within 4Å: Chain A: S.72, D.76, F.80, D.110 Chain B: H.39, Y.42, P.43 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:H.39, A:S.72, A:D.110 Water bridges: B:Q.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dang, L.T. et al., Receptor subtype discrimination using extensive shape complementary designed interfaces. Nat.Struct.Mol.Biol. (2019)

Release Date

2019-05-15

Peptides

Designed repeat binding protein: A
Frizzled-7: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Designed repeat binding protein

Frizzled-7

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