SMTL ID : 5n8t.1

CRYSTAL STRUCTURE OF STREPTAVIDIN D-amino acid containing peptide Gdlwqheatwkkq

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

homo-tetramer

Ligands

4 x DLE- DTR- DGN- DHI- DGL- DAL- DTH- DTR- DLY: DLE-DTR-DGN-DHI-DGL-DAL-DTH-DTR-DLY(Non-covalent)

DLE-DTR-DGN-DHI-DGL-DAL-DTH-DTR-DLY.1: 18 residues within 4Å: Chain A: N.47, L.49, S.51, F.53, Y.67, S.76, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.116, W.132, L.134, D.152 Chain B: W.144 33 PLIP interactions: 30 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.49, A:L.49, A:Y.67, A:Y.67, A:Y.78, A:W.103, A:W.103, A:W.103, A:W.103, A:R.108, A:R.108, A:T.114, A:L.134, B:W.144, B:W.144, B:W.144 Hydrogen bonds: A:N.47, A:S.51, A:S.51, A:Y.67, A:Y.67, A:Y.78, A:S.112 Water bridges: A:Q.48, A:S.76, A:S.76, A:R.108, A:D.152 Salt bridges: A:R.108 pi-Stacking: A:W.116, A:W.116, A:W.132, A:W.132 DLE-DTR-DGN-DHI-DGL-DAL-DTH-DTR-DLY.2: 18 residues within 4Å: Chain A: W.144 Chain B: N.47, L.49, S.51, F.53, Y.67, S.76, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.116, W.132, L.134, D.152 33 PLIP interactions: 30 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.49, B:L.49, B:Y.67, B:Y.67, B:Y.78, B:W.103, B:W.103, B:W.103, B:W.103, B:R.108, B:R.108, B:T.114, B:L.134, A:W.144, A:W.144, A:W.144 Hydrogen bonds: B:N.47, B:S.51, B:S.51, B:Y.67, B:Y.67, B:Y.78, B:S.112 Water bridges: B:Q.48, B:S.76, B:S.76, B:R.108, B:D.152 Salt bridges: B:R.108 pi-Stacking: B:W.116, B:W.116, B:W.132, B:W.132 DLE-DTR-DGN-DHI-DGL-DAL-DTH-DTR-DLY.3: 18 residues within 4Å: Chain C: N.47, L.49, S.51, F.53, Y.67, S.76, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.116, W.132, L.134, D.152 Chain D: W.144 31 PLIP interactions: 28 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:L.49, C:L.49, C:Y.67, C:Y.67, C:Y.78, C:W.103, C:W.103, C:W.103, C:W.103, C:R.108, C:R.108, C:T.114, C:L.134, D:W.144, D:W.144, D:W.144 Hydrogen bonds: C:N.47, C:S.51, C:S.51, C:Y.67, C:S.112 Water bridges: C:Q.48, C:S.76, C:S.76, C:R.108, C:D.152 Salt bridges: C:R.108 pi-Stacking: C:W.116, C:W.116, C:W.132, C:W.132 DLE-DTR-DGN-DHI-DGL-DAL-DTH-DTR-DLY.4: 18 residues within 4Å: Chain C: W.144 Chain D: N.47, L.49, S.51, F.53, Y.67, S.76, Y.78, W.103, R.108, N.109, A.110, S.112, T.114, W.116, W.132, L.134, D.152 31 PLIP interactions: 28 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:L.49, D:L.49, D:Y.67, D:Y.67, D:Y.78, D:W.103, D:W.103, D:W.103, D:W.103, D:R.108, D:R.108, D:T.114, D:L.134, C:W.144, C:W.144, C:W.144 Hydrogen bonds: D:N.47, D:S.51, D:S.51, D:Y.67, D:S.112 Water bridges: D:Q.48, D:S.76, D:S.76, D:R.108, D:D.152 Salt bridges: D:R.108 pi-Stacking: D:W.116, D:W.116, D:W.132, D:W.132

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lyamichev, V.I. et al., Stepwise Evolution Improves Identification of Diverse Peptides Binding to a Protein Target. Sci Rep (2017)

Release Date

2017-10-04

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Streptavidin

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