SMTL ID : 6avk.1

Streptavidin bound to peptide-like compound KPM-6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-tetramer

Ligands

2 x BZ4: N-[(2H-1,3-benzodioxol-5-yl)methyl]-2-({[(2H-1,3-benzodioxol-5-yl)methyl][2-(chloromethyl)-1,3-oxazole-4-carbonyl]amino}methyl)-N-[(4-carbamoyl-1,3-oxazol-2-yl)methyl]-1,3-oxazole-4-carboxamide(Non-covalent)

BZ4.1: 19 residues within 4Å: Chain A: N.11, L.13, G.14, S.15, Y.31, E.32, S.33, E.39, S.40, Y.42, W.67, R.72, T.78, W.80, W.96, L.98, H.115, D.116 Chain D: W.108 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:Y.31, A:W.67, A:W.67, A:W.80 Hydrogen bonds: A:N.11, A:Y.42, A:R.72, A:T.78 Water bridges: A:A.74, A:D.116 pi-Stacking: D:W.108 BZ4.3: 19 residues within 4Å: Chain B: W.108 Chain C: N.11, L.13, G.14, S.15, Y.31, E.32, S.33, E.39, S.40, Y.42, W.67, R.72, T.78, W.80, W.96, L.98, H.115, D.116 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:Y.31, C:W.67, C:W.67, C:W.80 Hydrogen bonds: C:N.11, C:R.72 Water bridges: C:Y.31, C:A.74 pi-Stacking: B:W.108

2 x HDO: 1-hydroxydodecan-4-one(Non-covalent)

HDO.2: 19 residues within 4Å: Chain B: N.11, L.13, S.15, Y.31, S.33, V.35, G.36, N.37, A.38, W.67, A.74, S.76, T.78, W.80, W.96, L.98, D.116 Chain C: W.108, K.109 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:V.35, B:N.37, B:A.38, B:W.67, B:W.67, B:W.67, B:W.96, C:W.108, C:W.108 Hydrogen bonds: B:N.11, B:T.78 Water bridges: B:S.15, B:Y.31 HDO.4: 19 residues within 4Å: Chain A: W.108, K.109 Chain D: N.11, L.13, S.15, Y.31, S.33, V.35, G.36, N.37, A.38, W.67, A.74, S.76, T.78, W.80, W.96, L.98, D.116 13 PLIP interactions: 11 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:V.35, D:N.37, D:A.38, D:W.67, D:W.67, D:W.67, D:W.96, A:W.108, A:W.108 Hydrogen bonds: D:N.11, D:Y.31 Water bridges: D:S.15, D:Y.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McEnaney, P. et al., Efficient Workflow for Screening DNA-encoded One Bead One Compound Libraries Using a Flow Cytometer. To be Published

Release Date

2018-08-08

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Streptavidin

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