SMTL ID : 4y5d.1

CRYSTAL STRUCTURE OF ALiS2-STREPTAVIDIN COMPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

homo-tetramer

Ligands

3 x MT6: methyl 3-(4-oxo-4,5-dihydrofuro[3,2-c]pyridin-2-yl)benzoate(Non-covalent)

MT6.1: 17 residues within 4Å: Chain A: N.9, S.13, Y.29, S.31, V.33, N.35, A.36, W.65, A.72, S.74, T.76, W.78, W.94, L.96, S.98, D.114 Chain D: W.106 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:V.33, A:A.36, A:W.65, A:A.72, A:L.96, D:W.106 Hydrogen bonds: A:N.9, A:S.13, A:Y.29, A:D.114 pi-Stacking: A:W.65, A:W.65, A:W.78, A:W.94, A:W.94 MT6.3: 11 residues within 4Å: Chain B: N.9, S.13, Y.29, W.65, A.72, S.74, T.76, W.78, W.94, L.96, D.114 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:W.65, B:T.76 Hydrogen bonds: B:S.13, B:S.74, B:D.114 pi-Stacking: B:W.65, B:W.65, B:W.78, B:W.94, B:W.94 MT6.7: 14 residues within 4Å: Chain A: W.106 Chain D: N.9, L.11, S.13, Y.29, S.31, W.65, A.72, S.74, T.76, W.78, W.94, L.96, D.114 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:W.65, D:T.76 Hydrogen bonds: D:N.9, D:S.13, D:Y.29, D:S.74, D:D.114 pi-Stacking: D:W.65, D:W.65, D:W.78, D:W.94, D:W.94

1 x PE3: 3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL(Non-functional Binders)

PE3.2: 10 residues within 4Å: Chain A: R.39, V.41, K.66, N.67, N.68, Y.69, R.70, N.71 Chain B: D.22, R.45 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.66, A:N.68, B:R.45 Water bridges: A:N.68, A:N.71

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 6 residues within 4Å: Chain B: W.106 Chain C: W.65, T.76, W.78, W.94 Ligands: P6G.5 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.76 pi-Cation interactions: C:W.94, C:W.94

2 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.5: 4 residues within 4Å: Chain B: W.106 Chain C: W.65 Ligands: DMS.4, P6G.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.106 P6G.6: 7 residues within 4Å: Chain B: W.106, K.107 Chain C: A.72, S.74, L.96, S.98 Ligands: P6G.5 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.74, C:S.74, C:S.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Terai, T. et al., Artificial Ligands of Streptavidin (ALiS): Discovery, Characterization, and Application for Reversible Control of Intracellular Protein Transport. J.Am.Chem.Soc. (2015)

Release Date

2015-09-23

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Streptavidin