SMTL ID : 5b5g.1

Crystal structure of ALiS4-Streptavidin complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

7 x SO3: SULFITE ION(Non-covalent)

SO3.1: 9 residues within 4Å: Chain A: S.30, V.32, G.33, N.34, A.35, W.64, L.95 Chain C: W.105 Ligands: SO3.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.30, A:N.34 Water bridges: A:S.73 pi-Cation interactions: A:W.64 SO3.2: 8 residues within 4Å: Chain A: W.64, T.75, W.77, W.93, L.95, D.113 Chain C: W.105 Ligands: SO3.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.77 Water bridges: A:N.8 Salt bridges: A:D.113 pi-Cation interactions: A:W.93 SO3.3: 6 residues within 4Å: Chain A: V.110, G.111, H.112 Chain B: Q.92 Chain C: A.104, S.107 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:H.112, A:H.112, C:S.107 Water bridges: A:Q.9, A:Q.9, C:S.107, C:S.107 SO3.4: 7 residues within 4Å: Chain A: Q.92 Chain B: W.93, V.110, G.111, H.112 Chain D: A.104, S.107 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:S.107, B:H.112, B:H.112 Water bridges: D:S.107 SO3.5: 6 residues within 4Å: Chain B: W.64, T.75, W.77, W.93, D.113 Chain D: W.105 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:W.64, B:T.75, B:W.93 Salt bridges: B:D.113 pi-Cation interactions: B:W.93, B:W.93 SO3.6: 7 residues within 4Å: Chain A: A.104, W.105, S.107 Chain C: V.110, G.111, H.112 Chain D: Q.92 8 PLIP interactions: 3 interactions with chain C, 4 interactions with chain A, 1 interactions with chain D Hydrogen bonds: C:H.112, C:H.112, A:T.108, A:T.108 Water bridges: C:Q.9, A:S.107, A:T.108, D:Q.80 SO3.8: 8 residues within 4Å: Chain B: A.104, W.105, S.107 Chain C: Q.92 Chain D: W.93, V.110, G.111, H.112 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:V.110, D:H.112, D:H.112 Water bridges: D:Q.9, B:S.107, B:S.107

2 x 6FX: methyl 5-(4-oxidanylidene-5~{H}-furo[3,2-c]pyridin-2-yl)pyridine-3-carboxylate(Non-covalent)

6FX.7: 12 residues within 4Å: Chain C: N.8, S.12, Y.28, W.64, A.71, S.73, T.75, W.77, W.93, L.95, S.97, D.113 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:W.64, C:T.75 Hydrogen bonds: C:N.8, C:S.12, C:Y.28, C:S.73, C:D.113 pi-Stacking: C:W.64, C:W.64, C:W.77, C:W.93, C:W.93 6FX.9: 11 residues within 4Å: Chain D: N.8, S.12, Y.28, S.37, Y.39, W.64, R.69, T.75, W.77, W.93, D.113 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:W.64, D:T.75 Hydrogen bonds: D:S.12, D:D.113 Salt bridges: D:R.69 pi-Stacking: D:W.64, D:W.64, D:W.77, D:W.93, D:W.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tachibana, R. et al., Improving the Solubility of Artificial Ligands of Streptavidin to Enable More Practical Reversible Switching of Protein Localization in Cells. Chembiochem (2017)

Release Date

2017-03-01

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Streptavidin

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