SMTL ID : 1srj.1

STRUCTURE-BASED DESIGN OF SYNTHETIC AZOBENZENE LIGANDS FOR STREPTAVIDIN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x NAB: 2-((4'-HYDROXYNAPHTHYL)-AZO)BENZOIC ACID(Non-covalent)

NAB.1: 18 residues within 4Å: Chain A: 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 D: W.108 18 PLIP interactions: 17 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:N.37, A:A.38, A:A.74, A:L.98, D:W.108 Hydrogen bonds: A:N.11, A:S.15, A:Y.31, A:S.33, A:A.34, A:V.35 Water bridges: A:Y.42 pi-Stacking: A:W.67, A:W.67, A:W.67, A:W.80, A:W.96, A:W.96 NAB.2: 17 residues within 4Å: Chain B: N.11, L.13, S.15, Y.31, S.33, V.35, N.37, W.67, R.72, A.74, S.76, T.78, W.80, W.96, L.98, D.116 Chain C: W.108 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:A.74, B:T.78, B:W.80, B:L.98, C:W.108 Hydrogen bonds: B:N.11, B:S.15, B:S.33, B:N.37, B:Y.42, B:Y.42 pi-Stacking: B:W.67, B:W.67, B:W.67, B:W.96, B:W.96 NAB.3: 18 residues within 4Å: Chain B: W.108 Chain C: 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 16 PLIP interactions: 15 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:N.37, C:A.38, C:A.74, C:L.98, B:W.108 Hydrogen bonds: C:N.11, C:S.15, C:S.33, C:A.34, C:V.35 pi-Stacking: C:W.67, C:W.67, C:W.67, C:W.80, C:W.96, C:W.96 NAB.4: 17 residues within 4Å: Chain A: W.108 Chain D: N.11, L.13, S.15, Y.31, S.33, V.35, N.37, W.67, R.72, A.74, S.76, T.78, W.80, W.96, L.98, D.116 17 PLIP interactions: 1 interactions with chain A, 16 interactions with chain D Hydrophobic interactions: A:W.108, D:A.74, D:T.78, D:W.80, D:L.98 Hydrogen bonds: D:N.11, D:S.15, D:Y.31, D:S.33, D:N.37, D:Y.42 Water bridges: D:Y.42 pi-Stacking: D:W.67, D:W.67, D:W.67, D:W.96, D:W.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weber, P.C. et al., Structure-Based Design of Synthetic Azobenzene Ligands for Streptavidin. J.Am.Chem.Soc. (1994)

Release Date

1994-11-01

Peptides

STREPTAVIDIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

STREPTAVIDIN

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