SMTL ID : 7nlv.1

WILDTYPE CORE-STREPTAVIDIN WITH a conjugated BIOTINYLATED PYRROLIDINE II

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

homo-tetramer

Ligands

4 x UJE: 5-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl)-N-((S)-pyrrolidin-3-yl)pentanamide(Non-covalent)

UJE.1: 18 residues within 4Å: Chain A: N.12, L.14, S.16, Y.32, S.34, V.36, G.37, N.38, W.68, A.75, S.77, T.79, W.81, W.97, L.99, S.101, D.117 Chain C: W.109 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.68, A:W.68, A:W.68 Hydrogen bonds: A:N.12, A:S.16, A:S.34, A:N.38, A:S.77, A:S.77, A:S.101, A:S.101, A:D.117 UJE.2: 17 residues within 4Å: Chain B: N.12, L.14, S.16, Y.32, S.34, V.36, G.37, N.38, W.68, S.77, T.79, W.81, W.97, L.99, S.101, D.117 Chain D: W.109 14 PLIP interactions: 13 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:N.38, B:W.68, B:W.68, B:W.68, B:L.99, D:W.109 Hydrogen bonds: B:N.12, B:S.16, B:Y.32, B:S.34, B:N.38, B:S.77, B:S.77, B:D.117 UJE.3: 19 residues within 4Å: Chain A: W.109 Chain C: N.12, L.14, S.16, Y.32, S.34, V.36, G.37, N.38, A.39, W.68, A.75, S.77, T.79, W.81, W.97, L.99, S.101, D.117 15 PLIP interactions: 14 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:A.39, C:W.68, C:W.68, C:W.68, C:L.99, A:W.109 Hydrogen bonds: C:N.12, C:S.16, C:S.34, C:N.38, C:S.77, C:S.77, C:S.101, C:S.101, C:D.117 UJE.4: 19 residues within 4Å: Chain B: W.109 Chain D: N.12, L.14, S.16, Y.32, S.34, V.36, G.37, N.38, W.68, A.75, S.77, T.79, W.81, W.97, L.99, S.101, L.113, D.117 14 PLIP interactions: 13 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:W.68, D:W.68, D:W.68, B:W.109 Hydrogen bonds: D:N.12, D:S.16, D:Y.32, D:S.34, D:N.38, D:S.77, D:S.77, D:S.101, D:S.101, D:D.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nodling, A.R. et al., The role of streptavidin and its variants in catalysis by biotinylated secondary amines. Org.Biomol.Chem. (2021)

Release Date

2022-03-02

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

C
CCC

D
DDD

Streptavidin

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