SMTL ID : 8aqd.1

Hydrophobic probe bound to Streptavidin - 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

4 x N9O: 5-[(3~{a}~{S},4~{S},6~{a}~{R})-2-oxidanylidene-1,3,3~{a},4,6,6~{a}-hexahydrothieno[3,4-d]imidazol-4-yl]-~{N}-[2-[6-(dimethylamino)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]ethyl]pentanamide(Non-covalent)

N9O.1: 24 residues within 4Å: Chain A: N.22, L.24, S.26, Y.42, S.44, V.46, G.47, N.48, W.78, A.85, S.87, T.89, W.91, W.107, L.109, S.111, K.120, S.121, T.122, L.123, D.127 Chain C: W.119, L.123 Ligands: N9O.3 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:W.78, A:W.78, A:W.78, A:L.109, A:L.123, C:W.119, C:L.123 Hydrogen bonds: A:N.22, A:S.26, A:Y.42, A:S.44, A:N.48, A:S.87, A:S.87, A:D.127 N9O.2: 24 residues within 4Å: Chain B: N.22, L.24, S.26, Y.42, S.44, V.46, G.47, N.48, W.78, A.85, S.87, T.89, W.91, W.107, L.109, S.111, K.120, S.121, T.122, L.123, D.127 Chain D: W.119, L.123 Ligands: N9O.4 14 PLIP interactions: 2 interactions with chain D, 12 interactions with chain B Hydrophobic interactions: D:W.119, D:L.123, B:W.78, B:W.78, B:W.78, B:L.109, B:L.123 Hydrogen bonds: B:N.22, B:S.26, B:S.44, B:N.48, B:S.87, B:S.87, B:D.127 N9O.3: 24 residues within 4Å: Chain A: W.119, L.123 Chain C: N.22, L.24, S.26, Y.42, S.44, V.46, G.47, N.48, W.78, A.85, S.87, T.89, W.91, W.107, L.109, S.111, K.120, S.121, T.122, L.123, D.127 Ligands: N9O.1 15 PLIP interactions: 13 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:W.78, C:W.78, C:W.78, C:L.109, C:L.123, A:W.119, A:L.123 Hydrogen bonds: C:N.22, C:S.26, C:Y.42, C:S.44, C:N.48, C:S.87, C:S.87, C:D.127 N9O.4: 24 residues within 4Å: Chain B: W.119, L.123 Chain D: N.22, L.24, S.26, Y.42, S.44, V.46, G.47, N.48, W.78, A.85, S.87, T.89, W.91, W.107, L.109, S.111, K.120, S.121, T.122, L.123, D.127 Ligands: N9O.2 14 PLIP interactions: 12 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:W.78, D:W.78, D:W.78, D:L.109, D:L.123, B:W.119, B:L.123 Hydrogen bonds: D:N.22, D:S.26, D:S.44, D:N.48, D:S.87, D:S.87, D:D.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Igareta, N.V. et al., Hydrophobic probe bound to Streptavidin - 1. To Be Published

Release Date

2022-08-31

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Streptavidin

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