SMTL ID : 7zx9.1

Streptavidin with a fluorescent substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-tetramer

Ligands

4 x K9D: 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-(3,4-dihydro-1~{H}-isoquinolin-2-yl)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]ethyl]pentanamide(Non-covalent)

K9D.1: 29 residues within 4Å: Chain A: N.22, L.24, S.26, Y.42, S.44, A.45, V.46, G.47, N.48, A.49, W.78, A.85, S.87, T.89, W.91, W.107, L.109, T.110, S.111, K.120, S.121, T.122, L.123, D.127 Chain C: S.111, W.119, K.120, L.123 Ligands: K9D.3 17 PLIP interactions: 15 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:A.49, A:W.78, A:W.78, A:W.78, A:L.109, A:K.120, A:L.123, C:W.119, C:L.123 Hydrogen bonds: A:N.22, A:Y.42, A:S.44, A:S.44, A:N.48, A:S.87, A:S.111, A:D.127 K9D.2: 29 residues within 4Å: Chain B: N.22, L.24, S.26, Y.42, S.44, A.45, V.46, G.47, N.48, A.49, W.78, A.85, S.87, T.89, W.91, W.107, L.109, T.110, S.111, K.120, S.121, T.122, L.123, D.127 Chain D: S.111, W.119, K.120, L.123 Ligands: K9D.4 17 PLIP interactions: 15 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:A.49, B:W.78, B:W.78, B:W.78, B:L.109, B:K.120, B:L.123, D:W.119, D:L.123 Hydrogen bonds: B:N.22, B:Y.42, B:S.44, B:S.44, B:N.48, B:S.87, B:S.111, B:D.127 K9D.3: 29 residues within 4Å: Chain A: S.111, W.119, K.120, L.123 Chain C: N.22, L.24, S.26, Y.42, S.44, A.45, V.46, G.47, N.48, A.49, W.78, A.85, S.87, T.89, W.91, W.107, L.109, T.110, S.111, K.120, S.121, T.122, L.123, D.127 Ligands: K9D.1 17 PLIP interactions: 15 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:A.49, C:W.78, C:W.78, C:W.78, C:L.109, C:K.120, C:L.123, A:W.119, A:L.123 Hydrogen bonds: C:N.22, C:Y.42, C:S.44, C:S.44, C:N.48, C:S.87, C:S.111, C:D.127 K9D.4: 29 residues within 4Å: Chain B: S.111, W.119, K.120, L.123 Chain D: N.22, L.24, S.26, Y.42, S.44, A.45, V.46, G.47, N.48, A.49, W.78, A.85, S.87, T.89, W.91, W.107, L.109, T.110, S.111, K.120, S.121, T.122, L.123, D.127 Ligands: K9D.2 17 PLIP interactions: 15 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:A.49, D:W.78, D:W.78, D:W.78, D:L.109, D:K.120, D:L.123, B:W.119, B:L.123 Hydrogen bonds: D:N.22, D:Y.42, D:S.44, D:S.44, D:N.48, D:S.87, D:S.111, D:D.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Igareta, N.V., Streptavidin Iron-Porphyrin. To Be Published

Release Date

2022-06-15

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Streptavidin

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