SMTL ID : 7zxz.1

dithiol-ligand bound to streptavidin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 3 residues within 4Å: Chain A: N.48, R.83 Ligands: K9R.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.83 PEG.4: 3 residues within 4Å: Chain C: N.48, R.83 Ligands: K9R.5 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.83

4 x K9R: 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}-[(1~{R},3~{S})-3-[3,5-bis(sulfanylmethyl)phenyl]-2,4-bis(oxidanylidene)cyclopentyl]pentanamide(Non-covalent)

K9R.2: 23 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, A.111, L.123, D.127 Chain B: W.119, A.120 Ligands: PEG.1 13 PLIP interactions: 12 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:A.49, A:W.78, A:W.78, A:W.78, B:W.119 Hydrogen bonds: A:N.22, A:Y.42, A:S.44, A:S.44, A:N.48, A:N.48, A:S.87, A:D.127 K9R.3: 22 residues within 4Å: Chain A: W.119, A.120 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, A.111, L.123, D.127 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:A.49, B:W.78, B:W.78, B:W.78 Hydrogen bonds: B:N.22, B:Y.42, B:S.44, B:S.44, B:N.48, B:N.48, B:S.87, B:D.127 K9R.5: 23 residues within 4Å: 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, A.111, L.123, D.127 Chain D: W.119, A.120 Ligands: PEG.4 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:A.49, C:W.78, C:W.78, C:W.78, D:W.119 Hydrogen bonds: C:N.22, C:Y.42, C:S.44, C:S.44, C:N.48, C:N.48, C:S.87, C:D.127 K9R.6: 22 residues within 4Å: Chain C: W.119, A.120 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, A.111, L.123, D.127 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:A.49, D:W.78, D:W.78, D:W.78 Hydrogen bonds: D:N.22, D:Y.42, D:S.44, D:S.44, D:N.48, D:N.48, D:S.87, D:D.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Igareta, N.V. et al., dithiol-ligand bound to streptavidin. To Be Published

Release Date

2022-06-15

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Streptavidin