SMTL ID : 4cpi.2 (2 other biounits)

streptavidin A86D mutant with love-hate ligand 4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

homo-tetramer

Ligands

4 x LH4: 5-[(3aS,4S,6aR)-2-oxo-hexahydro-1H-thieno[3,4- d]imidazolidin-4-yl]-N'-{2,6-bis[4-(morpholine-4- sulfonyl)phenyl]phenyl}pentanehydrazide(Non-covalent)

LH4.1: 21 residues within 4Å: Chain A: N.11, L.13, S.15, Y.31, S.33, A.34, V.35, Y.42, W.67, Y.71, R.72, N.73, D.74, T.78, W.80, W.96, L.98, D.116 Chain D: W.108 Ligands: PEG.2, PEG.3 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:V.35, A:W.67, A:W.67, A:R.72, A:L.98, D:W.108 Hydrogen bonds: A:N.11, A:S.15, A:S.15, A:S.33, A:A.34, A:Y.42, A:R.72, A:N.73, A:D.74, A:D.116 Water bridges: A:Y.42, A:Y.42, A:R.72 LH4.5: 12 residues within 4Å: Chain B: N.11, L.13, S.15, Y.31, W.67, D.74, T.78, W.80, W.96, L.98, D.116 Chain C: W.108 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:W.67, B:W.67, B:L.98 Hydrogen bonds: B:N.11, B:S.15, B:S.15, B:Y.31, B:D.116 Water bridges: B:Y.42, B:Y.42 LH4.6: 21 residues within 4Å: Chain B: W.108 Chain C: N.11, L.13, S.15, Y.31, S.33, A.34, V.35, Y.42, W.67, Y.71, R.72, N.73, D.74, T.78, W.80, W.96, L.98, D.116 Ligands: PEG.7, PEG.8 21 PLIP interactions: 20 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:V.35, C:W.67, C:W.67, C:R.72, C:L.98, B:W.108 Hydrogen bonds: C:N.11, C:S.15, C:S.15, C:Y.31, C:S.33, C:A.34, C:R.72, C:N.73, C:D.74, C:D.74, C:D.116 Water bridges: C:Y.42, C:Y.42, C:Y.42, C:R.72 LH4.10: 12 residues within 4Å: Chain A: W.108 Chain D: N.11, L.13, S.15, Y.31, W.67, D.74, T.78, W.80, W.96, L.98, D.116 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:W.67, D:W.67, D:L.98 Hydrogen bonds: D:N.11, D:S.15, D:S.15, D:D.116

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

PEG.2: 7 residues within 4Å: Chain A: D.74, L.112 Chain D: W.108, K.109 Ligands: LH4.1, PEG.3, CA.4 No protein-ligand interaction detected (PLIP) PEG.3: 4 residues within 4Å: Chain D: K.109 Ligands: LH4.1, PEG.2, CA.4 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.109, D:K.109 PEG.7: 7 residues within 4Å: Chain B: W.108, K.109 Chain C: D.74, L.112 Ligands: LH4.6, PEG.8, CA.9 No protein-ligand interaction detected (PLIP) PEG.8: 4 residues within 4Å: Chain B: K.109 Ligands: LH4.6, PEG.7, CA.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.109, B:K.109

2 x CA: CALCIUM ION(Non-functional Binders)

CA.4: 2 residues within 4Å: Ligands: PEG.2, PEG.3 No protein-ligand interaction detected (PLIP) CA.9: 2 residues within 4Å: Ligands: PEG.7, PEG.8 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fairhead, M. et al., Love-Hate Ligands for High Resolution Analysis of Strain in Ultra-Stable Protein/Small Molecule Interaction. Bioorg.Med.Chem. (2014)

Release Date

2014-08-06

Peptides

STREPTAVIDIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

STREPTAVIDIN

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