SMTL ID : 4cpi.1 (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: 19 residues within 4Å: Chain A: N.11, L.13, S.15, Y.31, S.33, A.34, Y.42, W.67, Y.71, R.72, N.73, D.74, T.78, W.80, W.96, L.98, D.116 Chain C: W.108 Ligands: PEG.2 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:W.67, A:W.67, A:R.72, A:R.72, A:L.98, C:W.108 Hydrogen bonds: A:N.11, A:S.15, A:Y.31, A:S.33, A:A.34, A:R.72, A:N.73, A:D.74, A:D.74, A:D.116 Water bridges: A:Y.42, A:Y.42, A:Y.42 LH4.5: 19 residues within 4Å: Chain B: N.11, L.13, S.15, Y.31, S.33, A.34, 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.6 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:W.67, B:W.67, B:R.72, B:R.72, B:L.98, D:W.108 Hydrogen bonds: B:N.11, B:S.15, B:S.33, B:A.34, B:Y.42, B:R.72, B:N.73, B:D.74, B:D.116 Water bridges: B:Y.42, B:Y.42 LH4.9: 14 residues within 4Å: Chain A: W.108 Chain C: N.11, L.13, S.15, Y.31, S.33, W.67, D.74, S.76, T.78, W.80, W.96, L.98, D.116 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:W.67, C:W.67, C:W.67, C:L.98 Hydrogen bonds: C:N.11, C:S.15, C:Y.31, C:S.33, C:S.76, C:D.116 Water bridges: A:K.109 LH4.10: 14 residues within 4Å: Chain B: W.108 Chain D: N.11, L.13, S.15, Y.31, S.33, W.67, D.74, S.76, T.78, W.80, W.96, L.98, D.116 10 PLIP interactions: 9 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:W.67, D:W.67, D:W.67, D:L.98 Hydrogen bonds: D:N.11, D:S.15, D:S.33, D:S.76, D:D.116 Water bridges: B:K.109

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

PEG.2: 5 residues within 4Å: Chain A: D.74 Chain C: K.109 Ligands: LH4.1, PEG.3, CA.4 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:D.74, C:K.109, C:K.109 PEG.3: 5 residues within 4Å: Chain A: D.74, S.100, L.112 Ligands: PEG.2, CA.4 No protein-ligand interaction detected (PLIP) PEG.6: 5 residues within 4Å: Chain B: D.74 Chain D: K.109 Ligands: LH4.5, PEG.7, CA.8 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:K.109, D:K.109, B:D.74 PEG.7: 5 residues within 4Å: Chain B: D.74, S.100, L.112 Ligands: PEG.6, CA.8 No protein-ligand interaction detected (PLIP)

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.8: 2 residues within 4Å: Ligands: PEG.6, PEG.7 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
D

B
D

C
C

D
C

STREPTAVIDIN

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