SMTL ID : 6s4q.1

scdSav(SASK) - Engineering Single-Chain Dimeric Streptavidin as Host for Artificial Metalloenzymes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

4 x 4IR: {N-(4-{[2-(amino-kappaN)ethyl]sulfamoyl-kappaN}phenyl)-5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide}(chloro)[(1,2,3,4,5-eta)-1,2,3,4,5-pentamethylcyclopentadienyl]iridium(III)(Non-covalent)

4IR.1: 20 residues within 4Å: Chain A: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, W.79, S.88, T.90, W.92, W.108, L.110, S.112, A.121, L.124, D.128 Chain B: W.304 Ligands: 4IR.7 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.79, A:W.79, A:W.79, A:L.124, B:W.304, B:W.304 Hydrogen bonds: A:N.23, A:S.27, A:S.45, A:N.49, A:S.88, A:S.88, A:A.121, A:D.128 4IR.2: 22 residues within 4Å: Chain A: N.207, L.209, S.211, Y.227, T.229, G.232, N.233, W.263, A.270, S.272, T.274, W.276, W.292, L.294, S.296, T.298, K.305, L.308, D.312 Chain B: W.120, L.124 Ligands: 4IR.6 17 PLIP interactions: 16 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.263, A:W.263, A:W.263, A:T.298, A:K.305, A:K.305, B:W.120 Hydrogen bonds: A:N.207, A:S.211, A:Y.227, A:T.229, A:T.229, A:N.233, A:S.272, A:S.272, A:S.296, A:D.312 4IR.6: 23 residues within 4Å: Chain A: W.304, L.308 Chain B: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, A.50, W.79, S.88, T.90, W.92, W.108, L.110, S.112, T.114, A.121, L.124, D.128 Ligands: 4IR.2 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:A.50, B:W.79, B:W.79, B:W.79, B:T.114, A:W.304 Hydrogen bonds: B:N.23, B:S.27, B:Y.43, B:S.45, B:N.49, B:S.88, B:S.88, B:S.112, B:D.128 4IR.7: 22 residues within 4Å: Chain A: W.120, L.124 Chain B: N.207, L.209, S.211, Y.227, T.229, G.232, N.233, W.263, A.270, S.272, T.274, W.276, W.292, L.294, S.296, T.298, K.305, L.308, D.312 Ligands: 4IR.1 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:W.263, B:W.263, B:W.263, B:T.298, B:K.305, A:W.120 Hydrogen bonds: B:N.207, B:S.211, B:T.229, B:T.229, B:N.233, B:S.272, B:S.272, B:S.296, B:D.312

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: Q.208, L.209, W.292, G.310, C.311, D.312 Chain B: W.120 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.208, A:C.311, A:C.311, A:D.312 GOL.4: 5 residues within 4Å: Chain A: N.81, N.82, Y.83, R.84, N.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.84 GOL.5: 5 residues within 4Å: Chain A: N.265, N.266, Y.267, R.268, N.269 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.265, A:Y.267 GOL.8: 2 residues within 4Å: Chain B: Q.24, H.127 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Water bridges: B:Q.24, B:Q.24, B:H.127, B:H.127 Hydrogen bonds: A:T.129, A:T.129 GOL.9: 5 residues within 4Å: Chain B: N.265, N.266, Y.267, R.268, N.269 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.268

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, S. et al., Breaking Symmetry: Engineering Single-Chain Dimeric Streptavidin as Host for Artificial Metalloenzymes. J.Am.Chem.Soc. (2019)

Release Date

2019-09-25

Peptides

Streptavidin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Streptavidin