SMTL ID : 9fnr.1

Artificial metalloenzyme with a nickel-based 1,10-phenanthroline cofactor and streptavidin S112V mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

homo-tetramer

Ligands

4 x 01: N-methyl-N-[(4,4,6,6-tetrahydroxy-4,6-dioxido-1,3,3a,5,6a-tetrahydrothien[3,4-d]imidazol-4-ium-2-yl)methyl]-5-(2,4,4-trihydroxy-2-keto-3,3a,5,6-tetrahydro-1H-thien[3,4-d]imidazol-4-ium-6-yl

01.1: 20 residues within 4Å: Chain A: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, A.50, W.79, A.86, S.88, T.90, W.92, W.108, L.110, V.112, L.124, D.128 Chain C: W.120 18 PLIP interactions: 14 interactions with chain A, 2 interactions with chain C, 2 Ligand-Ligand interactions Hydrophobic interactions: A:N.49, A:A.50, A:W.79, A:W.79, A:A.86, A:V.112, C:W.120 Hydrogen bonds: A:N.23, A:S.27, A:Y.43, A:S.45, A:S.45, A:N.49, A:S.88, A:D.128 pi-Cation interactions: C:K.121 Metal complexes: 01.1, 01.1 01.3: 20 residues within 4Å: Chain B: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, A.50, W.79, A.86, S.88, T.90, W.92, W.108, L.110, V.112, L.124, D.128 Chain D: W.120 17 PLIP interactions: 13 interactions with chain B, 2 interactions with chain D, 2 Ligand-Ligand interactions Hydrophobic interactions: B:N.49, B:A.50, B:W.79, B:W.79, B:A.86, B:V.112, D:W.120 Hydrogen bonds: B:N.23, B:S.27, B:Y.43, B:S.45, B:S.45, B:S.88, B:D.128 pi-Cation interactions: D:K.121 Metal complexes: 01.3, 01.3 01.5: 20 residues within 4Å: Chain A: W.120 Chain C: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, A.50, W.79, A.86, S.88, T.90, W.92, W.108, L.110, V.112, L.124, D.128 18 PLIP interactions: 14 interactions with chain C, 2 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: C:N.49, C:A.50, C:W.79, C:W.79, C:A.86, C:V.112, A:W.120 Hydrogen bonds: C:N.23, C:S.27, C:Y.43, C:S.45, C:S.45, C:N.49, C:S.88, C:D.128 pi-Cation interactions: A:K.121 Metal complexes: 01.5, 01.5 01.7: 20 residues within 4Å: Chain B: W.120 Chain D: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, A.50, W.79, A.86, S.88, T.90, W.92, W.108, L.110, V.112, L.124, D.128 17 PLIP interactions: 13 interactions with chain D, 2 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: D:N.49, D:A.50, D:W.79, D:W.79, D:A.86, D:V.112, B:W.120 Hydrogen bonds: D:N.23, D:S.27, D:Y.43, D:S.45, D:S.45, D:S.88, D:D.128 pi-Cation interactions: B:K.121 Metal complexes: 01.7, 01.7

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: K.80, N.81, N.82, Y.83, R.84, N.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.81 SO4.4: 6 residues within 4Å: Chain B: K.80, N.81, N.82, Y.83, R.84, N.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.81 SO4.6: 6 residues within 4Å: Chain C: K.80, N.81, N.82, Y.83, R.84, N.85 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.81 SO4.8: 6 residues within 4Å: Chain D: K.80, N.81, N.82, Y.83, R.84, N.85 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W. et al., Artificial Metalloenzymes with Two Catalytic Cofactors for Tandem Abiotic Transformations. Angew.Chem.Int.Ed.Engl. (2025)

Release Date

2025-01-15

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Streptavidin