SMTL ID : 6vp2.1

Artificial Metalloproteins with Dinuclear Iron Centers

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x KM3: {N-(4-{bis[(pyridin-2-yl-kappaN)methyl]amino-kappaN}butyl)-5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide}iron(3+)(Covalent)

KM3.1: 23 residues within 4Å: Chain A: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, W.79, A.86, S.88, T.90, W.92, W.108, L.110, S.112, A.121, Y.124, D.128 Chain D: W.120, A.121 Ligands: AZI.2, KM3.8 18 PLIP interactions: 2 interactions with chain D, 15 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: D:W.120, D:A.121, A:W.79, A:W.79, A:W.79, A:L.110, A:L.110, A:Y.124 Hydrogen bonds: A:N.23, A:S.27, A:Y.43, A:S.45, A:N.49, A:S.88, A:S.88, A:D.128 Metal complexes: A:Y.124, H2O.1 KM3.4: 23 residues within 4Å: Chain B: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, W.79, A.86, S.88, T.90, W.92, W.108, L.110, S.112, A.121, Y.124, D.128 Chain C: W.120, A.121 Ligands: AZI.5, KM3.6 17 PLIP interactions: 14 interactions with chain B, 2 interactions with chain C, 1 Ligand-Water interactions Hydrophobic interactions: B:W.79, B:W.79, B:W.79, B:L.110, B:L.110, B:Y.124, C:W.120, C:A.121 Hydrogen bonds: B:N.23, B:S.27, B:S.45, B:N.49, B:S.88, B:S.88, B:D.128 Metal complexes: B:Y.124, H2O.9 KM3.6: 23 residues within 4Å: Chain B: W.120, A.121 Chain C: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, W.79, A.86, S.88, T.90, W.92, W.108, L.110, S.112, A.121, Y.124, D.128 Ligands: KM3.4, AZI.5 16 PLIP interactions: 14 interactions with chain C, 1 interactions with chain B, 1 Ligand-Water interactions Hydrophobic interactions: C:W.79, C:W.79, C:W.79, C:L.110, C:L.110, C:Y.124, B:A.121 Hydrogen bonds: C:N.23, C:S.27, C:S.45, C:N.49, C:S.88, C:S.88, C:D.128 Metal complexes: C:Y.124, H2O.9 KM3.8: 23 residues within 4Å: Chain A: W.120, A.121 Chain D: N.23, L.25, S.27, Y.43, S.45, V.47, G.48, N.49, W.79, A.86, S.88, T.90, W.92, W.108, L.110, S.112, A.121, Y.124, D.128 Ligands: KM3.1, AZI.2 18 PLIP interactions: 15 interactions with chain D, 2 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: D:W.79, D:W.79, D:W.79, D:L.110, D:L.110, D:Y.124, A:W.120, A:A.121 Hydrogen bonds: D:N.23, D:S.27, D:Y.43, D:S.45, D:N.49, D:S.88, D:S.88, D:D.128 Metal complexes: D:Y.124, H2O.1

2 x AZI: AZIDE ION(Non-functional Binders)

AZI.2: 2 residues within 4Å: Ligands: KM3.1, KM3.8 No protein-ligand interaction detected (PLIP) AZI.5: 2 residues within 4Å: Ligands: KM3.4, KM3.6 No protein-ligand interaction detected (PLIP)

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 2 residues within 4Å: Chain A: Y.83, R.84 No protein-ligand interaction detected (PLIP) ACT.7: 3 residues within 4Å: Chain C: Y.83, R.84, N.85 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miller, K.R. et al., Artificial Metalloproteins with Dinuclear Iron-Hydroxido Centers. J.Am.Chem.Soc. (2021)

Release Date

2021-02-03

Peptides

Streptavidin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Streptavidin

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