SMTL ID : 9b3a.1

filament of type 1 KD-mxyl miniature tau macrocycle derived from 4R tauopathic fold

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-15-mer

Ligands

15 x SER- VAL- GLN- ILE- VAL- TYR- LYS: SER-VAL-GLN-ILE-VAL-TYR-LYS

SER-VAL-GLN-ILE-VAL-TYR-LYS.1: 21 residues within 4Å: Chain A: G.12, V.14, I.16, Y.18 Chain L: G.12, V.14, I.16 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain L Hydrophobic interactions: A:I.16, A:Y.18, L:V.14, L:V.14, L:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.2: 21 residues within 4Å: Chain B: G.12, V.14, I.16, Y.18 Chain O: G.12, V.14, I.16 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15 5 PLIP interactions: 3 interactions with chain O, 2 interactions with chain B Hydrophobic interactions: O:V.14, O:V.14, O:I.16, B:I.16, B:Y.18 SER-VAL-GLN-ILE-VAL-TYR-LYS.3: 20 residues within 4Å: Chain A: G.12, I.16 Chain C: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.7, SER-VAL-GLN-ILE-VAL-TYR-LYS.7, SER-VAL-GLN-ILE-VAL-TYR-LYS.7, SER-VAL-GLN-ILE-VAL-TYR-LYS.7, SER-VAL-GLN-ILE-VAL-TYR-LYS.7, SER-VAL-GLN-ILE-VAL-TYR-LYS.7, SER-VAL-GLN-ILE-VAL-TYR-LYS.7 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:V.14, C:I.16, C:Y.18, A:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.4: 21 residues within 4Å: Chain D: G.12, V.14, I.16, Y.18 Chain N: G.12, V.14, I.16 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain N Hydrophobic interactions: D:I.16, D:Y.18, N:V.14, N:V.14, N:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.5: 21 residues within 4Å: Chain D: G.12, V.14, I.16 Chain E: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.9, SER-VAL-GLN-ILE-VAL-TYR-LYS.9, SER-VAL-GLN-ILE-VAL-TYR-LYS.9, SER-VAL-GLN-ILE-VAL-TYR-LYS.9, SER-VAL-GLN-ILE-VAL-TYR-LYS.9, SER-VAL-GLN-ILE-VAL-TYR-LYS.9, SER-VAL-GLN-ILE-VAL-TYR-LYS.9 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain E Hydrophobic interactions: D:I.16, E:V.14, E:I.16, E:Y.18 SER-VAL-GLN-ILE-VAL-TYR-LYS.6: 20 residues within 4Å: Chain B: G.12, I.16 Chain F: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.8, SER-VAL-GLN-ILE-VAL-TYR-LYS.8, SER-VAL-GLN-ILE-VAL-TYR-LYS.8, SER-VAL-GLN-ILE-VAL-TYR-LYS.8, SER-VAL-GLN-ILE-VAL-TYR-LYS.8, SER-VAL-GLN-ILE-VAL-TYR-LYS.8, SER-VAL-GLN-ILE-VAL-TYR-LYS.8 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain B Hydrophobic interactions: F:V.14, F:I.16, F:Y.18, B:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.7: 14 residues within 4Å: Chain C: G.12, V.14, I.16 Chain G: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3, SER-VAL-GLN-ILE-VAL-TYR-LYS.3 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain G Hydrophobic interactions: C:V.14, C:V.14, C:I.16, G:I.16, G:Y.18 SER-VAL-GLN-ILE-VAL-TYR-LYS.8: 14 residues within 4Å: Chain F: G.12, V.14, I.16 Chain H: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6, SER-VAL-GLN-ILE-VAL-TYR-LYS.6 5 PLIP interactions: 2 interactions with chain H, 3 interactions with chain F Hydrophobic interactions: H:I.16, H:Y.18, F:V.14, F:V.14, F:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.9: 14 residues within 4Å: Chain E: G.12, V.14, I.16 Chain I: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5, SER-VAL-GLN-ILE-VAL-TYR-LYS.5 5 PLIP interactions: 2 interactions with chain I, 3 interactions with chain E Hydrophobic interactions: I:I.16, I:Y.18, E:V.14, E:V.14, E:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.10: 11 residues within 4Å: Chain J: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12, SER-VAL-GLN-ILE-VAL-TYR-LYS.12 3 PLIP interactions: 3 interactions with chain J Hydrophobic interactions: J:V.14, J:I.16, J:Y.18 SER-VAL-GLN-ILE-VAL-TYR-LYS.11: 11 residues within 4Å: Chain K: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15, SER-VAL-GLN-ILE-VAL-TYR-LYS.15 3 PLIP interactions: 3 interactions with chain K Hydrophobic interactions: K:V.14, K:I.16, K:Y.18 SER-VAL-GLN-ILE-VAL-TYR-LYS.12: 20 residues within 4Å: Chain J: G.12, I.16 Chain L: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.1, SER-VAL-GLN-ILE-VAL-TYR-LYS.10, SER-VAL-GLN-ILE-VAL-TYR-LYS.10, SER-VAL-GLN-ILE-VAL-TYR-LYS.10, SER-VAL-GLN-ILE-VAL-TYR-LYS.10, SER-VAL-GLN-ILE-VAL-TYR-LYS.10, SER-VAL-GLN-ILE-VAL-TYR-LYS.10, SER-VAL-GLN-ILE-VAL-TYR-LYS.10 4 PLIP interactions: 3 interactions with chain L, 1 interactions with chain J Hydrophobic interactions: L:V.14, L:I.16, L:Y.18, J:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.13: 11 residues within 4Å: Chain M: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14, SER-VAL-GLN-ILE-VAL-TYR-LYS.14 3 PLIP interactions: 3 interactions with chain M Hydrophobic interactions: M:V.14, M:I.16, M:Y.18 SER-VAL-GLN-ILE-VAL-TYR-LYS.14: 21 residues within 4Å: Chain M: G.12, V.14, I.16 Chain N: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.4, SER-VAL-GLN-ILE-VAL-TYR-LYS.13, SER-VAL-GLN-ILE-VAL-TYR-LYS.13, SER-VAL-GLN-ILE-VAL-TYR-LYS.13, SER-VAL-GLN-ILE-VAL-TYR-LYS.13, SER-VAL-GLN-ILE-VAL-TYR-LYS.13, SER-VAL-GLN-ILE-VAL-TYR-LYS.13, SER-VAL-GLN-ILE-VAL-TYR-LYS.13 4 PLIP interactions: 3 interactions with chain N, 1 interactions with chain M Hydrophobic interactions: N:V.14, N:I.16, N:Y.18, M:I.16 SER-VAL-GLN-ILE-VAL-TYR-LYS.15: 20 residues within 4Å: Chain K: G.12, I.16 Chain O: G.12, V.14, I.16, Y.18 Ligands: SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.2, SER-VAL-GLN-ILE-VAL-TYR-LYS.11, SER-VAL-GLN-ILE-VAL-TYR-LYS.11, SER-VAL-GLN-ILE-VAL-TYR-LYS.11, SER-VAL-GLN-ILE-VAL-TYR-LYS.11, SER-VAL-GLN-ILE-VAL-TYR-LYS.11, SER-VAL-GLN-ILE-VAL-TYR-LYS.11, SER-VAL-GLN-ILE-VAL-TYR-LYS.11 4 PLIP interactions: 1 interactions with chain K, 3 interactions with chain O Hydrophobic interactions: K:I.16, O:V.14, O:I.16, O:Y.18

15 x NH2: AMINO GROUP

NH2.16: 5 residues within 4Å: Chain A: X.1, V.21, C.22 Chain L: V.21, C.22 1 PLIP interactions: 1 interactions with chain L Hydrogen bonds: L:V.21 NH2.18: 5 residues within 4Å: Chain B: X.1, V.21, C.22 Chain O: V.21, C.22 1 PLIP interactions: 1 interactions with chain O Hydrogen bonds: O:V.21 NH2.20: 5 residues within 4Å: Chain A: V.21, C.22 Chain C: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.21 NH2.22: 5 residues within 4Å: Chain D: X.1, V.21, C.22 Chain N: V.21, C.22 1 PLIP interactions: 1 interactions with chain N Hydrogen bonds: N:V.21 NH2.24: 5 residues within 4Å: Chain D: V.21, C.22 Chain E: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:V.21 NH2.26: 5 residues within 4Å: Chain B: V.21, C.22 Chain F: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.21 NH2.28: 5 residues within 4Å: Chain C: V.21, C.22 Chain G: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:V.21 NH2.30: 5 residues within 4Å: Chain F: V.21, C.22 Chain H: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:V.21 NH2.32: 5 residues within 4Å: Chain E: V.21, C.22 Chain I: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:V.21 NH2.34: 3 residues within 4Å: Chain J: X.1, V.21, C.22 No protein-ligand interaction detected (PLIP) NH2.36: 3 residues within 4Å: Chain K: X.1, V.21, C.22 No protein-ligand interaction detected (PLIP) NH2.38: 5 residues within 4Å: Chain J: V.21, C.22 Chain L: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain J Hydrogen bonds: J:V.21 NH2.40: 3 residues within 4Å: Chain M: X.1, V.21, C.22 No protein-ligand interaction detected (PLIP) NH2.42: 5 residues within 4Å: Chain M: V.21, C.22 Chain N: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain M Hydrogen bonds: M:V.21 NH2.44: 5 residues within 4Å: Chain K: V.21, C.22 Chain O: X.1, V.21, C.22 1 PLIP interactions: 1 interactions with chain K Hydrogen bonds: K:V.21

15 x 8VH: 1,3-dimethylbenzene

8VH.17: 6 residues within 4Å: Chain A: C.2, V.17, P.20, C.22 Chain C: C.2 Ligands: 8VH.39 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.17, A:V.17, A:P.20 8VH.19: 6 residues within 4Å: Chain B: C.2, V.17, P.20, C.22 Chain F: C.2 Ligands: 8VH.45 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.17, B:V.17, B:P.20 8VH.21: 6 residues within 4Å: Chain C: C.2, V.17, P.20, C.22 Chain G: C.2 Ligands: 8VH.29 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.17, C:V.17, C:P.20 8VH.23: 5 residues within 4Å: Chain D: C.2, V.17, P.20, C.22 Chain E: C.2 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:V.17, D:V.17, D:P.20 8VH.25: 5 residues within 4Å: Chain E: C.2, V.17, P.20, C.22 Chain I: C.2 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:V.17, E:V.17, E:P.20 8VH.27: 5 residues within 4Å: Chain F: C.2, V.17, P.20, C.22 Chain H: C.2 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:V.17, F:V.17, F:P.20 8VH.29: 5 residues within 4Å: Chain G: C.2, V.17, P.20, C.22 Ligands: 8VH.21 3 PLIP interactions: 3 interactions with chain G Hydrophobic interactions: G:V.17, G:V.17, G:P.20 8VH.31: 4 residues within 4Å: Chain H: C.2, V.17, P.20, C.22 3 PLIP interactions: 3 interactions with chain H Hydrophobic interactions: H:V.17, H:V.17, H:P.20 8VH.33: 4 residues within 4Å: Chain I: C.2, V.17, P.20, C.22 3 PLIP interactions: 3 interactions with chain I Hydrophobic interactions: I:V.17, I:V.17, I:P.20 8VH.35: 5 residues within 4Å: Chain J: C.2, V.17, P.20, C.22 Chain L: C.2 3 PLIP interactions: 3 interactions with chain J Hydrophobic interactions: J:V.17, J:V.17, J:P.20 8VH.37: 5 residues within 4Å: Chain K: C.2, V.17, P.20, C.22 Chain O: C.2 3 PLIP interactions: 3 interactions with chain K Hydrophobic interactions: K:V.17, K:V.17, K:P.20 8VH.39: 6 residues within 4Å: Chain A: C.2 Chain L: C.2, V.17, P.20, C.22 Ligands: 8VH.17 3 PLIP interactions: 3 interactions with chain L Hydrophobic interactions: L:V.17, L:V.17, L:P.20 8VH.41: 5 residues within 4Å: Chain M: C.2, V.17, P.20, C.22 Chain N: C.2 3 PLIP interactions: 3 interactions with chain M Hydrophobic interactions: M:V.17, M:V.17, M:P.20 8VH.43: 5 residues within 4Å: Chain D: C.2 Chain N: C.2, V.17, P.20, C.22 3 PLIP interactions: 3 interactions with chain N Hydrophobic interactions: N:V.17, N:V.17, N:P.20 8VH.45: 6 residues within 4Å: Chain B: C.2 Chain O: C.2, V.17, P.20, C.22 Ligands: 8VH.19 3 PLIP interactions: 3 interactions with chain O Hydrophobic interactions: O:V.17, O:V.17, O:P.20

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, X. et al., Structure-based design of seed-competent proteomimetic macrocycles derived from 4R tauopathic folds. To Be Published

Release Date

2025-03-26

Peptides

Microtubule-associated protein tau: ABCDEFGHIJKLMNO

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

D
G

E
I

F
K

G
M

H
O

I
Q

J
S

K
U

L
W

M
Y

N
a

O
c

Microtubule-associated protein tau

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