SMTL ID : 4l59.1

Crystal structure of the 3-MBT repeat domain of L3MBTL3 and UNC2533 complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

homo-dimer

Ligands

2 x 1VZ: 4-(pyrrolidin-1-yl)-1-{4-[2-(pyrrolidin-1-yl)ethyl]phenyl}piperidine(Non-covalent)

1VZ.1: 13 residues within 4Å: Chain A: D.47, H.50, C.55, F.71, Y.74, Y.78 Chain B: D.154, N.157, F.160, C.162, F.178, W.181, Y.185 16 PLIP interactions: 6 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:F.71, A:Y.78, A:Y.78, B:F.160, B:F.178, B:F.178, B:W.181, B:W.181, B:W.181, B:Y.185 Salt bridges: A:D.47, B:D.154 pi-Stacking: A:H.50 pi-Cation interactions: A:Y.74, B:W.181, B:W.181 1VZ.15: 13 residues within 4Å: Chain A: D.154, N.157, F.160, C.162, F.178, W.181, Y.185 Chain B: D.47, H.50, C.55, F.71, Y.74, Y.78 16 PLIP interactions: 10 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:F.160, A:F.178, A:F.178, A:W.181, A:W.181, A:W.181, A:Y.185, B:F.71, B:Y.78, B:Y.78 Salt bridges: A:D.154, B:D.47 pi-Cation interactions: A:W.181, A:W.181, B:Y.74 pi-Stacking: B:H.50

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

SO4.2: 4 residues within 4Å: Chain A: H.281, D.283, G.284, W.285 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.284, A:W.285 Salt bridges: A:H.281 SO4.16: 4 residues within 4Å: Chain B: H.281, D.283, G.284, W.285 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.284, B:W.285 Salt bridges: B:H.281

24 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 1 residues within 4Å: Chain A: V.303 Ligand excluded by PLIP UNX.4: 1 residues within 4Å: Chain A: C.77 Ligand excluded by PLIP UNX.5: 4 residues within 4Å: Chain A: C.6, S.9, Y.10, E.13 Ligand excluded by PLIP UNX.6: 5 residues within 4Å: Chain A: H.27, S.29, Y.65, D.85, W.305 Ligand excluded by PLIP UNX.7: 3 residues within 4Å: Chain A: K.68, W.81, M.263 Ligand excluded by PLIP UNX.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.10: 2 residues within 4Å: Chain A: P.128, K.129 Ligand excluded by PLIP UNX.11: 2 residues within 4Å: Chain A: I.89, E.133 Ligand excluded by PLIP UNX.12: 2 residues within 4Å: Chain A: H.177, N.180 Ligand excluded by PLIP UNX.13: 2 residues within 4Å: Chain A: D.258, R.260 Ligand excluded by PLIP UNX.14: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.17: 1 residues within 4Å: Chain B: V.303 Ligand excluded by PLIP UNX.18: 1 residues within 4Å: Chain B: C.77 Ligand excluded by PLIP UNX.19: 4 residues within 4Å: Chain B: C.6, S.9, Y.10, E.13 Ligand excluded by PLIP UNX.20: 5 residues within 4Å: Chain B: H.27, S.29, Y.65, D.85, W.305 Ligand excluded by PLIP UNX.21: 3 residues within 4Å: Chain B: K.68, W.81, M.263 Ligand excluded by PLIP UNX.22: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.23: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.24: 2 residues within 4Å: Chain B: P.128, K.129 Ligand excluded by PLIP UNX.25: 2 residues within 4Å: Chain B: I.89, E.133 Ligand excluded by PLIP UNX.26: 2 residues within 4Å: Chain B: H.177, N.180 Ligand excluded by PLIP UNX.27: 2 residues within 4Å: Chain B: D.258, R.260 Ligand excluded by PLIP UNX.28: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Camerino, M.A. et al., The structure-activity relationships of L3MBTL3 inhibitors: flexibility of the dimer interface. Medchemcomm (2013)

Release Date

2013-07-10

Peptides

Lethal(3)malignant brain tumor-like protein 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Lethal(3)malignant brain tumor-like protein 3