SMTL ID : 4zlr.1

Structure of the Brat-NHL domain bound to consensus RNA motif

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.1: 9 residues within 4Å: Chain A: K.59, F.60, Q.61, F.62, Q.103, Y.104, G.105, Q.106 Ligands: SO4.6 No protein-ligand interaction detected (PLIP)

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

SO4.2: 4 residues within 4Å: Chain A: K.14, R.268 Chain C: K.14, R.268 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain A Water bridges: C:R.268, C:R.268, A:R.268 Salt bridges: C:K.14, C:R.268, A:K.14, A:R.268 SO4.3: 2 residues within 4Å: Chain A: H.222, N.223 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.223 Water bridges: A:H.222, A:N.224, A:N.226 Salt bridges: A:H.222 SO4.4: 2 residues within 4Å: Chain A: R.82, I.210 4 PLIP interactions: 4 interactions with chain A Water bridges: A:T.123, A:T.123, A:V.124 Salt bridges: A:R.82 SO4.5: 3 residues within 4Å: Chain A: K.127, R.129, Q.171 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.171 Salt bridges: A:K.127, A:R.129 SO4.6: 2 residues within 4Å: Chain A: Q.106 Ligands: PE4.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.106 Water bridges: A:F.107 SO4.7: 5 residues within 4Å: Chain A: N.168, D.169, I.210, G.214, Q.232 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.169, A:Q.232 SO4.10: 4 residues within 4Å: Chain C: H.222, N.223, N.224, E.241 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.223 Water bridges: C:N.224, C:N.224 Salt bridges: C:H.222 SO4.11: 2 residues within 4Å: Chain C: R.82, I.210 1 PLIP interactions: 1 interactions with chain C Water bridges: C:T.123 SO4.12: 3 residues within 4Å: Chain C: N.223, N.224, K.245 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.223, C:N.224, C:N.224 Salt bridges: C:K.245

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.8: 8 residues within 4Å: Chain C: N.211, S.212, N.213, E.215, D.256, G.258, Y.274, V.275 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.212, C:N.213, C:D.256 Water bridges: C:S.212, C:S.259

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.9: 7 residues within 4Å: Chain C: H.12, D.257, S.259, R.273, V.275, Q.276, L.277 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.273, C:R.273

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loedige, I. et al., The Crystal Structure of the NHL Domain in Complex with RNA Reveals the Molecular Basis of Drosophila Brain-Tumor-Mediated Gene Regulation. Cell Rep (2015)

Release Date

2015-11-11

Peptides

Brain tumor protein: AC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

Brain tumor protein