SMTL ID : 4rg5.1

Crystal Structure of S. Pombe SMN YG-Dimer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 15 residues within 4Å: Chain A: D.14, K.15, W.62, A.63, D.65, R.66, E.111, E.153, P.154, Y.155, F.156, W.230, M.330, W.340, R.344 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.62, A:R.66, A:R.66, A:Y.155, A:R.344 Water bridges: A:R.66 GLC-GLC.2: 15 residues within 4Å: Chain B: N.12, D.14, K.15, W.62, A.63, D.65, R.66, E.111, E.153, P.154, Y.155, F.156, W.230, W.340, R.344 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:W.62, B:R.66, B:E.153, B:Y.155, B:R.344 Water bridges: B:E.44, B:D.65

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

SO4.3: 3 residues within 4Å: Chain A: P.40, D.41, K.46 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.41 Water bridges: A:D.41 Salt bridges: A:K.46 SO4.4: 5 residues within 4Å: Chain A: S.270, P.271, N.272, K.273, E.274 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.273, A:E.274 Water bridges: A:L.275 SO4.5: 2 residues within 4Å: Chain A: P.91, K.305 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.305, A:K.305 Salt bridges: A:K.305 SO4.6: 2 residues within 4Å: Chain A: Y.17, N.18 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.17, A:N.18 SO4.7: 2 residues within 4Å: Chain A: D.82, K.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.83 Water bridges: A:D.82, A:A.84 SO4.8: 2 residues within 4Å: Chain A: N.234, K.297 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.234, A:N.234 Water bridges: A:K.297, A:K.297 Salt bridges: A:K.297 SO4.9: 2 residues within 4Å: Chain B: N.185, A.186 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.186 Water bridges: B:G.187

2 x MLI: MALONATE ION(Non-functional Binders)

MLI.10: 5 residues within 4Å: Chain B: Y.90, F.92, E.308, M.321, Q.325 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.90, B:F.92 Hydrogen bonds: B:V.302, B:E.308 MLI.11: 7 residues within 4Å: Chain B: E.22, V.23, K.26, Y.283, T.286, E.288, G.289 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:V.23, B:K.26 Hydrogen bonds: B:E.22, B:T.286, B:E.288 Water bridges: B:A.292

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gupta, K. et al., Oligomeric Properties of Survival Motor NeuronGemin2 Complexes. J.Biol.Chem. (2015)

Release Date

2015-07-01

Peptides

Maltose-binding periplasmic protein, Survival Motor Neuron protein chimera: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Maltose-binding periplasmic protein, Survival Motor Neuron protein chimera