SMTL ID : 5wbx.2 (1 other biounit)

Structural insights into the potency of SK/IK channel positive modulators

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

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

SO4.1: 1 residues within 4Å: Chain A: R.56 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.53 Salt bridges: A:R.56 SO4.2: 1 residues within 4Å: Chain A: H.52 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.52 SO4.3: 6 residues within 4Å: Chain A: R.35, K.57, H.58, K.61 Chain D: E.113 Ligands: SO4.4 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain D Water bridges: A:R.35, A:K.57, A:H.58, D:E.113, D:E.113 Salt bridges: A:R.35, A:K.57, A:H.58, A:K.61 SO4.4: 4 residues within 4Å: Chain A: K.57, R.60, K.61 Ligands: SO4.3 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.60, A:K.61 SO4.10: 1 residues within 4Å: Chain C: R.56 2 PLIP interactions: 2 interactions with chain C Water bridges: C:A.53 Salt bridges: C:R.56 SO4.11: 1 residues within 4Å: Chain C: H.52 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:H.52 SO4.12: 6 residues within 4Å: Chain B: E.113 Chain C: R.35, K.57, H.58, K.61 Ligands: SO4.13 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B Water bridges: C:R.35, C:R.35, C:K.57, C:H.58, B:E.113 Salt bridges: C:R.35, C:K.57, C:H.58, C:K.61 SO4.13: 4 residues within 4Å: Chain C: K.57, R.60, K.61 Ligands: SO4.12 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:R.60, C:K.61

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain C: D.51, H.52, A.53, R.56 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:D.51, C:H.52, C:A.53, C:R.56, C:R.56 GOL.9: 4 residues within 4Å: Chain B: K.93, I.99, S.100, E.103 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.100, B:S.100 Water bridges: B:K.93, B:K.93, B:N.96, B:Y.98, B:Y.98, B:Q.134, B:Q.134 GOL.14: 4 residues within 4Å: Chain A: D.51, H.52, A.53, R.56 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.51, A:D.51, A:H.52, A:A.53, A:R.56, A:R.56 GOL.18: 4 residues within 4Å: Chain D: K.93, I.99, S.100, E.103 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:S.100, D:S.100 Water bridges: D:K.93, D:K.93, D:N.96, D:Y.98, D:Y.98, D:Q.134, D:Q.134

4 x CA: CALCIUM ION(Non-covalent)

CA.6: 5 residues within 4Å: Chain B: D.19, D.21, D.23, T.25, E.30 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.19, B:T.25, B:E.30, B:E.30, H2O.6 CA.7: 5 residues within 4Å: Chain B: D.55, D.57, N.59, T.61, E.66 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.55, B:D.57, B:T.61, H2O.5, H2O.6 CA.15: 5 residues within 4Å: Chain D: D.19, D.21, D.23, T.25, E.30 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.19, D:T.25, D:E.30, D:E.30, H2O.14 CA.16: 5 residues within 4Å: Chain D: D.55, D.57, N.59, T.61, E.66 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.55, D:D.57, D:T.61, H2O.14, H2O.14

2 x AJY: (3Z)-6-bromo-3-(hydroxyimino)-5-methyl-1,3-dihydro-2H-indol-2-one(Non-covalent)

AJY.8: 14 residues within 4Å: Chain A: F.16, A.83, L.86, V.87 Chain B: I.26, L.31, M.50, E.53, V.54, I.62, F.67, M.70, M.71, K.74 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:V.54, B:I.62, B:F.67, A:L.86, A:L.86, A:V.87 Hydrogen bonds: B:M.50, B:K.74 Water bridges: B:K.74 AJY.17: 14 residues within 4Å: Chain C: F.16, A.83, L.86, V.87 Chain D: I.26, L.31, M.50, E.53, V.54, I.62, F.67, M.70, M.71, K.74 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:V.54, D:I.62, D:F.67, C:L.86, C:L.86, C:V.87 Hydrogen bonds: D:M.50, D:K.74 Water bridges: D:K.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nam, Y.W. et al., Structural insights into the potency of SK channel positive modulators. Sci Rep (2017)

Release Date

2017-12-20

Peptides

Small conductance calcium-activated potassium channel protein 2: AC
Calmodulin-1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
B

B
R

D
R

Small conductance calcium-activated potassium channel protein 2

Calmodulin-1

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