SMTL ID : 5faf.1

N184K pathological variant of gelsolin domain 2 (orthorhombic form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.05 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: G.39, D.40, E.62, D.112 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.62, A:E.62, A:D.112, H2O.3, H2O.5 CA.3: 1 residues within 4Å: Chain A: E.111 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.111, A:E.111, H2O.6, H2O.6

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: V.69, G.72, I.73, N.76, E.77 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.69, A:I.73, A:N.76, A:E.77 GOL.4: 5 residues within 4Å: Chain A: G.90, E.92, L.97, P.102, K.103 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.92, A:K.103 GOL.5: 5 residues within 4Å: Chain A: Q.52, C.54, R.63, T.67, V.86 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.52, A:T.67, A:T.67 Water bridges: A:C.54

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 1 residues within 4Å: Chain A: H.85 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: G.1, H.4 Ligand excluded by PLIP

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.8: 6 residues within 4Å: Chain A: Q.17, K.19, K.37, D.40, G.109, T.110 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.110 Hydrogen bonds: A:T.110 Water bridges: A:K.19 Salt bridges: A:K.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boni, F. et al., Molecular basis of a novel renal amyloidosis due to N184K gelsolin variant. Sci Rep (2016)

Release Date

2016-10-05

Peptides

Gelsolin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Gelsolin

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