SMTL ID : 5o4f.2 (1 other biounit)

Structure of GluK3 ligand-binding domain (S1S2) in complex with the agonist LM-12b at 2.10 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: E.15, E.16, N.174, E.175, T.194 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.16, A:N.174 Water bridges: A:L.14, A:E.15, A:E.16, A:E.175, A:T.194

1 x 8VE: (3~{a}~{R},4~{S},6~{a}~{R})-1-methyl-4,5,6,6~{a}-tetrahydro-3~{a}~{H}-pyrrolo[3,4-c]pyrazole-3,4-dicarboxylic acid(Non-covalent)

8VE.2: 14 residues within 4Å: Chain A: E.15, Y.63, P.90, L.91, T.92, R.97, G.142, A.143, T.144, N.174, M.190, E.191, T.194, Y.217 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:P.90, A:T.92, A:T.92, A:A.143, A:T.144, A:T.144, A:N.174, A:E.191 Water bridges: A:E.191, A:E.191 Salt bridges: A:R.97

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 2 residues within 4Å: Chain A: E.196, K.248 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.196, A:E.196 ZN.4: 2 residues within 4Å: Chain A: H.82 Ligands: ZN.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.82 ZN.5: 3 residues within 4Å: Chain A: H.82 Ligands: ZN.4, ACT.8 No protein-ligand interaction detected (PLIP)

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

CL.6: 3 residues within 4Å: Chain A: R.33, R.56, L.57 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain A: K.62, Y.63, D.141 Ligand excluded by PLIP

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

ACT.8: 2 residues within 4Å: Chain A: R.6 Ligands: ZN.5 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mllerud, S. et al., Structure and Affinity of Two Bicyclic Glutamate Analogues at AMPA and Kainate Receptors. ACS Chem Neurosci (2017)

Release Date

2017-07-26

Peptides

Glutamate receptor ionotropic, kainate 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glutamate receptor ionotropic, kainate 3

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