SMTL ID : 4qf9.1 (1 other biounit)

Structure of GluK1 ligand-binding domain (S1S2) in complex with (S)-2-amino-4-(2,3-dioxo-1,2,3,4-tetrahydroquinoxalin-6-yl)butanoic acid at 2.28 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

homo-dimer

Ligands

2 x 35K: (2S)-2-amino-4-(2,3-dioxo-1,2,3,4-tetrahydroquinoxalin-6-yl)butanoic acid(Non-covalent)

35K.1: 10 residues within 4Å: Chain A: E.13, Y.16, Y.61, P.88, L.89, T.90, R.95, T.192, S.193, Y.216 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:E.13 Hydrogen bonds: A:P.88, A:T.90, A:T.90, A:R.95, A:R.95, A:T.192, A:Y.216 Water bridges: A:E.13, A:S.173 pi-Stacking: A:Y.61, A:Y.61 35K.5: 12 residues within 4Å: Chain B: E.13, E.14, Y.16, Y.61, P.88, L.89, T.90, R.95, L.108, E.190, T.192, Y.216 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:E.13, B:Y.61 Hydrogen bonds: B:E.13, B:E.13, B:E.14, B:P.88, B:T.90, B:T.90, B:R.95, B:R.95, B:T.192 pi-Stacking: B:Y.61

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

SO4.2: 5 residues within 4Å: Chain A: V.137, G.140, S.141, T.142, E.190 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.141, A:T.142, A:T.142, A:E.190 Water bridges: A:V.137, A:G.140, A:M.143, A:E.190, A:E.190 SO4.6: 7 residues within 4Å: Chain B: V.137, G.140, S.141, T.142, L.188, M.189, E.190 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.141, B:T.142, B:T.142, B:T.142, B:E.190, B:E.190

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

PG4.3: 3 residues within 4Å: Chain A: E.133, S.167, R.179 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.179, A:R.179 Water bridges: A:S.167

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

CL.4: 2 residues within 4Å: Chain A: K.171, N.172 Ligand excluded by PLIP

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

ACT.7: 4 residues within 4Å: Chain A: D.212, S.213 Chain B: L.243, H.244 1 PLIP interactions: 1 interactions with chain B Water bridges: B:H.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Demmer, C.S. et al., Binding Mode of an alpha-Amino Acid-Linked Quinoxaline-2,3-dione Analogue at Glutamate Receptor Subtype GluK1. ACS Chem Neurosci (2015)

Release Date

2015-04-22

Peptides

Glutamate receptor ionotropic, kainate 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Glutamate receptor ionotropic, kainate 1

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