SMTL ID : 4w4z.4 (3 other biounits)

Structure of the EphA4 LBD in complex with peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

hetero-1-1-mer

Ligands

3 x HEZ: HEXANE-1,6-DIOL(Non-covalent)

HEZ.1: 5 residues within 4Å: Chain A: Y.73, I.145, R.146, D.147, K.177 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.73, A:I.145, A:I.145 Hydrogen bonds: A:K.177, A:K.177 Water bridges: A:I.145, A:R.146 HEZ.2: 7 residues within 4Å: Chain A: S.23, N.56, W.58, F.111, I.112, E.114, F.117 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.111 Hydrogen bonds: A:N.56 HEZ.3: 7 residues within 4Å: Chain A: G.68, A.69, Q.70, R.71, Y.73, Y.176, K.177 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.69, A:Y.176 Hydrogen bonds: A:G.68, A:R.71, A:K.177

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: R.71, D.147, V.148, G.149 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.71, A:R.71, A:G.149 GOL.5: 6 residues within 4Å: Chain A: T.7, L.8, L.9, D.10, S.13, V.14 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.10, A:S.13, A:S.13 Water bridges: A:D.10 GOL.6: 6 residues within 4Å: Chain B: P.2, Y.3, V.5, S.11, C.12, X.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.2, B:S.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lamberto, I. et al., Development and Structural Analysis of a Nanomolar Cyclic Peptide Antagonist for the EphA4 Receptor. Acs Chem.Biol. (2014)

Release Date

2014-10-08

Peptides

Ephrin type-A receptor 4: A
APY-bAla8.am peptide: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
H

Ephrin type-A receptor 4

APY-bAla8.am peptide

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