SMTL ID : 9gti.1

X-ray crystal structure of mouse NPTN N-terminal domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-tetramer

Ligands

15 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 4 residues within 4Å: Chain A: L.44, T.45, D.47, K.148 Ligand excluded by PLIP PEG.2: 4 residues within 4Å: Chain A: T.60, E.62, Y.94, R.125 Ligand excluded by PLIP PEG.3: 4 residues within 4Å: Chain A: E.69, L.109, E.110, S.112 Ligand excluded by PLIP PEG.4: 4 residues within 4Å: Chain A: E.74, F.76, R.77 Ligands: PEG.5 Ligand excluded by PLIP PEG.5: 8 residues within 4Å: Chain A: W.66, A.73, F.76, R.118, N.131, P.132, S.133 Ligands: PEG.4 Ligand excluded by PLIP PEG.6: 4 residues within 4Å: Chain B: A.73, P.132 Ligands: PEG.10, PEG.13 Ligand excluded by PLIP PEG.7: 5 residues within 4Å: Chain B: V.90, N.91, T.92 Chain D: Y.52, V.99 Ligand excluded by PLIP PEG.8: 4 residues within 4Å: Chain A: S.40 Chain B: N.31, G.57, S.58 Ligand excluded by PLIP PEG.9: 6 residues within 4Å: Chain B: R.77, Q.78, W.80, A.83, R.84 Chain C: E.74 Ligand excluded by PLIP PEG.10: 9 residues within 4Å: Chain B: E.74, S.75, F.76, R.77 Chain C: E.74, S.75, F.76, R.77 Ligands: PEG.6 Ligand excluded by PLIP PEG.11: 3 residues within 4Å: Chain C: E.69, L.109, S.112 Ligand excluded by PLIP PEG.12: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PEG.13: 5 residues within 4Å: Chain A: N.131 Chain C: W.80, R.84, K.85 Ligands: PEG.6 Ligand excluded by PLIP PEG.14: 4 residues within 4Å: Chain D: T.60, E.62, Y.94, R.125 Ligand excluded by PLIP PEG.15: 4 residues within 4Å: Chain D: E.41, K.43, F.49, E.50 Ligand excluded by PLIP

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.16: 6 residues within 4Å: Chain D: Y.67, R.77, Q.78, L.79, W.80, R.84 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:R.77, D:R.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vinayagam, D. et al., X-ray crystal structure of mouse NPTN N-terminal domain. To Be Published

Release Date

2025-08-06

Peptides

Neuroplastin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Neuroplastin