SMTL ID : 4wnx.1

Netrin 4 lacking the C-terminal Domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

monomer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: P.286, V.316, W.319, N.324 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.316 NAG-NAG.2: 3 residues within 4Å: Chain A: N.134, S.136, A.137 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)

NAG.3: 3 residues within 4Å: Chain A: Q.26, N.27 Ligands: NAG.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.26 Hydrogen bonds: A:N.27 NAG.4: 1 residues within 4Å: Ligands: NAG.3 No protein-ligand interaction detected (PLIP)

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 6 residues within 4Å: Chain A: A.64, M.65, D.67, T.75, Y.225, D.226 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.67, A:T.75, A:T.75, A:Y.225, H2O.1

1 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)

TAM.6: 4 residues within 4Å: Chain A: C.1, E.2, C.5, D.240 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.2, A:D.240

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reuten, R. et al., Structural decoding of netrin-4 reveals a regulatory function towards mature basement membranes. Nat Commun (2016)

Release Date

2016-02-10

Peptides

Netrin-4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Netrin-4