SMTL ID : 6pol.2 (2 other biounits)

Crystal structure of the human NELL1 EGF1-3-Robo3 FN1 complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

3 x NO3: NITRATE ION(Non-functional Binders)

NO3.1: 5 residues within 4Å: Chain A: G.62, V.63, Q.64, L.65, H.68 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.62, A:Q.64, A:L.65 Water bridges: A:T.67, A:H.68 NO3.2: 7 residues within 4Å: Chain A: S.49, P.50, A.51, N.76, T.77, I.78, R.102 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.51, A:N.76, A:I.78, A:R.102 NO3.5: 4 residues within 4Å: Chain B: W.24, N.25, T.26, K.27 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.25, B:T.26, B:K.27, B:K.27

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

NAG.3: 2 residues within 4Å: Chain B: N.125, T.127 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.125, B:T.127, B:T.127

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 6 residues within 4Å: Chain B: D.48, I.49, E.51, N.67, L.68, L.71 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.48, B:I.49, B:L.68, B:L.71, H2O.4

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain B: M.56, C.59, H.60, T.63, C.65 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:M.56, B:H.60 Water bridges: B:C.59, B:T.63, B:C.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pak, J.S. et al., NELL2-Robo3 complex structure reveals mechanisms of receptor activation for axon guidance. Nat Commun (2020)

Release Date

2020-05-06

Peptides

Roundabout homolog 3: A
Protein kinase C-binding protein NELL1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Roundabout homolog 3

Protein kinase C-binding protein NELL1

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