SMTL ID : 8u4i.1

Structure of the HER4/NRG1b Homodimer Extracellular Domain

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

4 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 8 residues within 4Å: Chain A: F.521, E.522, N.523, G.524, I.526, C.527, V.528 Ligands: NAG-NAG-BMA-MAN-MAN.2 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 5 residues within 4Å: Chain A: N.448, T.450, T.451, S.484, D.485 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.12: 5 residues within 4Å: Chain B: N.448, T.450, T.451, S.484, D.485 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.13: 6 residues within 4Å: Chain B: F.521, N.523, G.524, I.526, V.528, P.547 No protein-ligand interaction detected (PLIP)

7 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.2: 8 residues within 4Å: Chain A: H.545, G.546, P.547, G.548, P.549, D.550, N.551 Ligands: NAG-NAG-BMA.1 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.4: 14 residues within 4Å: Chain A: Q.1, E.32, S.54, R.56, C.221, F.222, A.223, C.224, N.228, S.230, G.231, F.263 Ligands: NAG-NAG-BMA-MAN-MAN.7, NAG-NAG-BMA-MAN-MAN.7 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.5: 2 residues within 4Å: Chain A: I.332, N.333 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.7: 10 residues within 4Å: Chain A: R.56, E.75, N.76, R.78, K.112, N.113, S.214, F.222 Ligands: NAG-NAG-BMA-MAN-MAN.4, NAG-NAG-BMA-MAN-MAN.4 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.8: 9 residues within 4Å: Chain B: E.75, N.76, R.78, N.113, S.214, F.222 Ligands: NAG-NAG-BMA-MAN-MAN.9, NAG-NAG-BMA-MAN-MAN.9, NAG-NAG-BMA-MAN-MAN.9 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.222 NAG-NAG-BMA-MAN-MAN.9: 14 residues within 4Å: Chain B: Q.1, N.30, E.32, S.54, R.56, C.221, F.222, A.223, C.224, N.228, G.231, C.233, F.263 Ligands: NAG-NAG-BMA-MAN-MAN.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.1, B:R.56 NAG-NAG-BMA-MAN-MAN.14: 5 residues within 4Å: Chain B: H.545, G.546, P.547, D.550, N.551 No protein-ligand interaction detected (PLIP)

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.6: 2 residues within 4Å: Chain A: P.384, N.385 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 2 residues within 4Å: Chain B: P.384, N.385 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.10: 2 residues within 4Å: Chain B: I.332, N.333 No protein-ligand interaction detected (PLIP)

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

NAG.15: 4 residues within 4Å: Chain A: R.466, K.467, N.470, E.474 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.467 Hydrogen bonds: A:N.470 NAG.16: 2 residues within 4Å: Chain B: R.466, N.470 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.466, B:N.470

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Trenker, R. et al., Structure of the HER2/HER4/NRG1b Heterodimer Extracellular Domain. To Be Published

Release Date

2024-03-13

Peptides

Receptor tyrosine-protein kinase erbB-4: AB
Isoform 6 of Pro-neuregulin-1, membrane-bound isoform: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Receptor tyrosine-protein kinase erbB-4

Isoform 6 of Pro-neuregulin-1, membrane-bound isoform

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