SMTL ID : 4l72.3 (2 other biounits)

Crystal structure of MERS-CoV complexed with human DPP4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

homo-dimer

Ligands

4 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: 6 residues within 4Å: Chain A: N.181, T.183, N.234, Q.270, E.271, E.294 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.234, A:E.294, A:E.294 NAG-NAG.3: 3 residues within 4Å: Chain A: W.149, V.241, N.243 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 6 residues within 4Å: Chain B: N.181, T.183, N.234, Q.270, E.271, E.294 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.234, B:Y.292, B:E.294 NAG-NAG.11: 3 residues within 4Å: Chain B: W.149, V.241, N.243 No protein-ligand interaction detected (PLIP)

2 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(Post Translational Modification)

NAG-NAG-BMA.2: 6 residues within 4Å: Chain A: I.156, Q.189, N.191, T.193, E.194, K.229 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.193 NAG-NAG-BMA.10: 6 residues within 4Å: Chain B: I.156, Q.189, N.191, T.193, E.194, K.229 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:T.193

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

NAG.4: 4 residues within 4Å: Chain A: E.29, N.42, N.47, S.49 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.42, A:N.47, A:S.49 NAG.5: 4 residues within 4Å: Chain A: E.35, N.36, N.37, N.54 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.35, A:N.37, A:N.54 NAG.6: 3 residues within 4Å: Chain A: R.109, I.110, N.112 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.109 Hydrogen bonds: A:N.112 NAG.7: 4 residues within 4Å: Chain A: N.283, M.310, S.311, R.558 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.558 NAG.8: 4 residues within 4Å: Chain A: L.481, N.482, R.543, D.567 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.481 Hydrogen bonds: A:R.543, A:R.543 NAG.12: 4 residues within 4Å: Chain B: E.29, N.42, N.47, S.49 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.42, B:N.47, B:S.49 NAG.13: 4 residues within 4Å: Chain B: E.35, N.36, N.37, N.54 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.35, B:N.37, B:N.54 NAG.14: 3 residues within 4Å: Chain B: R.109, I.110, N.112 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:R.109 Hydrogen bonds: B:N.112 NAG.15: 4 residues within 4Å: Chain B: N.283, M.310, S.311, R.558 No protein-ligand interaction detected (PLIP) NAG.16: 4 residues within 4Å: Chain B: L.481, N.482, R.543, D.567 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.481 Hydrogen bonds: B:R.543, B:R.543

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, N. et al., Structure of MERS-CoV spike receptor-binding domain complexed with human receptor DPP4. Cell Res. (2013)

Release Date

2013-08-21

Peptides

Dipeptidyl peptidase 4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Dipeptidyl peptidase 4

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