- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-2-2-mer
- Ligands
- 14 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: 1 residues within 4Å:- Chain A: N.165
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.2: 3 residues within 4Å:- Chain A: T.108, N.234, T.236
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.12: 3 residues within 4Å:- Chain A: N.1095, H.1098, F.1100
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.13: 1 residues within 4Å:- Chain A: N.1131
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.15: 1 residues within 4Å:- Chain B: N.165
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.16: 3 residues within 4Å:- Chain B: T.108, N.234, T.236
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.20: 5 residues within 4Å:- Chain B: G.339, F.342, N.343
- Chain C: G.476, S.477
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:S.477, C:S.477
NAG-NAG-BMA.24: 3 residues within 4Å:- Chain B: N.1095, H.1098, F.1100
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.27: 1 residues within 4Å:- Chain B: N.1131
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.28: 1 residues within 4Å:- Chain C: N.165
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.29: 2 residues within 4Å:- Chain C: G.232, N.234
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.32: 4 residues within 4Å:- Chain C: G.339, N.343, S.371, A.372
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.40: 4 residues within 4Å:- Chain C: N.1095, T.1097, H.1098, F.1100
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.41: 1 residues within 4Å:- Chain C: N.1131
No protein-ligand interaction detected (PLIP)- 21 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG-NAG.3: 1 residues within 4Å:- Chain A: N.282
No protein-ligand interaction detected (PLIP)NAG-NAG.4: 2 residues within 4Å:- Chain A: N.331, Q.580
No protein-ligand interaction detected (PLIP)NAG-NAG.6: 3 residues within 4Å:- Chain A: N.616, T.618, Q.644
No protein-ligand interaction detected (PLIP)NAG-NAG.7: 2 residues within 4Å:- Chain A: H.655, N.657
No protein-ligand interaction detected (PLIP)NAG-NAG.8: 3 residues within 4Å:- Chain A: N.706, G.1128
- Chain C: D.793
No protein-ligand interaction detected (PLIP)NAG-NAG.10: 2 residues within 4Å:- Chain A: N.798, S.800
No protein-ligand interaction detected (PLIP)NAG-NAG.11: 4 residues within 4Å:- Chain A: S.701, A.703, E.1069, N.1071
No protein-ligand interaction detected (PLIP)NAG-NAG.17: 3 residues within 4Å:- Chain B: E.281, N.282
- Chain C: K.558
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:K.558
NAG-NAG.18: 2 residues within 4Å:- Chain B: N.616, T.618
No protein-ligand interaction detected (PLIP)NAG-NAG.19: 4 residues within 4Å:- Chain B: P.330, N.331, Q.580, L.582
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:L.582
NAG-NAG.22: 2 residues within 4Å:- Chain B: H.655, N.657
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.657
NAG-NAG.23: 2 residues within 4Å:- Chain B: N.706, G.1128
No protein-ligand interaction detected (PLIP)NAG-NAG.25: 3 residues within 4Å:- Chain B: N.798, S.800, Q.801
No protein-ligand interaction detected (PLIP)NAG-NAG.26: 4 residues within 4Å:- Chain B: S.701, A.703, E.1069, N.1071
No protein-ligand interaction detected (PLIP)NAG-NAG.30: 1 residues within 4Å:- Chain C: N.282
No protein-ligand interaction detected (PLIP)NAG-NAG.31: 3 residues within 4Å:- Chain C: N.331, Q.580, T.581
No protein-ligand interaction detected (PLIP)NAG-NAG.34: 2 residues within 4Å:- Chain C: N.616, T.618
No protein-ligand interaction detected (PLIP)NAG-NAG.35: 1 residues within 4Å:- Chain C: N.657
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:N.657, C:N.657
NAG-NAG.36: 3 residues within 4Å:- Chain B: D.793
- Chain C: N.706, G.1128
No protein-ligand interaction detected (PLIP)NAG-NAG.38: 3 residues within 4Å:- Chain C: N.798, S.800, Q.801
No protein-ligand interaction detected (PLIP)NAG-NAG.39: 4 residues within 4Å:- Chain C: S.701, A.703, E.1069, N.1071
1 PLIP interactions:1 interactions with chain C- Hydrophobic interactions: C:A.703
- 3 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG-FUC.5: 1 residues within 4Å:- Chain A: N.603
No protein-ligand interaction detected (PLIP)NAG-FUC.21: 2 residues within 4Å:- Chain B: N.603, T.604
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.603
NAG-FUC.33: 1 residues within 4Å:- Chain C: N.603
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:N.603
- 3 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.9: 4 residues within 4Å:- Chain A: N.714, L.919, Q.923, Q.1068
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:L.919
NAG-NAG-BMA-MAN.14: 3 residues within 4Å:- Chain B: N.714, L.919, Q.923
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:L.919
NAG-NAG-BMA-MAN.37: 4 residues within 4Å:- Chain C: N.714, L.919, Q.923, Q.1068
No protein-ligand interaction detected (PLIP)- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.42: 3 residues within 4Å:- Chain A: N.30, F.59, N.61
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:N.30
NAG.43: 3 residues within 4Å:- Chain B: Y.28, N.30, N.61
No protein-ligand interaction detected (PLIP)NAG.44: 2 residues within 4Å:- Chain C: Y.28, N.61
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Errico, J.M. et al., Structural mechanism of SARS-CoV-2 neutralization by two murine antibodies targeting the RBD. Cell Rep (2021)
- Release Date
- 2021-09-29
- Peptides
- Spike glycoprotein: ABC
2B04 heavy chain: DE
2B04 light chain: FG - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
HE
IF
LG
M
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-2-2-mer
- Ligands
- 14 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
- 21 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 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
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Errico, J.M. et al., Structural mechanism of SARS-CoV-2 neutralization by two murine antibodies targeting the RBD. Cell Rep (2021)
- Release Date
- 2021-09-29
- Peptides
- Spike glycoprotein: ABC
2B04 heavy chain: DE
2B04 light chain: FG - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
HE
IF
LG
M