- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-3-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: 3 residues within 4Å:- Chain A: I.1132, V.1133, N.1134
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.2: 5 residues within 4Å:- Chain A: N.1098, G.1099, T.1100, H.1101, F.1103
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.3: 3 residues within 4Å:- Chain A: N.801, S.803, Q.804
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.4: 6 residues within 4Å:- Chain A: N.717, T.719, L.922, N.925, Q.926, Q.1071
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:L.922, A:Q.926
NAG-NAG-BMA.9: 8 residues within 4Å:- Chain B: T.716, N.717, F.718, T.719, L.922, N.925, Q.926, Q.1071
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:L.922
NAG-NAG-BMA.11: 5 residues within 4Å:- Chain B: N.1098, G.1099, T.1100, H.1101, F.1103
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.12: 3 residues within 4Å:- Chain B: I.1132, V.1133, N.1134
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.13: 4 residues within 4Å:- Chain B: K.558, L.560
- Chain C: E.281, N.282
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.14: 4 residues within 4Å:- Chain C: N.331, Q.580, T.581, L.582
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.15: 5 residues within 4Å:- Chain A: D.796
- Chain C: N.709, N.710, I.1130, G.1131
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.16: 7 residues within 4Å:- Chain C: N.717, F.718, T.719, L.922, N.925, Q.926, Q.1071
1 PLIP interactions:1 interactions with chain C- Hydrophobic interactions: C:L.922
NAG-NAG-BMA.17: 4 residues within 4Å:- Chain C: K.795, N.801, S.803, Q.804
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.19: 5 residues within 4Å:- Chain C: N.1098, G.1099, T.1100, H.1101, F.1103
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.20: 3 residues within 4Å:- Chain C: I.1132, V.1133, N.1134
No protein-ligand interaction detected (PLIP)- 4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)
NAG-NAG.5: 5 residues within 4Å:- Chain A: N.709, N.710, I.1130, G.1131
- Chain B: D.796
No protein-ligand interaction detected (PLIP)NAG-NAG.6: 5 residues within 4Å:- Chain A: N.331, P.579, Q.580, T.581, L.582
No protein-ligand interaction detected (PLIP)NAG-NAG.7: 4 residues within 4Å:- Chain B: N.331, I.332, Q.580, T.581
No protein-ligand interaction detected (PLIP)NAG-NAG.8: 4 residues within 4Å:- Chain B: N.709, N.710, I.1130, G.1131
No protein-ligand interaction detected (PLIP)- 2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-FUC.10: 8 residues within 4Å:- Chain B: A.706, N.1074, F.1075, T.1076, S.1097, N.1098, G.1099
- Chain C: Q.895
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.1074
NAG-NAG-FUC.18: 10 residues within 4Å:- Chain A: Q.895
- Chain C: S.704, V.705, A.706, Y.707, S.708, S.711, N.1074, F.1075, T.1076
1 PLIP interactions:1 interactions with chain C- Hydrophobic interactions: C:A.706
- 32 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)
NAG.21: 4 residues within 4Å:- Chain A: A.706, N.1074, F.1075, T.1076
Ligand excluded by PLIPNAG.22: 4 residues within 4Å:- Chain A: E.654, H.655, V.656, N.657
Ligand excluded by PLIPNAG.23: 3 residues within 4Å:- Chain A: N.616, T.618, Q.644
Ligand excluded by PLIPNAG.24: 5 residues within 4Å:- Chain A: E.309, K.310, G.601, N.603, T.604
Ligand excluded by PLIPNAG.25: 8 residues within 4Å:- Chain A: N.343, S.371, S.373, W.436, N.437, S.438, N.440, L.441
Ligand excluded by PLIPNAG.26: 3 residues within 4Å:- Chain A: E.281, N.282
- Chain C: K.558
Ligand excluded by PLIPNAG.27: 6 residues within 4Å:- Chain A: T.108, G.232, N.234, T.236
- Chain C: L.518, H.519
Ligand excluded by PLIPNAG.28: 4 residues within 4Å:- Chain A: Q.115, E.132, N.165, T.167
Ligand excluded by PLIPNAG.29: 4 residues within 4Å:- Chain A: H.146, N.148, N.149, M.153
Ligand excluded by PLIPNAG.30: 9 residues within 4Å:- Chain A: V.120, N.121, N.122, A.123, T.124, N.125, V.126, V.127, F.175
Ligand excluded by PLIPNAG.31: 6 residues within 4Å:- Chain A: Y.28, T.29, N.30, N.61, T.630, P.631
Ligand excluded by PLIPNAG.32: 6 residues within 4Å:- Chain A: C.15, V.16, N.17, C.136, N.137, D.138
Ligand excluded by PLIPNAG.33: 6 residues within 4Å:- Chain B: C.15, V.16, N.17, C.136, N.137, D.138
Ligand excluded by PLIPNAG.34: 9 residues within 4Å:- Chain B: Y.28, T.29, N.30, S.31, F.59, N.61, V.62, T.630, P.631
Ligand excluded by PLIPNAG.35: 7 residues within 4Å:- Chain B: N.122, T.124, N.125, V.127, K.129, F.157, V.171
Ligand excluded by PLIPNAG.36: 5 residues within 4Å:- Chain B: Q.115, E.132, N.165, T.167
- Ligands: NAG.37
Ligand excluded by PLIPNAG.37: 5 residues within 4Å:- Chain A: H.519
- Chain B: G.232, I.233, N.234
- Ligands: NAG.36
Ligand excluded by PLIPNAG.38: 3 residues within 4Å:- Chain A: K.558
- Chain B: E.281, N.282
Ligand excluded by PLIPNAG.39: 11 residues within 4Å:- Chain B: G.339, F.342, N.343, Y.365, V.367, L.368, Y.369, N.370, S.371, A.372, F.374
Ligand excluded by PLIPNAG.40: 2 residues within 4Å:- Chain B: N.603, T.604
Ligand excluded by PLIPNAG.41: 3 residues within 4Å:- Chain B: N.616, T.618, Q.644
Ligand excluded by PLIPNAG.42: 1 residues within 4Å:- Chain B: N.657
Ligand excluded by PLIPNAG.43: 4 residues within 4Å:- Chain B: K.795, N.801, S.803, Q.804
Ligand excluded by PLIPNAG.44: 5 residues within 4Å:- Chain C: C.15, V.16, N.17, C.136, N.137
Ligand excluded by PLIPNAG.45: 5 residues within 4Å:- Chain C: N.30, F.59, N.61, T.630, P.631
Ligand excluded by PLIPNAG.46: 6 residues within 4Å:- Chain C: N.122, T.124, N.125, V.127, E.169, V.171
Ligand excluded by PLIPNAG.47: 6 residues within 4Å:- Chain C: H.146, N.148, N.149, S.151, W.152, M.153
Ligand excluded by PLIPNAG.48: 4 residues within 4Å:- Chain B: H.519
- Chain C: T.108, T.114, N.234
Ligand excluded by PLIPNAG.49: 11 residues within 4Å:- Chain C: F.342, N.343, A.344, F.347, S.371, S.373, W.436, S.438, N.440, L.441, R.509
Ligand excluded by PLIPNAG.50: 1 residues within 4Å:- Chain C: N.603
Ligand excluded by PLIPNAG.51: 4 residues within 4Å:- Chain C: N.616, C.617, T.618, Q.644
Ligand excluded by PLIPNAG.52: 1 residues within 4Å:- Chain C: N.657
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Xiang, Y. et al., Superimmunity by pan-sarbecovirus nanobodies. Cell Rep (2022)
- Release Date
- 2022-07-06
- Peptides
- Spike glycoprotein: ABC
pan-sarbecovirus nanobody 2-67: DEF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
BB
AC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-3-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
- 4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)
- 2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 32 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Xiang, Y. et al., Superimmunity by pan-sarbecovirus nanobodies. Cell Rep (2022)
- Release Date
- 2022-07-06
- Peptides
- Spike glycoprotein: ABC
pan-sarbecovirus nanobody 2-67: DEF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
BB
AC
CD
DE
EF
F