SMTL ID : 8ybs.1

State - I: Spike 2-up RBD with THSC20.HVTR04 (Fab4)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-2-mer

Ligands

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

NAG.1: 1 residues within 4Å: Chain A: N.331 Ligand excluded by PLIP NAG.2: 4 residues within 4Å: Chain A: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.3: 2 residues within 4Å: Chain A: E.281, N.282 Ligand excluded by PLIP NAG.4: 1 residues within 4Å: Chain A: N.657 Ligand excluded by PLIP NAG.5: 1 residues within 4Å: Chain A: N.616 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain A: N.801, S.803 Ligand excluded by PLIP NAG.7: 2 residues within 4Å: Chain A: N.709, G.1131 Ligand excluded by PLIP NAG.8: 1 residues within 4Å: Chain A: N.1074 Ligand excluded by PLIP NAG.9: 2 residues within 4Å: Chain A: Y.28, N.61 Ligand excluded by PLIP NAG.10: 5 residues within 4Å: Chain A: G.232, I.233, N.234 Chain G: E.465, R.466 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain A: N.603, T.604 Ligand excluded by PLIP NAG.12: 1 residues within 4Å: Chain A: N.165 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain A: F.338, F.342, N.343 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain B: Y.28, N.61 Ligand excluded by PLIP NAG.15: 2 residues within 4Å: Chain B: N.122, T.124 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain B: E.281, N.282 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain B: N.331, T.333, Q.580 Ligand excluded by PLIP NAG.18: 3 residues within 4Å: Chain B: G.339, N.343, L.368 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain B: N.603 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain B: N.616, T.618 Ligand excluded by PLIP NAG.21: 1 residues within 4Å: Chain B: N.657 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain B: N.709, G.1131 Ligand excluded by PLIP NAG.23: 2 residues within 4Å: Chain B: A.706, N.1074 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain B: E.132, N.165 Ligand excluded by PLIP NAG.25: 2 residues within 4Å: Chain G: Y.28, N.61 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain G: N.122, T.124 Ligand excluded by PLIP NAG.27: 2 residues within 4Å: Chain G: E.281, N.282 Ligand excluded by PLIP NAG.28: 3 residues within 4Å: Chain G: N.331, T.333, Q.580 Ligand excluded by PLIP NAG.29: 3 residues within 4Å: Chain G: G.339, N.343, L.368 Ligand excluded by PLIP NAG.30: 1 residues within 4Å: Chain G: N.603 Ligand excluded by PLIP NAG.31: 2 residues within 4Å: Chain G: N.616, T.618 Ligand excluded by PLIP NAG.32: 1 residues within 4Å: Chain G: N.657 Ligand excluded by PLIP NAG.33: 2 residues within 4Å: Chain G: N.709, G.1131 Ligand excluded by PLIP NAG.34: 2 residues within 4Å: Chain G: A.706, N.1074 Ligand excluded by PLIP NAG.35: 2 residues within 4Å: Chain G: E.132, N.165 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rencilin, C.F. et al., Cryo-EM structures of two broadly SARS-CoV-2 neutralizing monoclonal antibodies isolated from a single individual that differ in their target specificities. To Be Published

Release Date

2025-02-19

Peptides

Spike glycoprotein: A
Spike glycoprotein: BG
THSC20.HVTR4 (Fab4) - Heavy Chain: CE
THSC20.HVTR4 (Fab4) - Light Chain: DF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

G
G

C
A

E
C

D
E

F
F

Spike glycoprotein

Spike glycoprotein

THSC20.HVTR4 (Fab4) - Heavy Chain

THSC20.HVTR4 (Fab4) - Light Chain

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