SMTL ID : 8eu8.1

Cryo-EM structure of CH848 10.17DT DS-SOSIP-2P Env

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

18 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: A.128, T.129, N.140, Y.157, L.159, D.306 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain A: E.77, V.79, N.215, N.227, S.229 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 7 residues within 4Å: Chain A: E.197, L.247, N.248, N.361, R.428, S.429 Ligands: NAG.25 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain A: N.262, T.264, N.265 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain A: T.283, H.315, N.317, T.395 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 2 residues within 4Å: Chain A: S.372, N.376 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 6 residues within 4Å: Chain B: A.128, T.129, N.140, Y.157, L.159, D.306 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 5 residues within 4Å: Chain B: E.77, V.79, N.215, N.227, S.229 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 7 residues within 4Å: Chain B: E.197, L.247, N.248, N.361, R.428, S.429 Ligands: NAG.34 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 3 residues within 4Å: Chain B: N.262, T.264, N.265 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 4 residues within 4Å: Chain B: T.283, H.315, N.317, T.395 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 2 residues within 4Å: Chain B: S.372, N.376 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 6 residues within 4Å: Chain C: A.128, T.129, N.140, Y.157, L.159, D.306 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 5 residues within 4Å: Chain C: E.77, V.79, N.215, N.227, S.229 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 7 residues within 4Å: Chain C: E.197, L.247, N.248, N.361, R.428, S.429 Ligands: NAG.43 No protein-ligand interaction detected (PLIP) NAG-NAG.16: 3 residues within 4Å: Chain C: N.262, T.264, N.265 No protein-ligand interaction detected (PLIP) NAG-NAG.17: 4 residues within 4Å: Chain C: T.283, H.315, N.317, T.395 No protein-ligand interaction detected (PLIP) NAG-NAG.18: 2 residues within 4Å: Chain C: S.372, N.376 No protein-ligand interaction detected (PLIP)

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

NAG.19: 5 residues within 4Å: Chain A: T.122, I.124, S.142, F.143, N.144 Ligand excluded by PLIP NAG.20: 4 residues within 4Å: Chain A: V.166, R.178, N.183, T.184 Ligand excluded by PLIP NAG.21: 5 residues within 4Å: Chain A: N.220, T.222, S.260, N.262, L.263 Ligand excluded by PLIP NAG.22: 5 residues within 4Å: Chain A: N.324, L.327, G.377, T.378, Y.379 Ligand excluded by PLIP NAG.23: 3 residues within 4Å: Chain A: K.344, N.346, R.451 Ligand excluded by PLIP NAG.24: 3 residues within 4Å: Chain A: T.356, N.370, R.401 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain A: P.277, N.430 Ligands: NAG-NAG.3 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain A: N.595, S.597 Ligand excluded by PLIP NAG.27: 1 residues within 4Å: Chain A: N.602 Ligand excluded by PLIP NAG.28: 5 residues within 4Å: Chain B: T.122, I.124, S.142, F.143, N.144 Ligand excluded by PLIP NAG.29: 4 residues within 4Å: Chain B: V.166, R.178, N.183, T.184 Ligand excluded by PLIP NAG.30: 5 residues within 4Å: Chain B: N.220, T.222, S.260, N.262, L.263 Ligand excluded by PLIP NAG.31: 5 residues within 4Å: Chain B: N.324, L.327, G.377, T.378, Y.379 Ligand excluded by PLIP NAG.32: 3 residues within 4Å: Chain B: K.344, N.346, R.451 Ligand excluded by PLIP NAG.33: 3 residues within 4Å: Chain B: T.356, N.370, R.401 Ligand excluded by PLIP NAG.34: 3 residues within 4Å: Chain B: P.277, N.430 Ligands: NAG-NAG.9 Ligand excluded by PLIP NAG.35: 2 residues within 4Å: Chain B: N.595, S.597 Ligand excluded by PLIP NAG.36: 1 residues within 4Å: Chain B: N.602 Ligand excluded by PLIP NAG.37: 5 residues within 4Å: Chain C: T.122, I.124, S.142, F.143, N.144 Ligand excluded by PLIP NAG.38: 4 residues within 4Å: Chain C: V.166, R.178, N.183, T.184 Ligand excluded by PLIP NAG.39: 5 residues within 4Å: Chain C: N.220, T.222, S.260, N.262, L.263 Ligand excluded by PLIP NAG.40: 5 residues within 4Å: Chain C: N.324, L.327, G.377, T.378, Y.379 Ligand excluded by PLIP NAG.41: 3 residues within 4Å: Chain C: K.344, N.346, R.451 Ligand excluded by PLIP NAG.42: 3 residues within 4Å: Chain C: T.356, N.370, R.401 Ligand excluded by PLIP NAG.43: 3 residues within 4Å: Chain C: P.277, N.430 Ligands: NAG-NAG.15 Ligand excluded by PLIP NAG.44: 2 residues within 4Å: Chain C: N.595, S.597 Ligand excluded by PLIP NAG.45: 1 residues within 4Å: Chain C: N.602 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wrapp, D. et al., Structure-Based Stabilization of SOSIP Env Enhances Recombinant Ectodomain Durability and Yield. J.Virol. (2023)

Release Date

2023-01-04

Peptides

CH848 10.17DT SOSIP Envelope glycoprotein gp160: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

CH848 10.17DT SOSIP Envelope glycoprotein gp160