SMTL ID : 9mew.1

JUNV GP1, GP2, SSP and CR1-28 Fab complex in a pseudotyped virus membrane

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-3-mer

Ligands

6 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: 5 residues within 4Å: Chain B: N.120, S.122, T.124, K.153 Chain D: D.29 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:K.153 NAG-NAG-BMA.2: 7 residues within 4Å: Chain B: L.170, D.171 Chain C: N.106, T.108, I.129, N.132, Y.134 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 5 residues within 4Å: Chain G: N.120, S.122, T.124, K.153 Chain I: D.29 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:K.153 NAG-NAG-BMA.4: 7 residues within 4Å: Chain G: L.170, D.171 Chain H: N.106, T.108, I.129, N.132, Y.134 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 5 residues within 4Å: Chain L: N.120, S.122, T.124, K.153 Chain N: D.29 1 PLIP interactions: 1 interactions with chain L Hydrophobic interactions: L:K.153 NAG-NAG-BMA.6: 7 residues within 4Å: Chain L: L.170, D.171 Chain M: N.106, T.108, I.129, N.132, Y.134 No protein-ligand interaction detected (PLIP)

3 x MYR: MYRISTIC ACID(Covalent)

MYR.7: 3 residues within 4Å: Chain A: G.2, Q.3, F.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.4, A:F.4, A:F.4 Hydrogen bonds: A:Q.3 MYR.13: 3 residues within 4Å: Chain F: G.2, Q.3, F.4 4 PLIP interactions: 4 interactions with chain F Hydrophobic interactions: F:F.4, F:F.4, F:F.4 Hydrogen bonds: F:Q.3 MYR.19: 3 residues within 4Å: Chain K: G.2, Q.3, F.4 4 PLIP interactions: 4 interactions with chain K Hydrophobic interactions: K:F.4, K:F.4, K:F.4 Hydrogen bonds: K:Q.3

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

NAG.8: 3 residues within 4Å: Chain B: N.37, H.40, Q.167 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.40 NAG.9: 4 residues within 4Å: Chain B: V.66, W.76, N.108, T.110 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.110 NAG.10: 5 residues within 4Å: Chain C: K.32, Y.112, N.114, T.116, H.121 No protein-ligand interaction detected (PLIP) NAG.11: 1 residues within 4Å: Chain C: N.131 No protein-ligand interaction detected (PLIP) NAG.12: 1 residues within 4Å: Chain C: N.136 No protein-ligand interaction detected (PLIP) NAG.14: 3 residues within 4Å: Chain G: N.37, H.40, Q.167 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:H.40 NAG.15: 4 residues within 4Å: Chain G: V.66, W.76, N.108, T.110 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:T.110 NAG.16: 5 residues within 4Å: Chain H: K.32, Y.112, N.114, T.116, H.121 No protein-ligand interaction detected (PLIP) NAG.17: 1 residues within 4Å: Chain H: N.131 No protein-ligand interaction detected (PLIP) NAG.18: 1 residues within 4Å: Chain H: N.136 No protein-ligand interaction detected (PLIP) NAG.20: 3 residues within 4Å: Chain L: N.37, H.40, Q.167 1 PLIP interactions: 1 interactions with chain L Hydrogen bonds: L:H.40 NAG.21: 4 residues within 4Å: Chain L: V.66, W.76, N.108, T.110 1 PLIP interactions: 1 interactions with chain L Hydrogen bonds: L:T.110 NAG.22: 5 residues within 4Å: Chain M: K.32, Y.112, N.114, T.116, H.121 No protein-ligand interaction detected (PLIP) NAG.23: 1 residues within 4Å: Chain M: N.131 No protein-ligand interaction detected (PLIP) NAG.24: 1 residues within 4Å: Chain M: N.136 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taylor, L.J. et al., In situ insights into antibody-mediated neutralization of a pre-fusion Junin virus glycoprotein complex. Cell Rep (2025)

Release Date

2025-07-23

Peptides

Pre-glycoprotein polyprotein GP complex: AFK
JUNV GP1: BGL
JUNV GP2: CHM
CR1-28 Fab Light Chain: DIN
CR1-28 Fab Heavy Chain: EJO

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
F

K
K

B
B

G
G

L
L

C
C

H
H

M
M

D
D

I
I

N
N

E
E

J
J

O
O

Membrane

We predict this structure to be a membrane protein.
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Pre-glycoprotein polyprotein GP complex

JUNV GP1

JUNV GP2

CR1-28 Fab Light Chain

CR1-28 Fab Heavy Chain

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