SMTL ID : 6nij.1

PGT145 Fab in complex with full length AMC011 HIV-1 Env

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-3-3-mer

Ligands

1 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: 7 residues within 4Å: Chain A: H.102, R.103, L.104, R.105, Y.123 Chain C: F.133, N.134 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.105 Hydrogen bonds: A:R.103, A:R.105, A:Y.123, A:Y.123

1 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.2: 7 residues within 4Å: Chain A: Y.107, E.119 Chain B: H.27, H.98 Chain G: T.98, N.134 Ligands: NAG.7 No protein-ligand interaction detected (PLIP)

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

NAG.3: 2 residues within 4Å: Chain C: N.100, N.162 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.162 NAG.4: 4 residues within 4Å: Chain E: S.132, F.133, N.134, K.145 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:K.145 Hydrogen bonds: E:N.134 NAG.5: 4 residues within 4Å: Chain E: N.130, Y.147, L.149, E.294 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:L.149, E:E.294 Hydrogen bonds: E:E.294, E:E.294 NAG.6: 3 residues within 4Å: Chain E: R.166, N.171, T.172 No protein-ligand interaction detected (PLIP) NAG.7: 2 residues within 4Å: Chain G: N.100 Ligands: NAG-NAG-BMA.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Torrents de la Pena, A. et al., Similarities and differences between native HIV-1 envelope glycoprotein trimers and stabilized soluble trimer mimetics. Plos Pathog. (2019)

Release Date

2019-07-31

Peptides

PGT145 Fab heavy chain: A
PGT145 Fab light chain: B
AMC011 Glycoprotein 120: CEG
AMC011 Glycoprotein 41: DFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
A

E
C

G
E

D
B

F
D

H
F

PGT145 Fab heavy chain

PGT145 Fab light chain

AMC011 Glycoprotein 120

AMC011 Glycoprotein 41

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