SMTL ID : 5esz.1 (3 other biounits)

Crystal Structure of Broadly Neutralizing Antibody CH04, Isolated from Donor CH0219, in Complex with Scaffolded Trimeric HIV-1 Env V1V2 Domain from the Clade AE Strain A244

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.19 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 8 residues within 4Å: Chain A: R.59, I.104, W.118 Chain B: H.30, Y.33, Y.92, G.93, Y.97 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.30, B:G.93, A:D.106, B:H.30, B:Y.33

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.2: 6 residues within 4Å: Chain A: I.28, E.30, N.77 Chain C: N.53, S.55, H.70 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.28 Hydrogen bonds: A:E.30, A:N.77

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN.3: 10 residues within 4Å: Chain A: W.53, D.57, R.59, T.103, D.106, Y.111, S.114 Chain C: H.20, F.56, N.57 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.59, A:D.57 Hydrophobic interactions: A:T.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gorman, J. et al., Structures of HIV-1 Env V1V2 with broadly neutralizing antibodies reveal commonalities that enable vaccine design. Nat. Struct. Mol. Biol. (2016)

Release Date

2015-12-16

Peptides

CH04 Heavy Chain: A
CH04 Light Chain: B
2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase,Envelope glycoprotein gp160: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
G

CH04 Heavy Chain

CH04 Light Chain

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase,Envelope glycoprotein gp160

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