SMTL ID : 5igx.1

Crystal structure of NIH45-46 Fab germline precursor in complex with 426c.TM1deltaV1-3 gp120

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.39 Å

Oligo State

hetero-1-1-1-mer

Ligands

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.1: 10 residues within 4Å: Chain A: D.95, P.96, V.138, L.145, N.146, C.245, T.297, C.298, K.299, S.300 No protein-ligand interaction detected (PLIP)

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

NAG.2: 4 residues within 4Å: Chain A: E.152, E.153, I.154, N.173 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.154, A:N.173 NAG.3: 3 residues within 4Å: Chain A: T.239, T.240, N.253 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.240 NAG.4: 2 residues within 4Å: Chain A: N.81 Chain B: S.75 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Scharf, L. et al., Structural basis for germline antibody recognition of HIV-1 immunogens. Elife (2016)

Release Date

2016-04-06

Peptides

426c.TM1deltaV1-3 gp120: A
germline NIH45-46 Fab heavy chain: B
germline NIH45-46 light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
L

426c.TM1deltaV1-3 gp120

germline NIH45-46 Fab heavy chain

germline NIH45-46 light chain

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