SMTL ID : 4yaq.1 (1 other biounit)

Crystal structure of a computationally optimized PG9 mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 4 residues within 4Å: Chain B: T.5, S.21, N.23, T.72 No protein-ligand interaction detected (PLIP)

3 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 5 residues within 4Å: Chain A: S.179, N.220, K.229, V.230, D.231 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.231 MES.4: 7 residues within 4Å: Chain A: G.41, Q.42 Chain B: D.87, Y.89, G.104, K.106, T.167 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.89, B:K.106 Water bridges: B:Y.89 Salt bridges: B:D.87 MES.5: 3 residues within 4Å: Chain B: Q.198, T.205, E.207 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.207

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 3 residues within 4Å: Chain A: N.119, H.121 Chain B: R.97 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.119 Water bridges: A:N.119, A:N.119 Salt bridges: A:H.121, B:R.97 PO4.6: 4 residues within 4Å: Chain B: Q.39, H.41, K.44, K.47 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.39 Salt bridges: B:H.41, B:K.44, B:K.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Willis, J.R. et al., Redesigned HIV antibodies exhibit enhanced neutralizing potency and breadth. J.Clin.Invest. (2015)

Release Date

2015-06-03

Peptides

PG9_N100FY Fab heavy chain: A
PG9_N100FY Light Chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

PG9_N100FY Fab heavy chain

PG9_N100FY Light Chain

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