SMTL ID : 3oaz.2 (1 other biounit)

A non-self sugar mimic of the HIV glycan shield shows enhanced antigenicity

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-mer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: G.128, S.182, K.183, A.184 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.128, A:A.184 GOL.17: 2 residues within 4Å: Chain B: S.196, S.197 3 PLIP interactions: 3 interactions with chain B Water bridges: B:S.196, B:S.196, B:L.199 GOL.18: 3 residues within 4Å: Chain B: N.26, F.27, R.28 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.26 Water bridges: B:N.26

17 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: S.114, N.137 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: H.90, S.95, A.96 Ligand excluded by PLIP CL.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: I.19, T.20 Ligand excluded by PLIP CL.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain A: Q.160 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain A: T.5, Q.6, S.7, R.24 Ligand excluded by PLIP CL.10: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.11: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain A: R.142, A.144, L.175 Ligand excluded by PLIP CL.13: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.14: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain A: T.164, E.165 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain B: E.46, W.47 Ligand excluded by PLIP CL.19: 1 residues within 4Å: Chain B: N.165 Ligand excluded by PLIP CL.20: 4 residues within 4Å: Chain B: G.128, Y.155, F.156, H.210 Ligand excluded by PLIP

1 x 2M5: methyl 7-deoxy-L-glycero-alpha-D-manno-heptopyranoside(Non-covalent)

2M5.21: 10 residues within 4Å: Chain B: A.31, H.32, T.33, K.99, G.100, L.104, S.105, D.106, N.107, D.108 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:A.31, B:T.33, B:T.33, B:D.108, B:D.108, B:D.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Doores, K.J. et al., A nonself sugar mimic of the HIV glycan shield shows enhanced antigenicity. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2011-01-12

Peptides

Fab 2G12, light chain: A
Fab 2G12, heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
M

Fab 2G12, light chain

Fab 2G12, heavy chain

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