SMTL ID : 7ekb.1

Crystal structure of 4E10 modified with pyrene acetamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: S.7, E.10, T.19, S.21 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.7, A:T.19 GOL.3: 4 residues within 4Å: Chain B: Q.11, R.18, A.19, T.20 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.11, B:Q.11, B:R.18, B:T.20 Water bridges: B:T.20, B:T.20 GOL.4: 11 residues within 4Å: Chain A: F.180, P.181, V.183, S.191, L.192, S.193 Chain B: Q.161, S.163, S.177, S.178, T.179 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.163, B:S.178, B:T.179, A:F.180, A:S.191, A:S.193 GOL.5: 6 residues within 4Å: Chain A: V.177, H.178 Chain B: T.165, E.166, Q.167, D.168 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:V.177, B:E.166 Water bridges: A:T.179, A:T.179, B:Q.167, B:S.169 GOL.6: 9 residues within 4Å: Chain B: Q.38, R.40, R.46, V.59, A.60, R.62, F.63, E.82, D.83 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.38, B:R.40, B:R.46, B:A.60, B:R.62, B:E.82 GOL.7: 3 residues within 4Å: Chain B: P.8, G.9, T.10 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.9, B:T.10, B:T.10 Water bridges: B:S.7, B:T.10

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 3 residues within 4Å: Chain A: S.28, F.29, S.30 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.29, A:S.30 Water bridges: A:G.27, A:S.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rujas, E. et al., Focal accumulation of aromaticity at the CDRH3 loop mitigates 4E10 polyreactivity without altering its HIV neutralization profile. Iscience (2021)

Release Date

2021-08-11

Peptides

Fab region of the heavy chain of broadly neutralizing antibody anti-HIV-1 4E10: A
Fab region of the light chain of the broadly neutralizing anti-HIV-1 antibody 4E10: B
MPER region of the HIV-1 envelope glycoprotein protein gp41: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
P

Fab region of the heavy chain of broadly neutralizing antibody anti-HIV-1 4E10

Fab region of the light chain of the broadly neutralizing anti-HIV-1 antibody 4E10

MPER region of the HIV-1 envelope glycoprotein protein gp41

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