SMTL ID : 1rup.1

Crystal structure (G) of native cationic cyclization antibody 4C6 fab at pH 8.5 with a data set collected at APS beamline 19-ID

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

hetero-1-1-mer

Ligands

1 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.1: 10 residues within 4Å: Chain A: W.94, G.96, Y.101 Chain B: A.34, N.36, W.48, Y.51, L.99, L.100, G.104 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B pi-Stacking: A:F.37, A:W.94, A:Y.101 Hydrogen bonds: B:N.36

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: S.167, S.181, T.183 Chain B: F.172, P.173, V.175, T.182, L.183, S.184 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.167, A:S.181, A:T.183, A:T.183, B:P.173, B:S.184 GOL.3: 4 residues within 4Å: Chain B: D.32, Y.54, W.101, Y.102 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.32, B:D.32 Water bridges: B:Y.102 GOL.4: 6 residues within 4Å: Chain A: E.128 Chain B: S.126, V.127, Y.128, V.212, K.214 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.127, B:K.214 GOL.5: 3 residues within 4Å: Chain B: R.72, D.73, T.74 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.72, B:T.74 Water bridges: B:R.72, B:R.72, B:R.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, X. et al., Probing the antibody-catalyzed water-oxidation pathway at atomic resolution. Proc.Natl.Acad.Sci.USA (2004)

Release Date

2004-03-02

Peptides

immunoglobulin igg2a, heavy chain: A
immunoglobulin igg2a, light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

immunoglobulin igg2a, heavy chain

immunoglobulin igg2a, light chain

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