SMTL ID : 4tpr.1

Structure of Tau5 antibody Fab fragment

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.1: 9 residues within 4Å: Chain A: L.9, V.90, Y.92, G.105, K.108, K.147 Chain B: E.42, Q.43 Ligands: PG4.2 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.170 PG4.2: 7 residues within 4Å: Chain A: K.147, I.149, N.150, W.168, Y.178 Chain B: E.42 Ligands: PG4.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.150 Water bridges: A:K.108, A:K.108

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

CL.3: 3 residues within 4Å: Chain A: L.15, G.16, R.82 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: R.113 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain A: T.102, F.103 Chain B: E.46, W.47 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain B: S.164, N.204, K.213 Ligands: 33O.15 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain B: K.151, G.152, Y.183, T.184 Ligand excluded by PLIP

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 3 residues within 4Å: Chain A: S.70, T.77, K.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.79 Water bridges: A:Q.18

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 5 residues within 4Å: Chain A: A.117, P.118, T.119, N.142, N.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.119, A:T.119

5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 3 residues within 4Å: Chain A: D.156, R.193, N.195 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.195 PEG.8: 7 residues within 4Å: Chain A: L.42, K.50, L.52, G.62, P.64, E.86, D.87 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.50, A:E.86 PEG.9: 6 residues within 4Å: Chain A: N.166, S.167, W.168 Chain B: E.42, P.175, V.177 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.42 PEG.10: 6 residues within 4Å: Chain A: H.31, S.32, S.97, H.98, V.99 Ligands: TRS.11 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.32, A:S.32, A:H.98, A:V.99 Water bridges: A:W.101 PEG.16: 6 residues within 4Å: Chain B: P.41, T.91, V.93, T.116, T.118, Y.183 No protein-ligand interaction detected (PLIP)

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.11: 5 residues within 4Å: Chain A: H.31, N.33, Y.37, G.96 Ligands: PEG.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.33, A:G.96

1 x 33O: 3,6,9,12,15,18,21,24,27,30,33,36-dodecaoxaoctatriacontane-1,38-diol(Non-covalent)

33O.15: 14 residues within 4Å: Chain B: N.163, S.164, S.166, L.167, V.191, P.192, T.195, E.199, T.200, T.202, N.204, K.213, D.215 Ligands: CL.13 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.163, B:S.164, B:T.195, B:K.213 Water bridges: B:N.204

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cehlar, O. et al., Structure of Tau5 antibody Fab fragment. To Be Published

Release Date

2015-07-29

Peptides

If kappa light chain: A
Fab heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

If kappa light chain

Fab heavy chain

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