SMTL ID : 5owp.1

Crystal structure of glycopeptide "GVTSAfPDT*RPAP" in complex with scFv-SM3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x SER- ALA- 4FB- ASP- THR- ARG- PRO- ALA: 5,6-DIHYDRO-BENZO[H]CINNOLIN-3-YLAMINE(Non-covalent)

SER-ALA-4FB-ASP-THR-ARG-PRO-ALA.1: 11 residues within 4Å: Chain A: N.31, Y.32, W.33, V.101, Q.103, Y.168, P.192, W.227, S.229, W.232 Ligands: A2G.5 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.33, A:V.101, A:Y.168, A:Y.168, A:P.192, A:W.227, A:W.232 Hydrogen bonds: A:N.31, A:Y.32, A:W.33, A:Q.103 Water bridges: A:W.33, A:R.52, A:G.102

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 4 residues within 4Å: Chain A: S.30, L.53, K.54, S.55 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.55, A:S.55 EDO.3: 6 residues within 4Å: Chain A: L.45, E.46, W.47, W.232, V.233, F.234 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.47, A:W.232, A:F.234, A:F.234 EDO.4: 4 residues within 4Å: Chain A: T.145, T.146, S.147, E.150 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.145, A:T.146, A:S.147

1 x A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose(Non-covalent)

A2G.5: 4 residues within 4Å: Chain A: Y.168 Ligands: SER-ALA-4FB-ASP-THR-ARG-PRO-ALA.1, SER-ALA-4FB-ASP-THR-ARG-PRO-ALA.1, SER-ALA-4FB-ASP-THR-ARG-PRO-ALA.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Somovilla, V.J. et al., The Use of Fluoroproline in MUC1 Antigen Enables Efficient Detection of Antibodies in Patients with Prostate Cancer. J. Am. Chem. Soc. (2017)

Release Date

2017-12-13

Peptides

Ig heavy chain V-III region J606,Ig lambda-1 chain V region H2020: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

Ig heavy chain V-III region J606,Ig lambda-1 chain V region H2020

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