SMTL ID : 6zcc.1

X-ray structure of the Haloalkane dehalogenase HOB (HaloTag7-based Oligonucleotide Binder) labeled with a chloroalkane-tetramethylrhodamine fluorophore substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

monomer

Ligands

1 x OEH: [9-[2-carboxy-5-[2-[2-(6-chloranylhexoxy)ethoxy]ethylcarbamoyl]phenyl]-6-(dimethylamino)xanthen-3-ylidene]-dimethyl-azanium(Covalent)

OEH.1: 18 residues within 4Å: Chain A: N.39, D.104, F.142, A.143, T.146, F.147, Q.163, V.165, E.168, G.169, T.170, P.172, M.173, G.174, V.243, L.244, N.270 Ligands: ACT.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:D.104, A:V.165, A:T.170, A:L.244, A:N.270 Hydrogen bonds: A:T.146, A:T.146

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

ACT.2: 8 residues within 4Å: Chain A: N.39, W.105, F.147, F.166, F.203, P.204, L.207 Ligands: OEH.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.147, A:F.166, A:P.204 Hydrogen bonds: A:N.39

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 1 residues within 4Å: Chain A: G.17 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.17, H2O.1 CA.4: 1 residues within 4Å: Chain A: R.151 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:R.151, H2O.1, H2O.4, H2O.10, H2O.12 CA.5: 1 residues within 4Å: Chain A: D.225 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.225, H2O.6, H2O.7, H2O.10, H2O.11 CA.6: 1 residues within 4Å: Chain A: L.179 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:L.179, H2O.3, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wilhelm, J. et al., Kinetic and Structural Characterization of the Self-Labeling Protein Tags HaloTag7, SNAP-tag, and CLIP-tag. Biochemistry (2021)

Release Date

2021-04-21

Peptides

Haloalkane dehalogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Haloalkane dehalogenase