SMTL ID : 7nfz.1

Crystal structure of haloalkane dehalogenase LinB57 mutant (H272F) from Sphingobium japonicum UT26

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

4 x CXS: 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID(Non-covalent)

CXS.1: 14 residues within 4Å: Chain A: N.38, D.108, W.109, A.133, I.134, F.143, F.151, F.169, W.207, P.208, I.211, L.248, F.272 Ligands: TRS.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.134, A:F.143, A:I.211, A:F.272 Hydrogen bonds: A:N.38, A:D.108, A:W.207 CXS.2: 9 residues within 4Å: Chain A: P.77, E.78, R.79, A.81, S.206, R.209, Q.210, P.217, D.219 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.81, A:R.209 Hydrogen bonds: A:Q.210 CXS.3: 5 residues within 4Å: Chain A: Q.146, D.147, L.150, V.173, L.177 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.150, A:L.177 Hydrogen bonds: A:D.147 CXS.4: 5 residues within 4Å: Chain A: R.225, A.228, G.229, R.252, F.256 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.228, A:F.256 Water bridges: A:R.252 Salt bridges: A:R.252

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: P.74, S.75, G.76 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.76 GOL.6: 6 residues within 4Å: Chain A: L.3, G.4, A.5, R.180, S.183, E.186 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.4, A:R.180, A:R.180, A:S.183 GOL.7: 2 residues within 4Å: Chain A: R.119, R.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.119, A:R.122, A:R.122

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

TRS.8: 8 residues within 4Å: Chain A: E.132, A.133, F.240, T.249, M.253, R.254 Ligands: CXS.1, PO4.9 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.132, A:A.133, A:A.133, A:R.254 Water bridges: A:E.132, A:T.249, A:T.249

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.9: 7 residues within 4Å: Chain A: F.240, N.242, A.243, G.246, T.249, R.254 Ligands: TRS.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.242, A:A.243, A:A.243 Water bridges: A:A.247

1 x K: POTASSIUM ION(Non-covalent)

K.10: 3 residues within 4Å: Chain A: S.2, L.3, N.47 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.2, A:S.2, A:L.3, H2O.6, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marek, M. et al., Crystal structure of haloalkane dehalogenase LinB57 mutant (H272F) from Sphingobium japonicum UT26. To Be Published

Release Date

2022-03-02

Peptides

Haloalkane dehalogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Haloalkane dehalogenase