SMTL ID : 3r5q.1

Crystal structure of sheep lactoperoxidase in complex with tetrahydrofuran at 2.7 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 6 residues within 4Å: Chain A: N.205, S.208, L.212, A.214, V.215, Q.217 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.205, A:S.208, A:V.215, A:Q.217, A:Q.217 NAG.2: 4 residues within 4Å: Chain A: N.241, A.244, W.384, K.388 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.241

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.110, T.184, F.186, D.188, S.190 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.110, A:T.184, A:T.184, A:F.186, A:S.190

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.4: 24 residues within 4Å: Chain A: M.101, G.104, Q.105, D.108, D.112, F.113, A.114, R.255, E.258, Q.259, T.344, F.347, R.348, G.350, H.351, V.354, L.376, F.380, L.417, Q.423, L.433, I.436, R.440 Ligands: FU1.17 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:Q.105, A:Q.259, A:F.347, A:F.347, A:R.348, A:V.354, A:V.354, A:L.376, A:F.380, A:L.417, A:L.433, A:L.433, A:I.436 Hydrogen bonds: A:D.112, A:A.114 Salt bridges: A:R.348, A:R.440 Metal complexes: A:H.351

10 x IOD: IODIDE ION(Non-functional Binders)

IOD.5: 6 residues within 4Å: Chain A: A.44, R.45, W.46, N.341, V.342, W.452 Ligand excluded by PLIP IOD.6: 3 residues within 4Å: Chain A: E.77, N.80, P.145 Ligand excluded by PLIP IOD.7: 1 residues within 4Å: Chain A: W.530 Ligand excluded by PLIP IOD.8: 5 residues within 4Å: Chain A: E.363, R.397, I.559, T.560, K.561 Ligand excluded by PLIP IOD.9: 3 residues within 4Å: Chain A: H.565, A.566, F.567 Ligand excluded by PLIP IOD.10: 4 residues within 4Å: Chain A: S.359, P.367, E.373, K.402 Ligand excluded by PLIP IOD.11: 3 residues within 4Å: Chain A: K.462, T.463, G.466 Ligand excluded by PLIP IOD.12: 4 residues within 4Å: Chain A: N.216, Q.217, E.218, F.229 Ligand excluded by PLIP IOD.13: 2 residues within 4Å: Chain A: P.236, P.424 Ligand excluded by PLIP IOD.14: 2 residues within 4Å: Chain A: H.377, H.429 Ligand excluded by PLIP

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

EDO.15: 4 residues within 4Å: Chain A: N.95, R.96, R.504, R.506 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.95, A:R.96, A:R.96, A:R.504, A:R.506, A:R.506

1 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.16: 5 residues within 4Å: Chain A: N.230, M.232, S.235, P.236, C.248 No protein-ligand interaction detected (PLIP)

2 x FU1: tetrahydrofuran(Non-covalent)

FU1.17: 6 residues within 4Å: Chain A: Q.105, H.109, R.255, E.258 Ligands: HEM.4, FU1.18 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.255, A:E.258 FU1.18: 6 residues within 4Å: Chain A: S.254, R.255, E.258, F.381, P.424 Ligands: FU1.17 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.255, A:E.258, A:F.381, A:P.424

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamini, S. et al., Crystal structure of sheep lactoperoxidase in complex with tetrahydrofuran at 2.7 A resolution. To be Published

Release Date

2011-04-06

Peptides

Airway lactoperoxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Airway lactoperoxidase

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