SMTL ID : 4icy.1

Tracing the Evolution of Angucyclinone Monooxygenases: Structural Determinants for C-12b Hydroxylation and Substrate Inhibition in PgaE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 32 residues within 4Å: Chain A: V.17, G.18, G.20, P.21, A.22, L.40, E.41, R.42, L.43, R.51, G.52, L.53, Q.105, H.127, E.128, V.129, C.160, D.161, G.162, S.166, L.186, F.264, G.283, D.284, P.291, G.294, Q.295, G.296, M.297, N.298, S.300 Ligands: CL.11 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:R.51, A:R.51, A:L.186, A:F.264, A:P.291, A:P.291 Hydrogen bonds: A:G.20, A:A.22, A:R.42, A:R.51, A:L.53, A:Q.105, A:Q.105, A:V.129, A:V.129, A:S.166, A:D.284, A:G.294, A:G.296, A:M.297, A:N.298, A:S.300, A:S.300 Water bridges: A:G.23, A:G.162, A:G.163, A:G.163, A:D.284, A:G.294 FAD.12: 32 residues within 4Å: Chain B: V.17, G.18, G.20, P.21, A.22, L.40, E.41, R.42, L.43, R.51, G.52, L.53, Q.105, H.127, E.128, V.129, C.160, D.161, G.162, S.166, L.186, F.264, G.283, D.284, P.291, G.294, Q.295, G.296, M.297, N.298, S.300 Ligands: CL.22 29 PLIP interactions: 29 interactions with chain B Hydrophobic interactions: B:R.51, B:R.51, B:L.186, B:F.264, B:P.291, B:P.291 Hydrogen bonds: B:G.20, B:A.22, B:R.42, B:R.51, B:L.53, B:Q.105, B:Q.105, B:V.129, B:V.129, B:S.166, B:D.284, B:G.294, B:G.296, B:M.297, B:N.298, B:S.300, B:S.300 Water bridges: B:G.23, B:G.162, B:G.163, B:G.163, B:D.284, B:G.294

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

EDO.2: 4 residues within 4Å: Chain A: H.82, G.293, G.294, F.349 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.293 EDO.3: 3 residues within 4Å: Chain A: T.407, T.409, R.410 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.407, A:T.409, A:R.410 Water bridges: A:T.449 EDO.6: 4 residues within 4Å: Chain A: V.334, E.383, I.384, T.385 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.385, A:T.385 EDO.9: 5 residues within 4Å: Chain A: W.309, A.313, R.444, P.471 Ligands: GOL.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.309, A:A.313, A:R.444 EDO.13: 4 residues within 4Å: Chain B: H.82, G.293, G.294, F.349 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.293 EDO.14: 3 residues within 4Å: Chain B: T.407, T.409, R.410 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.407, B:T.409, B:R.410 Water bridges: B:T.449 EDO.17: 4 residues within 4Å: Chain B: V.334, E.383, I.384, T.385 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.385, B:T.385 EDO.20: 5 residues within 4Å: Chain B: W.309, A.313, R.444, P.471 Ligands: GOL.16 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.309, B:A.313, B:R.444

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 1 residues within 4Å: Chain A: R.276 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.276 GOL.5: 7 residues within 4Å: Chain A: L.32, A.33, N.316, T.420, A.421, R.422 Ligands: EDO.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.316, A:R.422 Water bridges: A:A.421 GOL.15: 1 residues within 4Å: Chain B: R.276 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.276 GOL.16: 7 residues within 4Å: Chain B: L.32, A.33, N.316, T.420, A.421, R.422 Ligands: EDO.20 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.316, B:R.422 Water bridges: B:A.421

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 5 residues within 4Å: Chain A: R.437, W.477, H.484, D.485, L.486 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.486 Water bridges: A:R.437, A:R.437, A:R.437, A:R.437 Salt bridges: A:R.437 SO4.8: 4 residues within 4Å: Chain A: G.369, E.370, R.373 Chain B: E.370 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.369, A:E.370 Salt bridges: A:R.373 SO4.18: 5 residues within 4Å: Chain B: R.437, W.477, H.484, D.485, L.486 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:L.486 Water bridges: B:R.437, B:R.437, B:R.437, B:R.437 Salt bridges: B:R.437 SO4.19: 4 residues within 4Å: Chain A: E.370 Chain B: G.369, E.370, R.373 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.369, B:E.370 Salt bridges: B:R.373

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

CL.10: 2 residues within 4Å: Chain A: R.410, E.411 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain A: H.289, P.291, Q.295, G.296 Ligands: FAD.1 Ligand excluded by PLIP CL.21: 2 residues within 4Å: Chain B: R.410, E.411 Ligand excluded by PLIP CL.22: 5 residues within 4Å: Chain B: H.289, P.291, Q.295, G.296 Ligands: FAD.12 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kallio, P. et al., Tracing the Evolution of Angucyclinone Monooxygenases: Structural Determinants for C-12b Hydroxylation and Substrate Inhibition in PgaE. Biochemistry (2013)

Release Date

2013-06-12

Peptides

Polyketide oxygenase PgaE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Polyketide oxygenase PgaE