SMTL ID : 6wy8.1

Tcur3481-Tcur3483 steroid ACAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-2-2-mer

Ligands

3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 5 residues within 4Å: Chain A: G.149, T.150, T.202, L.203, D.204 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.184, A:T.202 PGE.4: 5 residues within 4Å: Chain B: E.35, L.36, Y.39, D.72, W.74 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.35, B:E.35 Water bridges: B:Y.39 PGE.12: 6 residues within 4Å: Chain D: L.32, E.35, L.36, Y.39, D.72, W.74 No protein-ligand interaction detected (PLIP)

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

FAD.2: 30 residues within 4Å: Chain A: Q.260 Chain B: I.144, G.145, Y.146, T.147, G.152, T.153, F.177, S.179, V.379, N.380, F.382, G.383, V.386, E.388, V.389 Chain C: R.249, Q.251, F.252, L.256, F.259, A.261, V.262, H.317, L.318, H.319, G.320, G.321 Ligands: CL.3, MES.5 29 PLIP interactions: 15 interactions with chain B, 13 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: B:F.177, B:V.379, B:V.379, B:F.382 Hydrogen bonds: B:I.144, B:Y.146, B:T.147, B:T.147, B:T.153, B:T.153, B:S.179, B:S.179, C:Q.251, C:G.320, C:G.321, A:Q.260 Water bridges: B:I.144, B:F.382, B:D.392, C:Y.245, C:R.249, C:R.249, C:R.249, C:R.249, C:I.322 Salt bridges: C:R.249, C:R.249 pi-Stacking: C:F.259, C:F.259 FAD.10: 30 residues within 4Å: Chain A: R.249, Q.251, F.252, L.256, F.259, A.261, V.262, H.317, L.318, H.319, G.320, G.321 Chain C: Q.260 Chain D: I.144, G.145, Y.146, T.147, G.152, T.153, F.177, S.179, V.379, N.380, F.382, G.383, V.386, E.388, V.389 Ligands: CL.11, MES.13 25 PLIP interactions: 15 interactions with chain D, 9 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: D:F.177, D:F.177, D:V.379, D:V.379, D:F.382 Hydrogen bonds: D:I.144, D:Y.146, D:T.147, D:T.147, D:G.152, D:T.153, D:T.153, D:S.179, A:H.317, A:G.320, A:G.321, C:Q.260 Water bridges: D:I.144, D:F.382, A:R.249, A:I.322 Salt bridges: A:R.249, A:R.249 pi-Stacking: A:F.259, A:F.259

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

CL.3: 2 residues within 4Å: Chain B: G.384 Ligands: FAD.2 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain C: E.125, F.126, T.150, K.151, A.152 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain C: R.80 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain D: G.384 Ligands: FAD.10 Ligand excluded by PLIP

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.5: 8 residues within 4Å: Chain B: Q.101, F.109, G.264, L.265, L.268, Q.376, N.380 Ligands: FAD.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.380 MES.13: 8 residues within 4Å: Chain D: Q.101, F.109, G.264, L.265, L.268, Q.376, N.380 Ligands: FAD.10 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.376, D:N.380

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

SO4.8: 4 residues within 4Å: Chain B: G.150 Chain C: E.248, R.249, E.250 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:E.250, C:E.250 Water bridges: C:Q.251, C:Q.251 Salt bridges: C:R.249 SO4.9: 2 residues within 4Å: Chain C: Q.27, R.28 3 PLIP interactions: 3 interactions with chain C Water bridges: C:Q.27, C:Q.27 Salt bridges: C:R.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stirling, A.J. et al., A Key Glycine in Bacterial Steroid-Degrading Acyl-CoA Dehydrogenases Allows Flavin-Ring Repositioning and Modulates Substrate Side Chain Specificity. Biochemistry (2020)

Release Date

2021-03-24

Peptides

Acyl-CoA dehydrogenase domain protein Tcur3481: AC
Acyl-CoA dehydrogenase domain protein Tcur3483: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Acyl-CoA dehydrogenase domain protein Tcur3481

Acyl-CoA dehydrogenase domain protein Tcur3483

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