SMTL ID : 4r82.1

Streptomyces globisporus C-1027 NADH:FAD oxidoreductase SgcE6 in complex with NAD and FAD fragments

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

homo-dimer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 9 residues within 4Å: Chain A: R.24, F.27, G.28, N.50, H.146, F.167, G.170 Chain B: L.57 Ligands: NAD.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.27, A:N.50, A:N.50, A:G.170 Salt bridges: A:R.24 NAD.2: 5 residues within 4Å: Chain A: R.24, N.50, H.146 Ligands: NAD.1, FAD.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.50 Water bridges: A:G.67 NAD.10: 9 residues within 4Å: Chain A: L.57 Chain B: R.24, F.27, G.28, N.50, H.146, F.167, G.170 Ligands: NAD.11 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:F.27, B:N.50, B:N.50, B:G.170 Water bridges: B:R.20 Salt bridges: B:R.24 NAD.11: 5 residues within 4Å: Chain B: R.24, N.50, H.146 Ligands: NAD.10, FAD.16 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.50 Water bridges: B:R.24, B:G.67

3 x CA: CALCIUM ION(Non-covalent)

CA.3: 1 residues within 4Å: Chain A: D.19 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.19, H2O.2, H2O.3 CA.12: 1 residues within 4Å: Chain B: D.19 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.19, H2O.6, H2O.8, H2O.8, H2O.9 CA.13: 3 residues within 4Å: Chain B: P.160, R.162 Ligands: ACT.5 5 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: B:R.162, H2O.2, H2O.5, H2O.9, ACT.5

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

CL.4: 2 residues within 4Å: Chain A: R.24 Chain B: L.57 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain A: L.57 Chain B: R.20, R.24 Ligand excluded by PLIP

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

ACT.5: 8 residues within 4Å: Chain A: G.28, S.168, G.169, R.173 Chain B: R.162, E.163, F.175 Ligands: CA.13 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.168 Water bridges: A:S.168, A:R.173, A:R.173 Hydrophobic interactions: B:E.163, B:F.175 ACT.6: 3 residues within 4Å: Chain A: Q.91, K.93, A.94 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.91, A:K.93, A:A.94 Water bridges: A:A.127 ACT.7: 5 residues within 4Å: Chain A: E.142, G.143, G.144 Chain B: H.138, R.139 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Salt bridges: B:H.138, B:R.139 Hydrophobic interactions: A:E.142 Hydrogen bonds: A:E.142, A:G.144 ACT.15: 4 residues within 4Å: Chain B: L.125, H.132, T.157, W.159 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.157 Water bridges: B:T.157 Salt bridges: B:H.132

1 x MG: MAGNESIUM ION(Non-covalent)

MG.8: 4 residues within 4Å: Chain A: F.52, T.53 Chain B: F.52, T.53 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:T.53, B:T.53, H2O.1, H2O.10

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

FAD.9: 16 residues within 4Å: Chain A: M.47, T.48, A.49, N.50, S.51, C.65, V.66, G.67, A.70, F.98, A.99, H.101, H.146, F.167, F.172 Ligands: NAD.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:T.48, A:N.50, A:A.99, A:F.167, A:F.172 Hydrogen bonds: A:T.48, A:T.48, A:N.50, A:S.51, A:S.51, A:C.65, A:G.67, A:V.71 Water bridges: A:G.46 Salt bridges: A:H.101 FAD.16: 16 residues within 4Å: Chain B: M.47, T.48, A.49, N.50, S.51, C.65, V.66, G.67, A.70, V.71, F.98, A.99, H.146, F.167, F.172 Ligands: NAD.11 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:T.48, B:N.50, B:F.167, B:F.172 Hydrogen bonds: B:T.48, B:T.48, B:N.50, B:S.51, B:S.51, B:C.65, B:G.67, B:V.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, C.Y. et al., Crystal Structures of SgcE6 and SgcC, the Two-Component Monooxygenase That Catalyzes Hydroxylation of a Carrier Protein-Tethered Substrate during the Biosynthesis of the Enediyne Antitumor Antibiotic C-1027 in Streptomyces globisporus. Biochemistry (2016)

Release Date

2014-10-01

Peptides

Oxidoreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Oxidoreductase