SMTL ID : 6qkx.1

2-Naphthoyl-CoA Reductase-DiHydroNaphthoyl-CoA complex(NCR-DHNCoA co-crystallized complex)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 12 residues within 4Å: Chain A: R.344, I.347, C.367, T.368, A.369, C.370, N.371, G.373, C.374, C.386, M.387, V.388 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.367, A:C.370, A:C.374, A:C.386

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

FAD.2: 33 residues within 4Å: Chain A: V.414, G.415, A.416, G.417, P.418, S.419, M.437, E.438, K.439, G.445, E.446, W.459, T.481, E.482, A.483, A.499, T.500, G.501, G.502, F.521, L.524, E.541, I.542, Q.545, T.546, L.632, G.648, D.649, R.654, K.655, L.656, Y.657, A.659 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:F.521, A:L.524, A:I.542, A:I.542 Hydrogen bonds: A:A.416, A:S.419, A:S.419, A:S.419, A:K.439, A:K.439, A:G.445, A:E.446, A:E.446, A:A.483, A:A.483, A:G.502, A:E.541, A:Q.545, A:D.649, A:R.654, A:L.656, A:Y.657 Water bridges: A:K.448, A:K.448 pi-Stacking: A:W.459

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.3: 24 residues within 4Å: Chain A: A.35, A.36, T.37, V.38, Q.71, G.72, Q.114, M.116, C.192, I.194, R.245, I.291, A.319, Y.320, R.321, M.342, C.343, R.344, P.345, C.374, F.375, V.378, M.384 Ligands: J5H.4 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:T.37, A:V.38, A:F.375, A:V.378 Hydrogen bonds: A:A.36, A:V.38, A:G.72, A:Q.114, A:Q.114, A:Y.320, A:R.321, A:C.343, A:R.344 Salt bridges: A:R.344

1 x J5H: ~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] naphthalene-2-carbothioate(Non-covalent)

J5H.4: 25 residues within 4Å: Chain A: V.38, Y.82, I.153, K.154, R.155, I.194, V.195, Y.197, V.281, G.282, W.283, H.284, E.285, S.286, P.287, A.290, I.291, Y.320, F.375, F.379, I.572, F.573, L.576, R.579 Ligands: FMN.3 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:V.38, A:Y.82, A:Y.82, A:I.194, A:V.195, A:F.375, A:F.379, A:F.379, A:I.572, A:F.573 Hydrogen bonds: A:K.154, A:R.155, A:H.284, A:H.284, A:S.286, A:Y.320, A:R.579, A:R.579 Salt bridges: A:K.154, A:K.154, A:R.155, A:R.579

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Willistein, M. et al., Low potential enzymatic hydride transfer via highly cooperative and inversely functionalized flavin cofactors. Nat Commun (2019)

Release Date

2019-05-15

Peptides

NCR: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NCR

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