SMTL ID : 6ze5.1 (1 other biounit)

FAD-dependent oxidoreductase from Chaetomium thermophilum in complex with fragment 2-(1H-indol-3-yl)-N-[(1-methyl-1H-pyrrol-2-yl)methyl]ethanamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 8 residues within 4Å: Chain A: T.128, T.130, R.151, S.152, G.153, N.156, D.201, R.203 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.217, A:R.217

1 x FDA: DIHYDROFLAVINE-ADENINE DINUCLEOTIDE(Non-covalent)

FDA.2: 35 residues within 4Å: Chain A: G.12, G.14, I.15, S.16, I.35, E.36, A.37, F.59, W.60, A.81, Q.82, V.83, G.86, G.87, S.88, I.90, N.91, A.92, M.93, V.94, H.230, L.231, V.232, A.268, A.269, G.270, I.277, A.522, H.523, D.555, I.556, S.566, P.567, M.568 Ligands: 4AQ.6 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:F.59, A:A.522 Hydrogen bonds: A:I.15, A:S.16, A:S.16, A:S.16, A:A.37, A:G.38, A:A.81, A:V.83, A:G.86, A:G.87, A:S.88, A:N.91, A:A.92, A:V.94, A:V.94, A:V.232, A:V.232, A:A.522, A:I.556, A:S.566, A:M.568 Water bridges: A:G.14, A:G.17, A:T.80, A:A.81, A:A.81, A:G.271, A:A.569

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

NAG.3: 2 residues within 4Å: Chain A: N.72, N.73 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.73 Water bridges: A:A.69, A:N.73 NAG.4: 7 residues within 4Å: Chain A: A.139, G.140, N.141, F.163, E.168, W.171, N.172 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.163, A:E.168 Hydrogen bonds: A:N.141, A:E.168, A:E.168, A:E.168, A:N.172 Water bridges: A:E.168 NAG.5: 5 residues within 4Å: Chain A: F.324, N.333, T.335, Y.336, E.339 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.333, A:E.339 Water bridges: A:T.332, A:E.339

2 x 4AQ: 2-(1H-indol-3-yl)-N-[(1-methyl-1H-pyrrol-2-yl)methyl]ethanamine(Non-covalent)

4AQ.6: 12 residues within 4Å: Chain A: F.53, P.55, F.59, I.79, A.92, V.94, I.362, Y.435, N.521, H.523, S.566 Ligands: FDA.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.59, A:I.79, A:A.92, A:V.94, A:I.362 Hydrogen bonds: A:Y.435, A:Y.435, A:N.521 pi-Stacking: A:Y.435 4AQ.7: 5 residues within 4Å: Chain A: D.580, K.583, K.584, R.587, L.588 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.587 Water bridges: A:L.588

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.8: 5 residues within 4Å: Chain A: L.96, T.423, L.437, G.565, S.566 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.423, A:S.566 FMT.9: 4 residues within 4Å: Chain A: A.371, P.372, K.373, S.374 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.373, A:S.374

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.10: 2 residues within 4Å: Chain A: D.345, S.346 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.345, H2O.21 MG.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

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Citation

Svecova, L. et al., Crystallographic fragment screening-based study of a novel FAD-dependent oxidoreductase from Chaetomium thermophilum. Acta Crystallogr D Struct Biol (2021)

Release Date

2021-05-26

Peptides

FAD-dependent oxidoreductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

FAD-dependent oxidoreductase

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