SMTL ID : 6x0k.2 (1 other biounit)

Structure of dithionite-reduced SidA ornithine hydroxylase with the FAD "in" and complexed with L-ornithine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

homo-tetramer

Ligands

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

FDA.1: 27 residues within 4Å: Chain A: V.38, G.39, G.41, P.42, A.43, L.75, E.76, R.77, Q.78, W.83, H.84, M.87, M.94, Q.95, I.96, R.137, E.159, E.160, V.161, A.202, I.203, G.204, Y.400, R.402, S.459, L.460, L.461 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:M.87, A:Y.400 Hydrogen bonds: A:F.40, A:A.43, A:R.77, A:R.77, A:Q.78, A:W.83, A:Q.95, A:V.161, A:V.161, A:R.402, A:L.461, A:S.462 Water bridges: A:G.41, A:G.41, A:Q.78 Salt bridges: A:H.84 pi-Stacking: A:H.84 pi-Cation interactions: A:R.77 FDA.3: 26 residues within 4Å: Chain B: G.39, G.41, P.42, A.43, E.76, R.77, Q.78, W.83, H.84, M.87, M.94, Q.95, I.96, R.137, E.159, E.160, V.161, A.202, I.203, G.204, G.205, Y.400, S.459, L.460, L.461, S.462 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:H.84, B:M.87, B:Y.400 Hydrogen bonds: B:A.43, B:R.77, B:Q.78, B:W.83, B:Q.95, B:V.161, B:V.161, B:G.204, B:G.205, B:L.461, B:S.462 Salt bridges: B:H.84 FDA.4: 29 residues within 4Å: Chain C: V.38, G.39, F.40, G.41, P.42, A.43, L.75, E.76, R.77, Q.78, W.83, H.84, M.87, M.94, Q.95, I.96, R.137, E.159, E.160, V.161, A.202, I.203, G.204, Y.400, R.402, S.459, L.460, L.461 Ligands: ORN.5 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:M.87, C:Y.400 Hydrogen bonds: C:F.40, C:G.41, C:A.43, C:R.77, C:Q.78, C:W.83, C:Q.95, C:Q.95, C:V.161, C:V.161, C:G.205, C:R.402, C:L.461 Water bridges: C:F.40, C:E.76, C:R.467 Salt bridges: C:H.84 pi-Cation interactions: C:R.77 FDA.6: 27 residues within 4Å: Chain D: V.38, G.39, G.41, P.42, A.43, L.75, E.76, R.77, Q.78, W.83, H.84, M.87, M.94, Q.95, I.96, R.137, E.159, E.160, V.161, A.202, I.203, G.204, Y.400, S.459, L.460, L.461, S.462 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:M.87, D:Y.400 Hydrogen bonds: D:A.43, D:R.77, D:R.77, D:Q.78, D:W.83, D:Q.95, D:V.161, D:V.161, D:L.461, D:S.462 Water bridges: D:G.204 Salt bridges: D:H.84

3 x ORN: L-ornithine(Non-covalent)

ORN.2: 8 residues within 4Å: Chain A: Q.95, I.96, K.100, N.286, F.289, N.316, L.460, S.462 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.96, A:L.460 Hydrogen bonds: A:N.286, A:S.462 Salt bridges: A:K.100 ORN.5: 10 residues within 4Å: Chain C: Q.95, I.96, K.100, D.281, N.286, F.289, N.316, L.460, S.462 Ligands: FDA.4 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:L.460 Hydrogen bonds: C:N.286, C:N.286 Salt bridges: C:K.100 ORN.7: 8 residues within 4Å: Chain D: Q.95, I.96, K.100, N.286, F.289, N.316, L.460, S.462 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:L.460 Hydrogen bonds: D:N.286, D:T.315, D:S.462 Salt bridges: D:K.100

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Campbell, A.C. et al., Trapping conformational states of a flavin-dependent N -monooxygenase in crystallo reveals protein and flavin dynamics. J.Biol.Chem. (2020)

Release Date

2020-08-05

Peptides

L-ornithine N(5)-monooxygenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

L-ornithine N(5)-monooxygenase

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