SMTL ID : 5xfv.1 (1 other biounit)

Crystal structures of FMN-bound form of dihydroorotate dehydrogenase from Trypanosoma brucei

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 23 residues within 4Å: Chain A: A.40, A.41, G.42, K.65, S.66, Y.80, S.87, N.89, M.91, N.149, K.186, V.215, N.216, S.217, G.243, G.244, V.247, C.270, G.271, G.272, G.293, T.294 Ligands: MLI.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:Y.80, A:Y.80 Hydrogen bonds: A:A.41, A:S.66, A:S.66, A:S.66, A:K.186, A:K.186, A:N.216, A:S.217, A:G.244, A:G.272, A:G.293, A:T.294 Water bridges: A:K.65, A:S.119, A:N.149, A:N.149, A:G.271, A:V.273, A:V.273 FMN.5: 24 residues within 4Å: Chain B: A.40, A.41, G.42, K.65, S.66, Y.80, S.87, N.89, M.91, N.149, K.186, V.215, N.216, S.217, G.243, G.244, V.247, C.270, G.271, G.272, V.292, G.293, T.294 Ligands: MLI.6 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:Y.80, B:Y.80 Hydrogen bonds: B:A.41, B:S.66, B:S.66, B:S.66, B:K.186, B:K.186, B:N.216, B:S.217, B:G.244, B:G.272, B:G.293, B:T.294, B:T.294 Water bridges: B:S.119, B:N.149, B:N.149, B:G.271, B:V.273, B:V.273, B:V.273

6 x MLI: MALONATE ION(Non-functional Binders)

MLI.2: 11 residues within 4Å: Chain A: K.65, N.89, M.91, G.92, L.93, P.94, C.152, P.153, N.154, N.216 Ligands: FMN.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:M.91, A:G.92, A:L.93, A:N.154 Water bridges: A:N.216 Salt bridges: A:K.65, A:K.65 MLI.3: 6 residues within 4Å: Chain A: I.193, R.260, R.261 Chain B: K.236, Q.237, F.239 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:F.239, A:I.193 Hydrogen bonds: B:Q.237 Water bridges: A:R.261, A:R.261 Salt bridges: A:R.260, A:R.261 MLI.4: 3 residues within 4Å: Chain A: R.72, T.73, G.74 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.73, A:G.74 Salt bridges: A:R.72, A:R.72 MLI.6: 11 residues within 4Å: Chain B: K.65, N.89, M.91, G.92, L.93, P.94, C.152, P.153, N.154, N.216 Ligands: FMN.5 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:M.91, B:G.92, B:L.93, B:N.154, B:N.154 Water bridges: B:N.149, B:N.216 Salt bridges: B:K.65, B:K.65 MLI.7: 6 residues within 4Å: Chain A: K.236, Q.237, F.239 Chain B: I.193, R.260, R.261 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.193, A:F.239 Water bridges: B:R.261, B:R.261 Salt bridges: B:R.260, B:R.261 MLI.8: 3 residues within 4Å: Chain B: R.72, T.73, G.74 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.73, B:G.74 Salt bridges: B:R.72, B:R.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kubota, T. et al., Crystal structures of FMN-bound and FMN-free forms of dihydroorotate dehydrogenase fromTrypanosoma brucei. FEBS Open Bio (2018)

Release Date

2018-04-25

Peptides

Dihydroorotate dehydrogenase (fumarate): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dihydroorotate dehydrogenase (fumarate)

Related Entries With Identical Sequence