SMTL ID : 4rka.1

Crystal structure of human dihydroorotate dehydrogenase (DHODH) with DH03A347

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.71 Å

Oligo State

monomer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 24 residues within 4Å: Chain A: A.89, A.90, G.91, K.94, G.113, S.114, N.139, Y.141, N.175, N.206, K.249, T.277, N.278, T.279, S.299, G.300, L.303, V.327, G.328, G.329, L.349, Y.350, T.351 Ligands: ORO.2 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:N.139, A:Y.141, A:Y.350 Hydrogen bonds: A:A.90, A:K.94, A:S.114, A:S.114, A:N.175, A:N.206, A:K.249, A:K.249, A:N.278, A:S.299, A:G.300, A:G.329, A:Y.350, A:T.351 Water bridges: A:A.90, A:G.328, A:V.330

1 x ORO: OROTIC ACID(Non-covalent)

ORO.2: 13 residues within 4Å: Chain A: K.94, N.139, R.140, Y.141, G.142, F.143, N.206, S.209, P.210, N.211, N.278, T.279 Ligands: FMN.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.143 Hydrogen bonds: A:N.139, A:N.139, A:Y.141, A:G.142, A:F.143, A:N.206, A:N.211, A:N.278, A:N.278, A:T.279 Water bridges: A:S.209, A:S.209 Salt bridges: A:K.94

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: R.239, V.241, H.242 3 PLIP interactions: 3 interactions with chain A Water bridges: A:V.241 Salt bridges: A:R.239, A:H.242 SO4.4: 3 residues within 4Å: Chain A: R.240, R.243 Ligands: SO4.5 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.240, A:R.243 SO4.5: 4 residues within 4Å: Chain A: R.239, R.240, R.243 Ligands: SO4.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.240 Water bridges: A:R.239, A:V.241 Salt bridges: A:R.243 SO4.6: 2 residues within 4Å: Chain A: K.221, R.225 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.221, A:R.225 SO4.7: 1 residues within 4Å: Chain A: R.154 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.154 Salt bridges: A:R.154 SO4.8: 3 residues within 4Å: Chain A: A.213, G.214, R.216 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.214 Water bridges: A:L.215, A:L.215 Salt bridges: A:R.216

1 x 3RY: 2-{[5-(naphthalen-1-ylmethyl)-4-oxo-4H-1lambda~4~,3-thiazol-2-yl]amino}benzoic acid(Non-covalent)

3RY.9: 17 residues within 4Å: Chain A: M.37, L.40, P.46, A.49, H.50, A.53, F.56, T.57, L.61, L.62, F.92, M.105, R.130, Y.350, L.353, T.354, P.358 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.40, A:H.50, A:F.56, A:L.62, A:T.354, A:P.358 Water bridges: A:T.354 Salt bridges: A:R.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, L. et al., Crystal structure of human dihydroorotate dehydrogenase (DHODH) with DH03A347. TO BE PUBLISHED

Release Date

2015-11-11

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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