SMTL ID : 5hin.1

Crystal structure of human dihydroorotate dehydrogenase (DHODH) with 18L compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 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 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:N.139, A:Y.141, A:Y.350, A:Y.350 Hydrogen bonds: A:A.90, A:K.94, A:S.114, A:S.114, A:N.175, A:K.249, A:K.249, A:N.278, A:G.300, A:G.329, A:Y.350, A:T.351, A:T.351 Water bridges: A:A.90, A:G.328, A:V.330, A:V.330, 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 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.143 Hydrogen bonds: A:N.139, A:N.139, A:N.139, A:G.142, A:F.143, A:N.206, A:N.211, A:N.278, A:N.278 Salt bridges: A:K.94

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

SO4.3: 3 residues within 4Å: Chain A: R.239, V.241, H.242 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.239, A:H.242 SO4.4: 2 residues within 4Å: Chain A: R.51, H.146 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.51, A:H.95, A:E.121, A:N.144 Salt bridges: A:R.51, A:H.146 SO4.5: 2 residues within 4Å: Chain A: K.164 Ligands: SO4.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.164 SO4.6: 1 residues within 4Å: Ligands: SO4.5 No protein-ligand interaction detected (PLIP) SO4.7: 2 residues within 4Å: Chain A: R.240, R.243 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.240, A:R.243 Salt bridges: A:R.243

1 x 1KL: methyl (2Z)-(3-{4-[(4-tert-butylphenyl)carbamoyl]phenyl}-4-oxo-1,3-thiazolidin-2-ylidene)(cyano)acetate(Non-covalent)

1KL.8: 16 residues within 4Å: Chain A: Y.32, M.37, L.40, A.49, H.50, L.52, A.53, F.56, L.61, L.62, P.63, F.92, Y.350, L.353, T.354, P.358 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.40, A:H.50, A:A.53, A:F.56, A:L.353, A:P.358 Hydrogen bonds: A:Y.32 Water bridges: A:A.49, A:A.53

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.9: 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 ACT.10: 3 residues within 4Å: Chain A: S.256, K.259, E.313 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.259 Salt bridges: A:K.259

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, J. et al., Crystal structure of human dihydroorotate dehydrogenase (DHODH) with 18L at 1.60 A resolution. To Be Published

Release Date

2016-07-20

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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