SMTL ID : 5hqe.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

1 x 64B: methyl (2Z)-cyano[3-(2-fluoro-4-methoxyphenyl)-4-oxo-1,3-thiazolidin-2-ylidene]acetate(Non-covalent)

64B.1: 13 residues within 4Å: Chain A: Y.32, L.36, M.37, L.40, L.52, A.53, F.56, T.57, L.61, L.62, P.63, L.353, P.358 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.56, A:F.56, A:L.62, A:P.358 Hydrogen bonds: A:Y.32 Water bridges: A:A.53

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.2: 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.3 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:S.299, A:S.299, 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

1 x ORO: OROTIC ACID(Non-covalent)

ORO.3: 12 residues within 4Å: Chain A: K.94, N.139, Y.141, G.142, F.143, N.206, S.209, P.210, N.211, N.278, T.279 Ligands: FMN.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.143 Hydrogen bonds: A:N.139, 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 Water bridges: A:S.209, A:S.209 Salt bridges: A:K.94

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

SO4.4: 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:R.216 Salt bridges: A:R.216 SO4.5: 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 SO4.6: 6 residues within 4Å: Chain A: R.51, H.95, R.127, N.144, H.146 Ligands: ACT.7 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.125, A:R.127, A:N.144 Water bridges: A:R.51, A:R.51 Salt bridges: A:R.51, A:H.95

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

ACT.7: 6 residues within 4Å: Chain A: P.119, Q.120, E.121, S.145, H.146 Ligands: SO4.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.121 ACT.8: 2 residues within 4Å: Chain A: P.117, E.191 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.191 ACT.9: 2 residues within 4Å: Chain A: T.255, Q.257 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.255, A:Q.257 Hydrogen bonds: A:T.255

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, J. et al., Crystal structure of human dihydroorotate dehydrogenase (DHODH) with 18T at 1.62 A resolution. To Be Published

Release Date

2016-07-27

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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