SMTL ID : 4ls0.1

Crystal structure of human dihydroorotate dehydrogenase (DHODH) with DH01B0033

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 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: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.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 13 PLIP interactions: 13 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 Salt bridges: A:K.94

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

SO4.3: 3 residues within 4Å: Chain A: R.239, V.241, H.242 4 PLIP interactions: 4 interactions with chain A Water bridges: A:V.241, A:V.241 Salt bridges: A:R.239, A:H.242 SO4.4: 1 residues within 4Å: Chain A: R.154 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.154 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: 2 residues within 4Å: Chain A: Q.160 Ligands: SO4.5 No protein-ligand interaction detected (PLIP) SO4.7: 6 residues within 4Å: Chain A: Q.162, A.163, T.166, L.199, A.200, D.201 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.166, A:D.201 Water bridges: A:H.242 SO4.8: 3 residues within 4Å: Chain A: A.213, G.214, R.216 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.214 Water bridges: A:T.212, A:R.216, A:R.216 Salt bridges: A:R.216 SO4.9: 4 residues within 4Å: Chain A: R.239, R.240, R.243 Ligands: SO4.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.240, A:R.243 Water bridges: A:R.239, A:R.239 Salt bridges: A:R.239 SO4.10: 3 residues within 4Å: Chain A: R.240, R.243 Ligands: SO4.9 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.243 SO4.11: 3 residues within 4Å: Chain A: K.301, P.302, R.304 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.301 Water bridges: A:R.304 Salt bridges: A:K.301 SO4.12: 5 residues within 4Å: Chain A: A.65, R.66, F.67, G.362, R.366 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.66, A:F.67, A:G.362 Water bridges: A:K.363, A:K.363 Salt bridges: A:R.366

1 x B3B: 2-{(E)-[2-(4-phenyl-1,3-thiazol-2-yl)hydrazinylidene]methyl}benzaldehyde(Non-covalent)

B3B.13: 15 residues within 4Å: Chain A: M.37, Q.41, P.46, A.49, H.50, A.53, T.57, L.62, F.92, V.128, R.130, Y.350, L.353, T.354, P.358 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:P.46, A:H.50, A:L.62, A:V.128, A:Y.350, A:T.354, A:P.358 Hydrogen bonds: A:Q.41, A:R.130 Water bridges: A:A.49, A:T.354

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, L. et al., Crystal structure of human dihydroorotate dehydrogenase (DHODH) with DHO1B0033. To be Published

Release Date

2014-07-23

Peptides

Dihydroorotate dehydrogenase (quinone), mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydroorotate dehydrogenase (quinone), mitochondrial

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