SMTL ID : 3gb5.1

Crystal structure of Mus musculus iodotyrosine deiodinase (IYD) bound to FMN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 18 residues within 4Å: Chain A: R.64, R.65, S.66, R.68, V.200, T.201, T.202, T.203, L.241, R.243 Chain B: P.91, S.92, G.93, H.95, Y.176, I.179, S.180 Ligands: ACT.3 24 PLIP interactions: 18 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:T.201, A:T.203, B:P.91, B:Y.176, B:I.179 Hydrogen bonds: A:S.66, A:S.66, A:S.66, A:S.66, A:R.68, B:S.92, B:H.95 Water bridges: A:R.65, A:R.68, A:R.68, A:R.68, A:Y.148, A:Y.148, A:T.203, A:R.243, B:H.95 Salt bridges: A:R.64, A:R.65, A:R.243 FMN.5: 18 residues within 4Å: Chain A: P.91, S.92, G.93, H.95, Y.176, I.179, S.180 Chain B: R.64, R.65, S.66, R.68, V.200, T.201, T.202, T.203, L.241, R.243 Ligands: ACT.7 23 PLIP interactions: 5 interactions with chain A, 18 interactions with chain B Hydrophobic interactions: A:P.91, A:Y.176, A:I.179, B:T.201, B:T.203 Hydrogen bonds: A:S.92, A:H.95, B:S.66, B:S.66, B:S.66, B:S.66, B:R.68 Water bridges: B:R.65, B:R.65, B:R.68, B:R.68, B:R.68, B:Y.148, B:T.203, B:R.243 Salt bridges: B:R.64, B:R.65, B:R.243

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 4 residues within 4Å: Chain A: S.71, S.72, R.234 Ligands: ACT.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.72 Water bridges: A:R.234, A:R.234 Salt bridges: A:R.234 PO4.6: 4 residues within 4Å: Chain B: S.71, S.72, R.234 Ligands: ACT.8 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.72 Water bridges: B:R.234, B:R.234 Salt bridges: B:R.234

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

ACT.3: 3 residues within 4Å: Chain B: G.93, A.94 Ligands: FMN.1 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:A.94 Water bridges: A:R.68 ACT.4: 4 residues within 4Å: Chain A: S.233, R.234, D.235 Ligands: PO4.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.233 Water bridges: A:R.234 Salt bridges: A:R.234 ACT.7: 3 residues within 4Å: Chain A: G.93, A.94 Ligands: FMN.5 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.94 Water bridges: B:R.68 ACT.8: 4 residues within 4Å: Chain B: S.233, R.234, D.235 Ligands: PO4.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.233 Water bridges: B:R.234 Salt bridges: B:R.234

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thomas, S.R. et al., Crystal structure of iodotyrosine deiodinase, a novel flavoprotein responsible for iodide salvage in thyroid glands. J.Biol.Chem. (2009)

Release Date

2009-05-12

Peptides

Iodotyrosine dehalogenase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Iodotyrosine dehalogenase 1

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