SMTL ID : 3a9x.1

Crystal structure of rat selenocysteine lyase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 14 residues within 4Å: Chain A: G.87, T.88, N.91, H.133, S.135, N.186, D.221, A.223, Q.224, V.244, H.246, K.247 Chain B: G.283, T.284 15 PLIP interactions: 4 interactions with chain B, 11 interactions with chain A Hydrogen bonds: B:Q.276, B:T.284, B:T.284, B:T.284, A:G.87, A:T.88, A:N.186, A:N.186, A:Q.224 Hydrophobic interactions: A:H.133, A:A.223, A:K.247 Salt bridges: A:H.133, A:H.246 pi-Stacking: A:H.133 PLP.2: 15 residues within 4Å: Chain A: G.283, T.284 Chain B: G.87, T.88, N.91, H.133, S.135, D.221, A.223, Q.224, V.244, H.246, K.247 Ligands: PO4.3, PO4.4 14 PLIP interactions: 10 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:H.133, B:K.247 Hydrogen bonds: B:G.87, B:T.88, B:N.91, B:Q.224, A:T.284, A:T.284, A:T.284 Water bridges: B:H.246, A:G.283 Salt bridges: B:H.133, B:H.246 pi-Stacking: B:H.133

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

PO4.3: 11 residues within 4Å: Chain A: N.48, Q.276, T.284 Chain B: A.26, H.133, H.246, K.247, S.374, C.375 Ligands: PLP.2, PO4.4 13 PLIP interactions: 6 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:S.374, B:S.374, B:C.375, A:N.48, A:Q.276, A:T.284, A:T.284, A:T.284 Salt bridges: B:H.133, B:H.246, B:K.247 Water bridges: A:T.284, A:T.284 PO4.4: 11 residues within 4Å: Chain B: N.25, A.26, N.186, Q.224, K.247, A.373, S.374, C.375, R.402 Ligands: PLP.2, PO4.3 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.25, B:N.186, B:Q.224, B:S.374, B:C.375 Salt bridges: B:K.247, B:R.402 PO4.5: 4 residues within 4Å: Chain B: R.312, R.315, D.316, R.341 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.312, B:D.316 Water bridges: B:R.315 Salt bridges: B:R.315, B:R.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Omi, R. et al., Reaction mechanism and molecular basis for selenium/sulfur discrimination of selenocysteine lyase. J.Biol.Chem. (2010)

Release Date

2010-03-16

Peptides

Selenocysteine lyase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Selenocysteine lyase

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