SMTL ID : 3dtv.5 (4 other biounits)

Crystal structure of arylmalonate decarboxylase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 1 residues within 4Å: Chain A: R.61 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.61 SO4.2: 7 residues within 4Å: Chain A: G.74, T.75, S.76, M.104, Y.126, C.188, G.189 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.75, A:T.75, A:S.76, A:Y.126, A:Y.126, A:G.189, A:G.190 Water bridges: A:L.77 SO4.3: 5 residues within 4Å: Chain A: T.90, R.94, P.100, C.101 Ligands: GOL.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:C.101, A:C.101 Water bridges: A:R.94, A:R.94 Salt bridges: A:R.94 SO4.4: 2 residues within 4Å: Chain A: R.149, R.173 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.149, A:R.173 SO4.6: 6 residues within 4Å: Chain B: V.43, T.44, Y.48, V.51, R.81 Ligands: BME.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.44, B:T.44 Water bridges: B:R.81 Salt bridges: B:R.81 SO4.7: 4 residues within 4Å: Chain B: R.94, L.99, P.100, C.101 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:C.101, B:C.101 Water bridges: B:R.94 Salt bridges: B:R.94 SO4.8: 3 residues within 4Å: Chain B: I.127, D.128, G.152 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.128, B:D.128 SO4.11: 2 residues within 4Å: Chain C: R.149, R.173 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:R.149, C:R.173 SO4.13: 8 residues within 4Å: Chain C: V.43, T.44 Chain D: P.14, G.74, T.75, S.76, G.189 Ligands: GOL.12 7 PLIP interactions: 2 interactions with chain C, 5 interactions with chain D Hydrogen bonds: C:S.42, C:T.44, D:T.75, D:T.75, D:S.76 Water bridges: D:T.75, D:G.189 SO4.14: 2 residues within 4Å: Chain D: D.163, T.164 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.164, D:T.164 Water bridges: D:A.165

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: A.87, T.90, T.106 Chain C: D.49 Chain D: T.154 Ligands: SO4.3 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain D Water bridges: A:N.86, D:T.154 Hydrogen bonds: D:T.154, D:T.154 GOL.10: 4 residues within 4Å: Chain B: P.14, G.74, T.75, S.76 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.75, B:T.75, B:T.75, B:S.76, B:S.76 GOL.12: 9 residues within 4Å: Chain C: T.44, P.45, E.46 Chain D: A.125, Y.126, C.188, G.189, G.190 Ligands: SO4.13 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:T.44, C:T.44, C:E.46, D:A.125, D:G.190 GOL.15: 4 residues within 4Å: Chain D: A.50, E.53, S.54, D.57 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:A.50 Water bridges: D:D.57, D:R.60

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.9: 5 residues within 4Å: Chain B: T.44, G.47, Y.48 Chain D: E.140 Ligands: SO4.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Obata, R. et al., Structural Basis for Inverting the Enantioselectivity of Arylmalonate Decarboxylase Revealed by the Structural Analysis of the Gly74Cys/Cys188Ser Mutant in the Liganded Form. Biochemistry (2010)

Release Date

2009-07-21

Peptides

Arylmalonate decarboxylase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
C

Arylmalonate decarboxylase

Related Entries With Identical Sequence