SMTL ID : 1uhe.2 (1 other biounit)

Crystal structure of aspartate decarboxylase, isoaspargine complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

hetero-8-8-mer

Ligands

8 x NSN: N~2~-(2-AMINO-1-METHYL-2-OXOETHYLIDENE)ASPARAGINATE(Covalent)

NSN.1: 14 residues within 4Å: Chain A: Y.22 Chain B: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 Chain G: K.9 Chain H: V.22, R.29, I.60 11 PLIP interactions: 2 interactions with chain H, 8 interactions with chain B, 1 interactions with chain G Hydrophobic interactions: H:I.60, B:Y.33, B:I.35 Salt bridges: H:R.29 Hydrogen bonds: B:T.32, B:T.32, B:Y.33, B:N.46, B:N.46, B:A.49, G:K.9 NSN.2: 14 residues within 4Å: Chain C: Y.22 Chain D: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 Chain E: K.9 Chain F: V.22, R.29, I.60 11 PLIP interactions: 2 interactions with chain F, 8 interactions with chain D, 1 interactions with chain E Hydrophobic interactions: F:I.60, D:Y.33, D:I.35 Salt bridges: F:R.29 Hydrogen bonds: D:T.32, D:T.32, D:Y.33, D:N.46, D:N.46, D:A.49, E:K.9 NSN.3: 14 residues within 4Å: Chain A: K.9 Chain B: V.22, R.29, I.60 Chain E: Y.22 Chain F: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 11 PLIP interactions: 2 interactions with chain B, 8 interactions with chain F, 1 interactions with chain A Hydrophobic interactions: B:I.60, F:Y.33, F:I.35 Salt bridges: B:R.29 Hydrogen bonds: F:T.32, F:T.32, F:Y.33, F:N.46, F:N.46, F:A.49, A:K.9 NSN.4: 14 residues within 4Å: Chain C: K.9 Chain D: V.22, R.29, I.60 Chain G: Y.22 Chain H: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 11 PLIP interactions: 8 interactions with chain H, 2 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: H:Y.33, H:I.35, D:I.60 Hydrogen bonds: H:T.32, H:T.32, H:Y.33, H:N.46, H:N.46, H:A.49, C:K.9 Salt bridges: D:R.29 NSN.5: 14 residues within 4Å: Chain I: Y.22 Chain J: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 Chain O: K.9 Chain P: V.22, R.29, I.60 10 PLIP interactions: 7 interactions with chain J, 2 interactions with chain P, 1 interactions with chain O Hydrophobic interactions: J:Y.33, J:I.35, P:I.60 Hydrogen bonds: J:T.32, J:T.32, J:N.46, J:N.46, J:A.49, O:K.9 Salt bridges: P:R.29 NSN.6: 14 residues within 4Å: Chain K: Y.22 Chain L: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 Chain M: K.9 Chain N: V.22, R.29, I.60 10 PLIP interactions: 7 interactions with chain L, 2 interactions with chain N, 1 interactions with chain M Hydrophobic interactions: L:Y.33, L:I.35, N:I.60 Hydrogen bonds: L:T.32, L:T.32, L:N.46, L:N.46, L:A.49, M:K.9 Salt bridges: N:R.29 NSN.7: 14 residues within 4Å: Chain I: K.9 Chain J: V.22, R.29, I.60 Chain M: Y.22 Chain N: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 10 PLIP interactions: 7 interactions with chain N, 1 interactions with chain I, 2 interactions with chain J Hydrophobic interactions: N:Y.33, N:I.35, J:I.60 Hydrogen bonds: N:T.32, N:T.32, N:N.46, N:N.46, N:A.49, I:K.9 Salt bridges: J:R.29 NSN.8: 14 residues within 4Å: Chain K: K.9 Chain L: V.22, R.29, I.60 Chain O: Y.22 Chain P: I.1, T.32, Y.33, I.35, V.45, N.46, G.47, A.48, A.49 10 PLIP interactions: 7 interactions with chain P, 1 interactions with chain K, 2 interactions with chain L Hydrophobic interactions: P:Y.33, P:I.35, L:I.60 Hydrogen bonds: P:T.32, P:T.32, P:N.46, P:N.46, P:A.49, K:K.9 Salt bridges: L:R.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, B.I. et al., Crystal structure of the schiff base intermediate prior to decarboxylation in the catalytic cycle of aspartate alpha-decarboxylase. J.Mol.Biol. (2004)

Release Date

2004-07-13

Peptides

Aspartate 1-decarboxylase beta chain: ACEGIKMO
Aspartate 1-decarboxylase alpha chain: BDFHJLNP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
B

E
B

G
B

I
B

K
B

M
B

O
B

B
A

D
A

F
A

H
A

J
A

L
A

N
A

P
A

Aspartate 1-decarboxylase beta chain

Aspartate 1-decarboxylase alpha chain

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