SMTL ID : 4q0m.1

Crystal structure of Pyrococcus furiosus L-asparaginase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 8 residues within 4Å: Chain A: G.11, T.12, D.52, S.53, G.83, T.84, D.85 Chain B: Y.274 13 PLIP interactions: 11 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.12, A:T.12, A:S.53, A:S.53, A:T.84, A:D.85 Water bridges: A:T.12, A:I.13, A:D.52, A:T.54, A:K.155, B:Y.274, B:Y.274 PO4.6: 8 residues within 4Å: Chain A: Y.274 Chain B: G.11, T.12, D.52, S.53, G.83, T.84, D.85 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:T.12, B:S.53, B:S.53, B:T.84, B:D.85 Water bridges: B:T.12, B:T.12, B:T.12, B:T.12, B:I.13, B:D.52, B:K.155

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: P.201, K.202, V.203, Y.225 Chain B: I.209, P.210, G.211, L.212, S.213 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:P.210, B:S.213, B:S.213, A:V.203, A:Y.225, A:Y.225 GOL.3: 4 residues within 4Å: Chain A: Y.169, K.187, N.320, G.323 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.187, A:N.320 GOL.4: 5 residues within 4Å: Chain A: G.135, I.136, R.137, I.185, F.188 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.137 GOL.7: 9 residues within 4Å: Chain A: I.209, P.210, G.211, L.212, S.213 Chain B: P.201, K.202, V.203, Y.225 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:V.203, B:Y.225, A:P.210, A:S.213, A:S.213 GOL.8: 4 residues within 4Å: Chain B: Y.169, K.187, N.320, G.323 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.169, B:K.187, B:N.320 GOL.9: 5 residues within 4Å: Chain B: G.135, I.136, R.137, I.185, F.188 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.137

2 x 4CS: (4S)-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID(Non-covalent)

4CS.5: 5 residues within 4Å: Chain A: Y.69, E.192, V.193, T.194, L.195 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.69 Hydrogen bonds: A:L.195, A:L.195 4CS.10: 5 residues within 4Å: Chain B: Y.69, E.192, V.193, T.194, L.195 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.69 Hydrogen bonds: B:Y.69, B:L.195, B:L.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tomar, R. et al., Structural and functional insights into an archaeal L-asparaginase obtained through the linker-less assembly of constituent domains. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-12-10

Peptides

L-asparaginase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

L-asparaginase