SMTL ID : 4ekn.1 (1 other biounit)

Structure of the catalytic chain of Methanococcus jannaschii Aspartate Transcarbamoylase in a hexagonal crystal form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: K.63, V.69 Chain B: K.63, V.69 Chain C: K.63, V.69 Ligands: SO4.7, SO4.13 10 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B, 2 interactions with chain C Water bridges: A:K.63, A:V.69, B:K.63, B:K.63, B:V.69, C:K.63 Salt bridges: A:K.63, B:K.63, C:K.63 Hydrogen bonds: B:V.69 SO4.2: 3 residues within 4Å: Chain A: G.11, K.12, E.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.12, A:E.13 SO4.3: 1 residues within 4Å: Chain A: R.144 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.144, A:K.283 SO4.4: 6 residues within 4Å: Chain A: S.128, Y.162, G.163, R.164, T.165, R.226 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.128, A:R.164, A:T.165 Salt bridges: A:R.226 SO4.7: 8 residues within 4Å: Chain A: K.63, V.69 Chain B: K.63, V.69 Chain C: K.63, V.69 Ligands: SO4.1, SO4.13 10 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A, 5 interactions with chain C Water bridges: B:K.63, B:V.69, A:K.63, C:K.63, C:K.63, C:V.69 Salt bridges: B:K.63, A:K.63, C:K.63 Hydrogen bonds: C:V.69 SO4.8: 3 residues within 4Å: Chain B: G.11, K.12, E.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.12, B:E.13 SO4.9: 1 residues within 4Å: Chain B: R.144 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.144, B:K.283 SO4.10: 6 residues within 4Å: Chain B: S.128, Y.162, G.163, R.164, T.165, R.226 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.128, B:R.164, B:T.165 Salt bridges: B:R.226 SO4.13: 8 residues within 4Å: Chain A: K.63, V.69 Chain B: K.63, V.69 Chain C: K.63, V.69 Ligands: SO4.1, SO4.7 10 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C, 2 interactions with chain B Hydrogen bonds: A:V.69 Water bridges: A:K.63, A:K.63, A:V.69, C:K.63, C:V.69, B:K.63 Salt bridges: A:K.63, C:K.63, B:K.63 SO4.14: 3 residues within 4Å: Chain C: G.11, K.12, E.13 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.12, C:E.13 SO4.15: 1 residues within 4Å: Chain C: R.144 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:R.144, C:K.283 SO4.16: 6 residues within 4Å: Chain C: S.128, Y.162, G.163, R.164, T.165, R.226 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.128, C:R.164, C:T.165 Salt bridges: C:R.226

3 x K: POTASSIUM ION(Non-covalent)

K.5: 5 residues within 4Å: Chain A: E.68 Chain B: E.68 Chain C: E.68 Ligands: K.11, K.17 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 1 interactions with chain C Metal complexes: B:E.68, B:E.68, A:E.68, A:E.68, C:E.68 K.11: 5 residues within 4Å: Chain A: E.68 Chain B: E.68 Chain C: E.68 Ligands: K.5, K.17 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 1 interactions with chain C Metal complexes: B:E.68, B:E.68, A:E.68, A:E.68, C:E.68 K.17: 5 residues within 4Å: Chain A: E.68 Chain B: E.68 Chain C: E.68 Ligands: K.5, K.11 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 interactions with chain C Metal complexes: A:E.68, A:E.68, B:E.68, B:E.68, C:E.68

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: K.36 Chain B: K.36 Ligands: GOL.12, GOL.18 9 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A, 3 interactions with chain B Water bridges: C:K.36, C:K.36, C:E.39, A:K.36, A:K.36, A:K.36, B:K.36, B:K.36, B:K.36 GOL.12: 4 residues within 4Å: Chain B: K.36 Chain C: K.36 Ligands: GOL.6, GOL.18 9 PLIP interactions: 3 interactions with chain C, 3 interactions with chain A, 3 interactions with chain B Water bridges: C:K.36, C:K.36, C:K.36, A:K.36, A:E.39, A:E.39, B:K.36, B:K.36, B:K.36 GOL.18: 4 residues within 4Å: Chain A: K.36 Chain C: K.36 Ligands: GOL.6, GOL.12 9 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C, 3 interactions with chain B Water bridges: A:K.36, A:K.36, A:K.36, C:K.36, C:K.36, C:K.36, B:K.36, B:K.36, B:E.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vitali, J. et al., Structure of the catalytic chain of Methanococcus jannaschii aspartate transcarbamoylase in a hexagonal crystal form: insights into the path of carbamoyl phosphate to the active site of the enzyme. Acta Crystallogr.,Sect.F (2012)

Release Date

2012-05-09

Peptides

Aspartate carbamoyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
B

Aspartate carbamoyltransferase

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