SMTL ID : 3gf0.1

Bifunctional dCTP deaminase-dUTPase mutant enzyme variant E145Q from Methanocaldococcus jannaschii in complex with pyrophosphate and magnesium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

homo-trimer

Ligands

12 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.1: 1 residues within 4Å: Ligands: POP.5 No protein-ligand interaction detected (PLIP) MG.2: 5 residues within 4Å: Chain A: I.42, E.93, G.94, G.95 Chain C: D.150 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Metal complexes: A:E.93, A:G.95, C:D.150 MG.3: 4 residues within 4Å: Chain B: Q.129, T.130 Ligands: MG.8, MG.13 No protein-ligand interaction detected (PLIP) MG.4: 4 residues within 4Å: Chain A: Q.115, G.116 Chain B: T.130, A.131 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Ligands: POP.10 No protein-ligand interaction detected (PLIP) MG.7: 5 residues within 4Å: Chain A: D.150 Chain B: I.42, E.93, G.94, G.95 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:E.93, B:G.95, A:D.150 MG.8: 4 residues within 4Å: Chain C: Q.129, T.130 Ligands: MG.3, MG.13 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain B: Q.115, G.116 Chain C: T.130, A.131 No protein-ligand interaction detected (PLIP) MG.11: 1 residues within 4Å: Ligands: POP.15 No protein-ligand interaction detected (PLIP) MG.12: 5 residues within 4Å: Chain B: D.150 Chain C: I.42, E.93, G.94, G.95 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Metal complexes: C:E.93, C:G.95, B:D.150 MG.13: 4 residues within 4Å: Chain A: Q.129, T.130 Ligands: MG.3, MG.8 No protein-ligand interaction detected (PLIP) MG.14: 4 residues within 4Å: Chain A: T.130, A.131 Chain C: Q.115, G.116 No protein-ligand interaction detected (PLIP)

3 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.5: 8 residues within 4Å: Chain A: Y.177, S.183, K.184, Y.185 Chain C: R.117, S.118, S.119 Ligands: MG.1 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:S.118, C:S.119, A:K.184 Water bridges: C:R.160 Salt bridges: C:R.117, C:R.117, A:K.184 POP.10: 8 residues within 4Å: Chain A: R.117, S.118, S.119 Chain B: Y.177, S.183, K.184, Y.185 Ligands: MG.6 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:Y.177, B:K.184, A:S.118, A:S.119 Salt bridges: B:K.184, A:R.117, A:R.117 Water bridges: A:R.160 POP.15: 8 residues within 4Å: Chain B: R.117, S.118, S.119 Chain C: Y.177, S.183, K.184, Y.185 Ligands: MG.11 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:S.118, B:S.119, C:Y.177, C:K.184 Water bridges: B:R.160 Salt bridges: B:R.117, B:R.117, C:K.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Siggaard, J.H.B. et al., Pre-steady State Kinetic and Structural Evidence for a Concerted Biofunctionality in dCTP deaminase-dUTPase from Methanocaldococcus jannaschii. To be Published

Release Date

2009-03-10

Peptides

dCTP deaminase, dUMP-forming: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

dCTP deaminase, dUMP-forming