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

Bifunctional dCTP deaminase: dUTPase from Mycobacterium tuberculosis in complex with dTTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain C: Q.28 Ligands: TTP.2 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain A: Q.28 Ligands: TTP.5 No protein-ligand interaction detected (PLIP) MG.7: 2 residues within 4Å: Chain B: Q.28 Ligands: TTP.8 No protein-ligand interaction detected (PLIP)

3 x TTP: THYMIDINE-5'-TRIPHOSPHATE(Non-covalent)

TTP.2: 21 residues within 4Å: Chain A: S.113, A.115, G.116, F.117, I.118, D.119, F.122, I.126, T.127, Y.162, G.168, S.169, K.170, Y.171, Q.174 Chain C: K.101, S.102, S.103, R.106, Q.148 Ligands: MG.1 29 PLIP interactions: 15 interactions with chain A, 14 interactions with chain C Hydrophobic interactions: A:A.115, A:I.118, A:I.118, A:F.122 Hydrogen bonds: A:D.119, A:D.119, A:T.127, A:T.127, A:T.127, A:K.170, A:Y.171, A:Q.174, C:S.102, C:S.102, C:S.103, C:R.106, C:Q.148 Water bridges: A:E.129, C:Q.28, C:S.31, C:D.33, C:K.101, C:K.101, C:K.101, C:K.101 Salt bridges: A:K.170, A:K.170, C:K.101, C:K.101 TTP.5: 21 residues within 4Å: Chain A: K.101, S.102, S.103, R.106, Q.148 Chain B: S.113, A.115, G.116, F.117, I.118, D.119, F.122, I.126, T.127, Y.162, G.168, S.169, K.170, Y.171, Q.174 Ligands: MG.4 27 PLIP interactions: 13 interactions with chain B, 14 interactions with chain A Hydrophobic interactions: B:A.115, B:I.118, B:I.118, B:F.122 Hydrogen bonds: B:D.119, B:D.119, B:T.127, B:T.127, B:K.170, B:Y.171, B:Q.174, A:S.102, A:S.102, A:S.103, A:R.106, A:Q.148 Salt bridges: B:K.170, B:K.170, A:K.101, A:K.101 Water bridges: A:Q.28, A:S.31, A:D.33, A:K.101, A:K.101, A:K.101, A:K.101 TTP.8: 21 residues within 4Å: Chain B: K.101, S.102, S.103, R.106, Q.148 Chain C: S.113, A.115, G.116, F.117, I.118, D.119, F.122, I.126, T.127, Y.162, G.168, S.169, K.170, Y.171, Q.174 Ligands: MG.7 30 PLIP interactions: 16 interactions with chain C, 14 interactions with chain B Hydrophobic interactions: C:A.115, C:I.118, C:I.118, C:F.122 Hydrogen bonds: C:D.119, C:D.119, C:D.119, C:T.127, C:T.127, C:Y.162, C:K.170, C:Y.171, C:Q.174, B:S.102, B:S.102, B:S.103, B:R.106, B:Q.148 Water bridges: C:E.129, B:Q.28, B:S.31, B:D.33, B:K.101, B:K.101, B:K.101, B:K.101 Salt bridges: C:K.170, C:K.170, B:K.101, B:K.101

3 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.3: 6 residues within 4Å: Chain A: R.47, Y.48, T.49, H.50, K.55, Q.57 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.49, A:Q.57 1PE.6: 6 residues within 4Å: Chain B: R.47, Y.48, T.49, H.50, K.55, Q.57 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.49, B:Q.57 1PE.9: 6 residues within 4Å: Chain C: R.47, Y.48, T.49, H.50, K.55, Q.57 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.49, C:Q.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Helt, S.S. et al., Mechanism of dTTP inhibition of the bifunctional dCTP deaminase:dUTPase encoded by Mycobacterium tuberculosis. J.Mol.Biol. (2008)

Release Date

2008-02-19

Peptides

Deoxycytidine triphosphate deaminase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Deoxycytidine triphosphate deaminase

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