SMTL ID : 2qxx.2 (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 B: Q.28 Ligands: TTP.2 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain C: Q.28 Ligands: TTP.6 No protein-ligand interaction detected (PLIP) MG.9: 2 residues within 4Å: Chain A: Q.28 Ligands: TTP.10 No protein-ligand interaction detected (PLIP)

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

TTP.2: 22 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 B: Q.28, K.101, S.102, S.103, R.106, Q.148 Ligands: MG.1 22 PLIP interactions: 13 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:A.115, A:F.122 Hydrogen bonds: A:D.119, A:D.119, A:D.119, A:T.127, A:T.127, A:Y.162, A:K.170, A:Q.174, B:S.102, B:S.102, B:S.103, B:R.106, B:Q.148 Water bridges: A:K.170, B:Q.28, B:Q.28 Salt bridges: A:K.170, A:K.170, B:K.101, B:K.101 TTP.6: 22 residues within 4Å: 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 Chain C: Q.28, K.101, S.102, S.103, R.106, Q.148 Ligands: MG.5 21 PLIP interactions: 9 interactions with chain C, 12 interactions with chain B Hydrogen bonds: C:S.102, C:S.102, C:S.103, C:R.106, C:Q.148, B:D.119, B:D.119, B:T.127, B:T.127, B:T.127, B:K.170, B:Q.174 Water bridges: C:Q.28, C:Q.28, B:K.170 Salt bridges: C:K.101, C:K.101, B:K.170, B:K.170 Hydrophobic interactions: B:A.115, B:F.122 TTP.10: 22 residues within 4Å: Chain A: Q.28, 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.9 24 PLIP interactions: 9 interactions with chain A, 15 interactions with chain C Hydrogen bonds: A:S.102, A:S.102, A:S.103, A:R.106, A:Q.148, C:D.119, C:D.119, C:D.119, C:T.127, C:T.127, C:T.127, C:Y.162, C:K.170, C:Q.174 Water bridges: A:Q.28, A:Q.28, C:E.129, C:K.170 Salt bridges: A:K.101, A:K.101, C:K.170, C:K.170 Hydrophobic interactions: C:A.115, C:F.122

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

1PE.3: 4 residues within 4Å: Chain A: G.15, R.16, G.18, T.89 No protein-ligand interaction detected (PLIP) 1PE.4: 5 residues within 4Å: Chain A: R.47, Y.48, T.49, H.50, Q.57 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.49 1PE.7: 4 residues within 4Å: Chain B: G.15, R.16, G.18, T.89 No protein-ligand interaction detected (PLIP) 1PE.8: 5 residues within 4Å: Chain B: R.47, Y.48, T.49, H.50, Q.57 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.49 1PE.11: 4 residues within 4Å: Chain C: G.15, R.16, G.18, T.89 No protein-ligand interaction detected (PLIP) 1PE.12: 5 residues within 4Å: Chain C: R.47, Y.48, T.49, H.50, Q.57 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.49

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
B

B
B

C
B

Deoxycytidine triphosphate deaminase

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