SMTL ID : 1sm8.1

M. tuberculosis dUTPase complexed with chromium and dUTP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-trimer

Ligands

3 x CR: CHROMIUM ION(Non-functional Binders)

CR.1: 1 residues within 4Å: Ligands: DUT.4 No protein-ligand interaction detected (PLIP) CR.3: 1 residues within 4Å: Ligands: DUT.8 No protein-ligand interaction detected (PLIP) CR.6: 1 residues within 4Å: Ligands: DUT.7 No protein-ligand interaction detected (PLIP)

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.2: 3 residues within 4Å: Chain A: F.150, D.151 Chain C: R.107 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:R.107, C:R.107, A:D.151

3 x DUT: DEOXYURIDINE-5'-TRIPHOSPHATE(Non-covalent)

DUT.4: 15 residues within 4Å: Chain A: R.84, S.85, G.86, Q.133 Chain B: V.81, N.97, G.100, T.101, I.102, D.103, Y.106, E.109, I.110, K.111 Ligands: CR.1 11 PLIP interactions: 6 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:Y.106 Hydrogen bonds: B:N.97, B:D.103, B:D.103, B:K.111, B:K.111, A:S.85, A:S.85, A:G.86, A:Q.133 Salt bridges: A:R.84 DUT.7: 14 residues within 4Å: Chain A: N.97, G.100, T.101, I.102, D.103, Y.106, E.109, I.110, K.111 Chain C: R.84, S.85, G.86, Q.133 Ligands: CR.6 13 PLIP interactions: 6 interactions with chain C, 7 interactions with chain A Hydrogen bonds: C:S.85, C:S.85, C:G.86, C:Q.133, A:N.97, A:D.103, A:D.103, A:Y.106, A:K.111, A:K.111 Salt bridges: C:R.84, C:R.84 Hydrophobic interactions: A:Y.106 DUT.8: 16 residues within 4Å: Chain B: D.48, R.84, S.85, G.86, Q.133 Chain C: V.81, N.97, G.100, T.101, I.102, D.103, Y.106, E.109, I.110, K.111 Ligands: CR.3 15 PLIP interactions: 7 interactions with chain B, 8 interactions with chain C Hydrogen bonds: B:S.85, B:S.85, B:S.85, B:G.86, B:Q.133, C:N.97, C:T.101, C:D.103, C:D.103, C:K.111, C:K.111 Salt bridges: B:R.84, B:R.84 Hydrophobic interactions: C:I.102, C:Y.106

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.5: 10 residues within 4Å: Chain A: S.94, I.95, L.117 Chain B: S.94, I.95, V.96, L.117 Chain C: S.94, I.95, V.96 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Hydrogen bonds: B:S.94, B:I.95, C:S.94, C:S.94, A:S.94, A:I.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chan, S. et al., Crystal structure of the Mycobacterium tuberculosis dUTPase: insights into the catalytic mechanism. J.Mol.Biol. (2004)

Release Date

2004-03-16

Peptides

Deoxyuridine 5'-triphosphate nucleotidohydrolase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Deoxyuridine 5'-triphosphate nucleotidohydrolase

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