SMTL ID : 1f7r.1

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.64, V.65 Chain B: D.64 Chain C: D.64 Ligands: MG.3, MG.5 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:D.64, B:D.64, A:D.64 MG.3: 6 residues within 4Å: Chain A: D.64 Chain B: D.64, V.65 Chain C: D.64 Ligands: MG.1, MG.5 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Metal complexes: C:D.64, C:D.64, B:D.64 MG.5: 6 residues within 4Å: Chain A: D.64 Chain B: D.64 Chain C: D.64, V.65 Ligands: MG.1, MG.3 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Metal complexes: C:D.64, A:D.64, A:D.64

3 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.2: 19 residues within 4Å: Chain A: L.66, G.68, V.69, I.70, D.71, Y.74, E.77, I.78, G.79, I.81 Chain B: K.55, S.56, S.57, Q.100 Chain C: R.122, G.126, Y.127, G.128, S.129 20 PLIP interactions: 8 interactions with chain B, 6 interactions with chain A, 6 interactions with chain C Hydrogen bonds: B:S.56, B:S.56, B:S.56, B:S.57, B:Q.100, A:G.68, A:D.71, A:D.71, A:G.79, A:G.79, C:Y.127, C:G.128, C:S.129, C:S.129 Water bridges: B:K.55, C:T.130 Salt bridges: B:K.55, B:K.55, C:R.122 Hydrophobic interactions: A:Y.74 UDP.4: 19 residues within 4Å: Chain A: R.122, G.126, Y.127, G.128, S.129 Chain B: L.66, G.68, V.69, I.70, D.71, Y.74, E.77, I.78, G.79, I.81 Chain C: K.55, S.56, S.57, Q.100 19 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B, 8 interactions with chain C Hydrogen bonds: A:Y.127, A:G.128, A:S.129, A:S.129, B:G.68, B:D.71, B:G.79, B:G.79, C:S.56, C:S.56, C:S.56, C:S.57, C:Q.100 Water bridges: A:T.130, C:K.55 Salt bridges: A:R.122, C:K.55, C:K.55 Hydrophobic interactions: B:Y.74 UDP.6: 19 residues within 4Å: Chain A: K.55, S.56, S.57, Q.100 Chain B: R.122, G.126, Y.127, G.128, S.129 Chain C: L.66, G.68, V.69, I.70, D.71, Y.74, E.77, I.78, G.79, I.81 20 PLIP interactions: 6 interactions with chain C, 6 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: C:Y.74 Hydrogen bonds: C:G.68, C:D.71, C:D.71, C:G.79, C:G.79, B:Y.127, B:G.128, B:S.129, B:S.129, A:S.56, A:S.56, A:S.56, A:S.57, A:Q.100 Water bridges: B:T.130, A:K.55 Salt bridges: B:R.122, A:K.55, A:K.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prasad, G.S. et al., Structures of feline immunodeficiency virus dUTP pyrophosphatase and its nucleotide complexes in three crystal forms. Acta Crystallogr.,Sect.D (2000)

Release Date

2000-09-06

Peptides

POL POLYPROTEIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

POL POLYPROTEIN

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