SMTL ID : 1vst.1

Symmetric Sulfolobus solfataricus uracil phosphoribosyltransferase with bound PRPP and GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-tetramer

Ligands

4 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 13 residues within 4Å: Chain A: K.30, R.34, R.37 Chain B: R.37, K.91, P.94 Chain D: I.26, N.27, K.30, R.34 Ligands: MG.2, GTP.10, MG.11 13 PLIP interactions: 4 interactions with chain D, 4 interactions with chain A, 5 interactions with chain B Hydrogen bonds: D:N.27, D:N.27, D:R.34, A:R.37, B:K.91 Salt bridges: D:K.30, A:K.30, A:K.30, A:R.34, B:R.37, B:R.37, B:K.91, B:K.91 GTP.4: 13 residues within 4Å: Chain A: R.37, K.91, P.94 Chain B: K.30, R.34, R.37 Chain C: I.26, N.27, K.30, R.34 Ligands: MG.5, GTP.7, MG.8 13 PLIP interactions: 4 interactions with chain B, 4 interactions with chain C, 5 interactions with chain A Hydrogen bonds: B:R.37, C:N.27, C:N.27, C:R.34, A:K.91 Salt bridges: B:K.30, B:K.30, B:R.34, C:K.30, A:R.37, A:R.37, A:K.91, A:K.91 GTP.7: 13 residues within 4Å: Chain B: I.26, N.27, K.30, R.34 Chain C: K.30, R.34, R.37 Chain D: R.37, K.91, P.94 Ligands: GTP.4, MG.5, MG.8 13 PLIP interactions: 4 interactions with chain C, 4 interactions with chain B, 5 interactions with chain D Hydrogen bonds: C:R.37, B:N.27, B:N.27, B:R.34, D:K.91 Salt bridges: C:K.30, C:K.30, C:R.34, B:K.30, D:R.37, D:R.37, D:K.91, D:K.91 GTP.10: 13 residues within 4Å: Chain A: I.26, N.27, K.30, R.34 Chain C: R.37, K.91, P.94 Chain D: K.30, R.34, R.37 Ligands: GTP.1, MG.2, MG.11 13 PLIP interactions: 4 interactions with chain D, 5 interactions with chain C, 4 interactions with chain A Hydrogen bonds: D:R.37, C:K.91, A:N.27, A:N.27, A:R.34 Salt bridges: D:K.30, D:K.30, D:R.34, C:R.37, C:R.37, C:K.91, C:K.91, A:K.30

4 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 3 residues within 4Å: Ligands: GTP.1, GTP.10, MG.11 No protein-ligand interaction detected (PLIP) MG.5: 3 residues within 4Å: Ligands: GTP.4, GTP.7, MG.8 No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Ligands: GTP.4, MG.5, GTP.7 No protein-ligand interaction detected (PLIP) MG.11: 3 residues within 4Å: Ligands: GTP.1, MG.2, GTP.10 No protein-ligand interaction detected (PLIP)

4 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)

PRP.3: 16 residues within 4Å: Chain A: L.79, R.80, A.81, R.105, M.117, D.140, M.142, I.143, A.144, T.145, A.146, S.147, T.148, D.209, G.211 Chain C: K.125 16 PLIP interactions: 14 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:R.80, A:A.81, A:D.140, A:A.144, A:T.145, A:A.146, A:S.147, A:T.148, A:T.148, A:G.211 Salt bridges: A:R.80, A:R.105, A:R.105, A:R.105, C:K.125, C:K.125 PRP.6: 16 residues within 4Å: Chain B: L.79, R.80, A.81, R.105, M.117, D.140, M.142, I.143, A.144, T.145, A.146, S.147, T.148, D.209, G.211 Chain D: K.125 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:R.80, B:A.81, B:D.140, B:A.144, B:T.145, B:A.146, B:S.147, B:T.148, B:T.148, B:G.211 Salt bridges: B:R.80, B:R.105, B:R.105, B:R.105, D:K.125, D:K.125 PRP.9: 16 residues within 4Å: Chain A: K.125 Chain C: L.79, R.80, A.81, R.105, M.117, D.140, M.142, I.143, A.144, T.145, A.146, S.147, T.148, D.209, G.211 16 PLIP interactions: 14 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:R.80, C:A.81, C:D.140, C:A.144, C:T.145, C:A.146, C:S.147, C:T.148, C:T.148, C:G.211 Salt bridges: C:R.80, C:R.105, C:R.105, C:R.105, A:K.125, A:K.125 PRP.12: 16 residues within 4Å: Chain B: K.125 Chain D: L.79, R.80, A.81, R.105, M.117, D.140, M.142, I.143, A.144, T.145, A.146, S.147, T.148, D.209, G.211 16 PLIP interactions: 2 interactions with chain B, 14 interactions with chain D Salt bridges: B:K.125, B:K.125, D:R.80, D:R.105, D:R.105, D:R.105 Hydrogen bonds: D:R.80, D:A.81, D:D.140, D:A.144, D:T.145, D:A.146, D:S.147, D:T.148, D:T.148, D:G.211

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Christoffersen, S. et al., Structural and kinetic studies of the allosteric transition in Sulfolobus solfataricus uracil phosphoribosyltransferase: Permanent activation by engineering of the C-terminus. J.Mol.Biol. (2009)

Release Date

2009-09-01

Peptides

Uracil phosphoribosyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Uracil phosphoribosyltransferase

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