SMTL ID : 4yb7.1 (1 other biounit)

Adenosine triphosphate phosphoribosyltransferase from Campylobacter jejuni in complex with ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-hexamer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: R.55, D.56, D.57 Ligands: ATP.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.56, A:D.57, H2O.2 MG.4: 4 residues within 4Å: Chain B: R.55, D.56, D.57 Ligands: ATP.7 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.56, B:D.57, H2O.4, H2O.4 MG.8: 3 residues within 4Å: Chain C: D.56, D.57 Ligands: ATP.9 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.56, C:D.57 MG.10: 4 residues within 4Å: Chain D: R.55, D.56, D.57 Ligands: ATP.12 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.56, D:D.57 MG.13: 3 residues within 4Å: Chain E: D.56, D.57 Ligands: ATP.15 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:D.56, E:D.57 MG.16: 3 residues within 4Å: Chain F: D.56, D.57 Ligands: ATP.17 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:D.56, F:D.57

5 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 6 residues within 4Å: Chain A: V.172, S.173, S.174, G.175, A.176, T.177 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.173, A:S.174, A:G.175, A:G.175, A:A.176, A:T.177, A:T.177 PO4.5: 8 residues within 4Å: Chain B: V.172, S.173, S.174, G.175, A.176, T.177 Ligands: PO4.6, ATP.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.173, B:S.174, B:G.175, B:T.177 PO4.6: 5 residues within 4Å: Chain B: R.17, S.173, S.174 Ligands: PO4.5, ATP.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.17, B:S.173 PO4.11: 6 residues within 4Å: Chain D: V.172, S.173, S.174, A.176, T.177 Ligands: ATP.12 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.173, D:S.174, D:S.174, D:A.176, D:T.177, D:T.177 PO4.14: 8 residues within 4Å: Chain E: L.171, V.172, S.173, S.174, G.175, A.176, T.177 Ligands: ATP.15 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:L.171, E:S.173, E:S.174, E:S.174, E:G.175, E:T.177

6 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.3: 17 residues within 4Å: Chain A: Q.13, S.15, G.16, R.17, L.18, R.55, D.56, D.57, G.74, N.76, V.77, G.103, Y.104, C.105, Y.132, S.173 Ligands: MG.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.13, A:R.17, A:D.56, A:D.56, A:D.56, A:N.76, A:N.76 Water bridges: A:G.74 Salt bridges: A:R.17, A:R.55 ATP.7: 19 residues within 4Å: Chain B: Q.13, S.15, G.16, R.17, L.18, R.55, D.56, D.57, G.74, N.76, V.77, Y.104, C.105, Y.132, L.171, S.173 Ligands: MG.4, PO4.5, PO4.6 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.13, B:R.17, B:D.56, B:D.56, B:D.56, B:N.76, B:N.76, B:S.173 Water bridges: B:G.74 Salt bridges: B:R.17, B:R.55 pi-Cation interactions: B:R.17 ATP.9: 18 residues within 4Å: Chain C: Q.13, S.15, G.16, R.17, L.18, R.55, D.56, D.57, G.74, N.76, V.77, G.103, Y.104, C.105, Y.132, L.171, S.173 Ligands: MG.8 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:Q.13, C:R.17, C:R.17, C:D.56, C:D.56, C:N.76, C:N.76, C:Y.132 Water bridges: C:D.56, C:G.74 Salt bridges: C:R.55 ATP.12: 19 residues within 4Å: Chain D: Q.13, S.15, G.16, R.17, L.18, R.55, D.56, D.57, G.74, N.76, V.77, G.103, Y.104, C.105, Y.132, L.171, S.173 Ligands: MG.10, PO4.11 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:Q.13, D:R.17, D:D.56, D:D.56, D:D.56, D:N.76, D:N.76 Water bridges: D:G.74, D:E.75 Salt bridges: D:R.17, D:R.55 pi-Cation interactions: D:R.17 ATP.15: 17 residues within 4Å: Chain E: Q.13, G.16, R.17, L.18, R.55, D.56, D.57, G.74, N.76, V.77, G.103, Y.104, C.105, L.171, S.173 Ligands: MG.13, PO4.14 13 PLIP interactions: 13 interactions with chain E Hydrogen bonds: E:Q.13, E:R.17, E:D.56, E:D.56, E:D.56, E:N.76, E:N.76, E:Y.132, E:S.173 Water bridges: E:S.15, E:V.54, E:G.74 Salt bridges: E:R.55 ATP.17: 17 residues within 4Å: Chain F: Q.13, G.16, R.17, L.18, R.55, D.56, D.57, G.74, N.76, V.77, G.103, Y.104, C.105, Y.132, L.171, S.173 Ligands: MG.16 11 PLIP interactions: 11 interactions with chain F Hydrogen bonds: F:Q.13, F:R.17, F:D.56, F:D.56, F:D.56, F:N.76, F:N.76, F:Y.132 Water bridges: F:G.74, F:E.75 Salt bridges: F:R.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mittelstadt, G. et al., Campylobacter jejuni adenosine triphosphate phosphoribosyltransferase is an active hexamer that is allosterically controlled by the twisting of a regulatory tail. Protein Sci. (2016)

Release Date

2016-03-09

Peptides

ATP phosphoribosyltransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
E

E
I

F
K

ATP phosphoribosyltransferase

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