SMTL ID : 1ecb.3 (3 other biounits)

ESCHERICHIA COLI GLUTAMINE PHOSPHORIBOSYLPYROPHOSPHATE (PRPP) AMIDOTRANSFERASE COMPLEXED WITH 2 GMP, 1 MG PER SUBUNIT

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.366, D.367 Ligands: 5GP.2, 5GP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.366, A:D.367, H2O.1, H2O.1 MG.4: 4 residues within 4Å: Chain B: D.366, D.367 Ligands: 5GP.5, 5GP.6 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.366, B:D.367, H2O.1, H2O.1 MG.7: 3 residues within 4Å: Chain C: D.366, D.367 Ligands: 5GP.8 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.366, C:D.367, H2O.1, H2O.1 MG.10: 3 residues within 4Å: Chain D: D.366, D.367 Ligands: 5GP.11 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.366, D:D.367, D:D.367, H2O.2, H2O.2

8 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.2: 16 residues within 4Å: Chain A: Y.74, F.254, Y.258, D.366, D.367, S.368, I.369, V.370, R.371, G.372, T.373, T.374, S.375, M.409 Ligands: MG.1, 5GP.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Y.258, A:S.368, A:V.370, A:R.371, A:R.371, A:G.372, A:T.373, A:T.374, A:T.374 Water bridges: A:D.367 pi-Stacking: A:Y.258 pi-Cation interactions: A:Y.258 5GP.3: 17 residues within 4Å: Chain A: H.25, Y.258, A.260, R.261, P.262, R.275, P.302, E.303, T.304, K.326, D.367 Chain B: V.325, K.326, N.327, R.328 Ligands: MG.1, 5GP.2 16 PLIP interactions: 10 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:A.260, A:R.261, A:R.275, A:P.302, A:E.303, A:T.304, A:T.304, B:K.326, B:K.326, B:R.328, B:R.328, B:R.328 Water bridges: A:D.367 Salt bridges: A:E.303, A:K.326 pi-Cation interactions: B:R.328 5GP.5: 15 residues within 4Å: Chain B: Y.74, F.254, Y.258, D.366, D.367, S.368, I.369, V.370, R.371, G.372, T.373, T.374, S.375 Ligands: MG.4, 5GP.6 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:Y.258, B:S.368, B:S.368, B:S.368, B:V.370, B:R.371, B:G.372, B:T.373, B:T.374, B:T.374 Water bridges: B:T.304, B:D.367 pi-Stacking: B:Y.258 pi-Cation interactions: B:Y.258 5GP.6: 16 residues within 4Å: Chain A: V.325, K.326, N.327, R.328 Chain B: H.25, Y.258, A.260, R.261, P.262, R.275, P.302, E.303, T.304, K.326 Ligands: MG.4, 5GP.5 15 PLIP interactions: 10 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:Y.258, B:R.261, B:R.275, B:P.302, B:E.303, B:T.304, B:T.304, B:T.304, A:K.326, A:K.326, A:R.328, A:R.328 Salt bridges: B:E.303, B:K.326 pi-Cation interactions: A:R.328 5GP.8: 14 residues within 4Å: Chain C: Y.74, F.254, Y.258, D.366, D.367, S.368, V.370, R.371, G.372, T.373, T.374, S.375 Ligands: MG.7, 5GP.9 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:Y.74, C:S.368, C:S.368, C:S.368, C:V.370, C:R.371, C:G.372, C:T.374, C:T.374 Water bridges: C:T.304, C:T.304 pi-Stacking: C:Y.258 5GP.9: 16 residues within 4Å: Chain C: H.25, Y.258, A.260, R.261, P.262, R.275, P.302, E.303, T.304, K.326, D.367 Chain D: V.325, K.326, N.327, R.328 Ligands: 5GP.8 20 PLIP interactions: 12 interactions with chain C, 8 interactions with chain D Hydrogen bonds: C:Y.258, C:Y.258, C:R.261, C:R.275, C:P.302, C:E.303, C:E.303, C:T.304, C:T.304, C:T.304, D:K.326, D:K.326, D:K.326, D:R.328, D:R.328, D:R.328 Salt bridges: C:E.303, C:K.326 Water bridges: D:Y.329 pi-Cation interactions: D:R.328 5GP.11: 15 residues within 4Å: Chain D: Y.74, F.254, Y.258, D.366, D.367, S.368, I.369, V.370, R.371, G.372, T.373, T.374, S.375 Ligands: MG.10, 5GP.12 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:Y.74, D:S.368, D:V.370, D:R.371, D:G.372, D:T.374, D:T.374 pi-Stacking: D:Y.258 pi-Cation interactions: D:Y.258 5GP.12: 16 residues within 4Å: Chain C: V.325, K.326, N.327, R.328 Chain D: H.25, Y.258, A.260, R.261, P.262, R.275, P.302, E.303, T.304, K.326, D.367 Ligands: 5GP.11 20 PLIP interactions: 12 interactions with chain D, 8 interactions with chain C Hydrogen bonds: D:Y.258, D:A.260, D:R.261, D:R.275, D:R.275, D:P.302, D:E.303, D:E.303, D:T.304, D:T.304, C:K.326, C:K.326, C:K.326, C:R.328, C:R.328, C:R.328 Salt bridges: D:E.303, D:K.326 Water bridges: C:Y.329 pi-Cation interactions: C:R.328

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krahn, J.M. et al., Coupled formation of an amidotransferase interdomain ammonia channel and a phosphoribosyltransferase active site. Biochemistry (1997)

Release Date

1998-04-15

Peptides

GLUTAMINE PHOSPHORIBOSYLPYROPHOSPHATE AMIDOTRANSFERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

GLUTAMINE PHOSPHORIBOSYLPYROPHOSPHATE AMIDOTRANSFERASE

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