SMTL ID : 1q1k.1

Structure of ATP-phosphoribosyltransferase from E. coli complexed with PR-ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-hexamer

Ligands

6 x PRT: PHOSPHORIBOSYL ATP(Non-covalent)

PRT.1: 18 residues within 4Å: Chain A: R.16, R.54, D.55, D.56, N.75, V.76, C.104, Y.131, E.156, D.169, L.170, V.171, S.172, T.173, G.174, A.175, T.176 Chain E: R.54 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain E Hydrogen bonds: A:R.16, A:D.55, A:D.56, A:D.56, A:N.75, A:Y.131, A:L.170, A:S.172, A:S.172, A:T.173, A:G.174, A:A.175, A:T.176, A:T.176, A:T.176, E:R.54, E:R.54 Salt bridges: A:R.54 pi-Cation interactions: A:R.16 PRT.4: 18 residues within 4Å: Chain B: R.16, R.54, D.55, D.56, N.75, V.76, C.104, Y.131, E.156, D.169, L.170, V.171, S.172, T.173, G.174, A.175, T.176 Chain D: R.54 19 PLIP interactions: 17 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:R.16, B:D.55, B:D.56, B:D.56, B:N.75, B:Y.131, B:L.170, B:S.172, B:S.172, B:T.173, B:G.174, B:A.175, B:T.176, B:T.176, B:T.176, D:R.54, D:R.54 Salt bridges: B:R.54 pi-Cation interactions: B:R.16 PRT.7: 18 residues within 4Å: Chain C: R.16, R.54, D.55, D.56, N.75, V.76, C.104, Y.131, E.156, D.169, L.170, V.171, S.172, T.173, G.174, A.175, T.176 Chain F: R.54 19 PLIP interactions: 17 interactions with chain C, 2 interactions with chain F Hydrogen bonds: C:R.16, C:D.55, C:D.56, C:D.56, C:N.75, C:Y.131, C:L.170, C:S.172, C:S.172, C:T.173, C:G.174, C:A.175, C:T.176, C:T.176, C:T.176, F:R.54, F:R.54 Salt bridges: C:R.54 pi-Cation interactions: C:R.16 PRT.10: 18 residues within 4Å: Chain B: R.54 Chain D: R.16, R.54, D.55, D.56, N.75, V.76, C.104, Y.131, E.156, D.169, L.170, V.171, S.172, T.173, G.174, A.175, T.176 18 PLIP interactions: 16 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:R.16, D:D.56, D:D.56, D:N.75, D:Y.131, D:L.170, D:S.172, D:S.172, D:T.173, D:G.174, D:A.175, D:T.176, D:T.176, D:T.176, B:R.54, B:R.54 Salt bridges: D:R.54 pi-Cation interactions: D:R.16 PRT.13: 18 residues within 4Å: Chain A: R.54 Chain E: R.16, R.54, D.55, D.56, N.75, V.76, C.104, Y.131, E.156, D.169, L.170, V.171, S.172, T.173, G.174, A.175, T.176 18 PLIP interactions: 16 interactions with chain E, 2 interactions with chain A Hydrogen bonds: E:R.16, E:D.56, E:D.56, E:N.75, E:Y.131, E:L.170, E:S.172, E:S.172, E:T.173, E:G.174, E:A.175, E:T.176, E:T.176, E:T.176, A:R.54, A:R.54 Salt bridges: E:R.54 pi-Cation interactions: E:R.16 PRT.16: 18 residues within 4Å: Chain C: R.54 Chain F: R.16, R.54, D.55, D.56, N.75, V.76, C.104, Y.131, E.156, D.169, L.170, V.171, S.172, T.173, G.174, A.175, T.176 18 PLIP interactions: 16 interactions with chain F, 2 interactions with chain C Hydrogen bonds: F:R.16, F:D.56, F:D.56, F:N.75, F:Y.131, F:L.170, F:S.172, F:S.172, F:T.173, F:G.174, F:A.175, F:T.176, F:T.176, F:T.176, C:R.54, C:R.54 Salt bridges: F:R.54 pi-Cation interactions: F:R.16

12 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.2: 8 residues within 4Å: Chain A: A.26, R.27, C.28, G.29, K.296 Chain B: L.273, F.274, W.275 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:A.26, B:L.273, B:W.275 Salt bridges: A:R.27, A:K.296, A:K.296 TLA.3: 4 residues within 4Å: Chain A: R.85, P.91, Y.93, T.95 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.85, A:Y.93, A:Y.93, A:Y.93, A:T.95, A:T.95 TLA.5: 8 residues within 4Å: Chain B: A.26, R.27, C.28, G.29, K.296 Chain C: L.273, F.274, W.275 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:A.26, C:L.273, C:W.275 Salt bridges: B:R.27, B:K.296, B:K.296 TLA.6: 4 residues within 4Å: Chain B: R.85, P.91, Y.93, T.95 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.85, B:Y.93, B:Y.93, B:Y.93, B:T.95, B:T.95 TLA.8: 8 residues within 4Å: Chain A: L.273, F.274, W.275 Chain C: A.26, R.27, C.28, G.29, K.296 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:A.26, A:L.273, A:W.275 Salt bridges: C:R.27, C:K.296, C:K.296 TLA.9: 4 residues within 4Å: Chain C: R.85, P.91, Y.93, T.95 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:R.85, C:Y.93, C:Y.93, C:Y.93, C:T.95, C:T.95 TLA.11: 8 residues within 4Å: Chain D: A.26, R.27, C.28, G.29, K.296 Chain E: L.273, F.274, W.275 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:A.26, E:L.273, E:W.275 Salt bridges: D:R.27, D:K.296, D:K.296 TLA.12: 4 residues within 4Å: Chain D: R.85, P.91, Y.93, T.95 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.85, D:Y.93, D:Y.93, D:Y.93, D:T.95, D:T.95 TLA.14: 8 residues within 4Å: Chain E: A.26, R.27, C.28, G.29, K.296 Chain F: L.273, F.274, W.275 6 PLIP interactions: 2 interactions with chain F, 4 interactions with chain E Hydrogen bonds: F:L.273, F:W.275, E:A.26 Salt bridges: E:R.27, E:K.296, E:K.296 TLA.15: 4 residues within 4Å: Chain E: R.85, P.91, Y.93, T.95 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:R.85, E:Y.93, E:Y.93, E:Y.93, E:T.95, E:T.95 TLA.17: 8 residues within 4Å: Chain D: L.273, F.274, W.275 Chain F: A.26, R.27, C.28, G.29, K.296 6 PLIP interactions: 4 interactions with chain F, 2 interactions with chain D Hydrogen bonds: F:A.26, D:L.273, D:W.275 Salt bridges: F:R.27, F:K.296, F:K.296 TLA.18: 4 residues within 4Å: Chain F: R.85, P.91, Y.93, T.95 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:R.85, F:Y.93, F:Y.93, F:Y.93, F:T.95, F:T.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lohkamp, B. et al., The structure of Escherichia coli ATP-phosphoribosyltransferase: identification of substrate binding sites and mode of AMP inhibition. J.Mol.Biol. (2004)

Release Date

2004-03-02

Peptides

ATP phosphoribosyltransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

ATP phosphoribosyltransferase

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