SMTL ID : 1t8s.1

Crystal Structure of E.coli AMP Nucleosidase complexed with formicin 5'-monophosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x FMP: FORMYCIN-5'-MONOPHOSPHATE(Non-covalent)

FMP.1: 18 residues within 4Å: Chain A: N.205, V.280, H.305, C.306, G.307, R.381, W.383, E.384, I.402, D.403, M.404, E.405, S.427, D.428, P.430, K.436 Chain B: H.188, Y.189 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.205, A:R.381, A:E.405, A:S.427, A:D.428, A:D.428 Salt bridges: A:R.381, A:K.436, B:H.188 pi-Cation interactions: A:R.381 FMP.2: 18 residues within 4Å: Chain A: H.188, Y.189 Chain B: N.205, V.280, H.305, C.306, G.307, R.381, W.383, E.384, I.402, D.403, M.404, E.405, S.427, D.428, P.430, K.436 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.205, B:R.381, B:D.403, B:E.405, B:S.427, B:D.428, B:D.428, B:K.436, A:Y.189 Salt bridges: B:R.381, B:K.436, A:H.188 pi-Cation interactions: B:R.381 FMP.3: 17 residues within 4Å: Chain C: N.205, V.280, H.305, C.306, G.307, R.381, W.383, E.384, I.402, D.403, M.404, E.405, D.428, P.430, K.436 Chain D: H.188, Y.189 14 PLIP interactions: 12 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:N.205, C:R.381, C:E.405, C:E.405, C:S.427, C:D.428, C:D.428, C:K.436 Water bridges: C:R.381, D:Q.259 Salt bridges: C:R.381, C:K.436, D:H.188 pi-Cation interactions: C:R.381 FMP.4: 18 residues within 4Å: Chain C: H.188, Y.189 Chain D: N.205, V.280, H.305, C.306, G.307, R.381, W.383, E.384, I.402, D.403, M.404, E.405, S.427, D.428, P.430, K.436 15 PLIP interactions: 4 interactions with chain C, 11 interactions with chain D Hydrogen bonds: C:Y.189, D:N.205, D:R.381, D:E.405, D:S.427, D:D.428, D:D.428, D:K.436 Water bridges: C:Q.259, C:Q.259, D:R.381 Salt bridges: C:H.188, D:R.381, D:K.436 pi-Cation interactions: D:R.381 FMP.5: 18 residues within 4Å: Chain E: N.205, V.280, H.305, C.306, G.307, R.381, W.383, E.384, I.402, D.403, M.404, E.405, S.427, D.428, P.430, K.436 Chain F: H.188, Y.189 14 PLIP interactions: 11 interactions with chain E, 3 interactions with chain F Hydrogen bonds: E:N.205, E:R.381, E:D.403, E:E.405, E:S.427, E:D.428, E:D.428, E:K.436, F:Y.189 Salt bridges: E:R.381, E:K.436, F:H.188 pi-Cation interactions: E:R.381 Water bridges: F:Q.259 FMP.6: 18 residues within 4Å: Chain E: H.188, Y.189 Chain F: N.205, V.280, H.305, C.306, G.307, R.381, W.383, E.384, I.402, D.403, M.404, E.405, S.427, D.428, P.430, K.436 11 PLIP interactions: 10 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:N.205, F:R.381, F:E.405, F:S.427, F:D.428, F:D.428, F:K.436 Salt bridges: F:R.381, F:K.436, E:H.188 pi-Cation interactions: F:R.381

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Y. et al., Structure of Escherichia coli AMP Nucleosidase Reveals Similarity to Nucleoside Phosphorylases. STRUCTURE (2004)

Release Date

2004-08-17

Peptides

AMP nucleosidase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

AMP nucleosidase

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