SMTL ID : 2c4t.1

X-ray crystal structure of 5'-fluorodeoxyadenosine synthase from Streptomyces cattleya complexed with an inhibitor, an analogue of S- adenosyl methionine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-hexamer

Ligands

6 x SA8: S-5'-AZAMETHIONINE-5'-DEOXYADENOSINE(Non-covalent)

SA8.1: 23 residues within 4Å: Chain A: D.16, L.17, D.21, S.23, W.50, T.76, Y.77, P.78, T.80, T.155, F.156, S.158 Chain B: D.210, F.213, N.215, W.217, F.254, S.269, R.270, R.277, N.278, A.279, A.280 19 PLIP interactions: 11 interactions with chain B, 8 interactions with chain A Hydrogen bonds: B:D.210, B:N.215, B:S.269, B:S.269, B:R.277, B:A.279, A:D.16, A:D.21, A:S.23, A:Y.77, A:S.158, A:S.158 Water bridges: B:D.210, B:R.277 Salt bridges: B:R.270 pi-Stacking: B:F.254, B:F.254 Hydrophobic interactions: A:L.17, A:F.156 SA8.6: 23 residues within 4Å: Chain B: D.16, L.17, D.21, S.23, W.50, T.76, Y.77, P.78, T.80, T.155, F.156, S.158 Chain C: D.210, F.213, N.215, W.217, F.254, S.269, R.270, R.277, N.278, A.279, A.280 17 PLIP interactions: 10 interactions with chain C, 7 interactions with chain B Hydrogen bonds: C:D.210, C:N.215, C:S.269, C:R.277, C:A.279, B:D.16, B:D.21, B:S.23, B:Y.77, B:S.158, B:S.158 Water bridges: C:S.269, C:R.277 Salt bridges: C:R.270 pi-Stacking: C:F.254, C:F.254 Hydrophobic interactions: B:L.17 SA8.7: 24 residues within 4Å: Chain A: D.210, F.213, N.215, W.217, F.254, S.269, R.270, A.276, R.277, N.278, A.279, A.280 Chain C: D.16, L.17, D.21, S.23, W.50, T.76, Y.77, P.78, T.80, T.155, F.156, S.158 18 PLIP interactions: 11 interactions with chain A, 7 interactions with chain C Hydrogen bonds: A:D.210, A:N.215, A:S.269, A:S.269, A:R.277, A:A.279, C:D.16, C:D.21, C:S.23, C:Y.77, C:S.158, C:S.158 Water bridges: A:D.210, A:R.277 Salt bridges: A:R.270 pi-Stacking: A:F.254, A:F.254 Hydrophobic interactions: C:L.17 SA8.10: 23 residues within 4Å: Chain D: D.16, L.17, D.21, S.23, W.50, T.76, Y.77, P.78, T.80, T.155, F.156, S.158 Chain E: D.210, F.213, N.215, W.217, F.254, S.269, R.270, R.277, N.278, A.279, A.280 20 PLIP interactions: 10 interactions with chain E, 10 interactions with chain D Hydrogen bonds: E:D.210, E:N.215, E:S.269, E:S.269, E:R.277, E:A.279, D:D.16, D:D.21, D:S.23, D:T.76, D:Y.77, D:S.158, D:S.158 Water bridges: E:R.277, D:D.21 Salt bridges: E:R.270 pi-Stacking: E:F.254, E:F.254 Hydrophobic interactions: D:L.17, D:F.156 SA8.15: 23 residues within 4Å: Chain E: D.16, L.17, D.21, S.23, W.50, T.76, Y.77, P.78, T.80, T.155, F.156, S.158 Chain F: D.210, F.213, N.215, W.217, F.254, S.269, R.270, R.277, N.278, A.279, A.280 18 PLIP interactions: 10 interactions with chain F, 8 interactions with chain E Hydrogen bonds: F:D.210, F:N.215, F:S.269, F:R.277, F:A.279, E:D.16, E:D.21, E:S.23, E:T.76, E:Y.77, E:S.158, E:S.158 Water bridges: F:S.269, F:R.277 Salt bridges: F:R.270 pi-Stacking: F:F.254, F:F.254 Hydrophobic interactions: E:L.17 SA8.16: 24 residues within 4Å: Chain D: D.210, F.213, N.215, W.217, F.254, S.269, R.270, A.276, R.277, N.278, A.279, A.280 Chain F: D.16, L.17, D.21, S.23, W.50, T.76, Y.77, P.78, T.80, T.155, F.156, S.158 19 PLIP interactions: 10 interactions with chain D, 9 interactions with chain F Hydrogen bonds: D:D.210, D:N.215, D:S.269, D:S.269, D:R.277, D:A.279, F:D.16, F:D.21, F:S.23, F:T.76, F:Y.77, F:S.158, F:S.158 Water bridges: D:R.277, F:D.21 Salt bridges: D:R.270 pi-Stacking: D:F.254, D:F.254 Hydrophobic interactions: F:L.17

12 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: H.287, K.289 Ligand excluded by PLIP CL.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: W.50 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain B: H.287, K.289 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain C: T.82, R.85, Y.157 Ligand excluded by PLIP CL.9: 1 residues within 4Å: Chain C: H.287 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain D: H.287, K.289 Ligand excluded by PLIP CL.12: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.13: 1 residues within 4Å: Chain D: W.50 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain E: H.287, K.289 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain F: T.82, R.85, Y.157 Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain F: H.287 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McEwan, A.R. et al., Substrates and Inhibitors of the Fluorinase from Streptomyces Cattleya. To be Published

Release Date

2007-03-27

Peptides

5'-FLUORO-5'-DEOXYADENOSINE SYNTHASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

5'-FLUORO-5'-DEOXYADENOSINE SYNTHASE

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