SMTL ID : 2c4u.1

Crystal structure of the apo form of the 5'-Fluoro-5'-deoxyadenosine synthase enzyme from Streptomyces cattleya

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-hexamer

Ligands

11 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: W.50, Y.77, P.78 Chain B: F.213, F.254, A.279 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.77, A:P.78, B:A.279 GOL.2: 6 residues within 4Å: Chain A: T.19, K.28, D.42, H.45 Chain B: D.42, V.43 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:T.19, A:K.28, A:K.28, B:D.42, B:D.42 Water bridges: B:D.42 GOL.3: 9 residues within 4Å: Chain A: F.213, N.215, F.254, R.277, N.278, A.279 Chain C: W.50, Y.77, P.78 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:N.215, A:A.279 Water bridges: C:W.50, C:Y.77 GOL.4: 7 residues within 4Å: Chain B: T.19, V.24, K.28, D.42, H.45 Chain C: D.42, V.43 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:D.42, C:D.42, B:K.28, B:K.28 Water bridges: B:D.42, B:D.42 GOL.5: 6 residues within 4Å: Chain A: D.42, V.43 Chain C: T.19, V.24, K.28, D.42 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:K.28, A:D.42 Water bridges: C:T.19, C:D.42 GOL.6: 8 residues within 4Å: Chain B: W.50, Y.77, P.78 Chain C: F.213, N.215, F.254, R.277, A.279 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.215, C:R.277, C:A.279, B:Y.77 GOL.7: 6 residues within 4Å: Chain D: T.19, K.28, D.42 Chain E: D.42, V.43 Ligands: GOL.10 5 PLIP interactions: 1 interactions with chain F, 2 interactions with chain E, 2 interactions with chain D Water bridges: F:D.42, D:K.28, D:D.42 Hydrogen bonds: E:D.42, E:D.42 GOL.8: 8 residues within 4Å: Chain D: D.16, Y.77, T.80, T.155, F.156, Y.157, S.158 Chain E: F.213 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:D.16, D:Y.77, D:F.156, D:S.158, D:S.158 GOL.9: 6 residues within 4Å: Chain E: T.19, K.28, D.42 Chain F: D.42, V.43 Ligands: GOL.10 5 PLIP interactions: 2 interactions with chain F, 3 interactions with chain E Water bridges: F:D.42, F:D.42, E:T.19 Hydrogen bonds: E:K.28, E:K.28 GOL.10: 8 residues within 4Å: Chain D: D.42, V.43 Chain F: T.19, V.24, K.28, D.42 Ligands: GOL.7, GOL.9 4 PLIP interactions: 1 interactions with chain F, 3 interactions with chain D Water bridges: F:K.28, D:D.42, D:D.42 Hydrogen bonds: D:D.42 GOL.11: 8 residues within 4Å: Chain E: W.50, P.78 Chain F: F.213, N.215, F.254, R.277, A.279, A.280 5 PLIP interactions: 4 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:N.215, F:R.277, F:A.279, E:P.78 Water bridges: F:R.277

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cobb, S.L. et al., Substrate specificity in enzymatic fluorination. The fluorinase from Streptomyces cattleya accepts 2'-deoxyadenosine substrates. Org. Biomol. Chem. (2006)

Release Date

2006-04-12

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

5'-FLUORO-5'-DEOXYADENOSINE SYNTHASE

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