SMTL ID : 3uyl.1

Spinosyn Rhamnosyltransferase SpnG complexed with thymidine diphosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x TYD: THYMIDINE-5'-DIPHOSPHATE(Non-covalent)

TYD.1: 21 residues within 4Å: Chain A: T.13, M.16, Y.202, N.203, M.225, G.226, R.227, M.228, V.229, A.256, V.257, P.258, A.275, S.277, V.278, P.279, L.280, G.295, S.296, G.297, T.298 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:N.203, A:L.280 Hydrogen bonds: A:Y.202, A:N.203, A:G.226, A:R.227, A:M.228, A:V.229, A:V.278, A:V.278, A:L.280, A:G.295, A:G.297, A:T.298, A:T.298 Water bridges: A:G.294 TYD.3: 21 residues within 4Å: Chain B: T.13, M.16, Y.202, N.203, M.225, G.226, R.227, M.228, V.229, A.256, V.257, P.258, A.275, S.277, V.278, P.279, L.280, G.295, S.296, G.297, T.298 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.280 Hydrogen bonds: B:T.13, B:N.203, B:R.227, B:M.228, B:V.229, B:V.278, B:V.278, B:L.280, B:G.295, B:G.297, B:T.298 Water bridges: B:T.13, B:S.296, B:S.296, B:A.299

2 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.5: 1 residues within 4Å: Chain B: A.243 No protein-ligand interaction detected (PLIP)

1 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.4: 6 residues within 4Å: Chain B: G.77, Q.78, R.79, D.80, S.189, D.320 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:R.79, B:R.79, B:D.80, B:D.80, B:D.80, B:S.189, B:S.189, B:D.320 Water bridges: B:R.79, B:R.79, B:R.79 Salt bridges: B:R.79, B:R.323

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Isiorho, E.A. et al., Structural Studies of the Spinosyn Rhamnosyltransferase, SpnG. Biochemistry (2012)

Release Date

2012-02-15

Peptides

NDP-rhamnosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NDP-rhamnosyltransferase

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