SMTL ID : 3vps.2 (1 other biounit)

Structure of a novel NAD dependent-NDP-hexosamine 5,6-dehydratase, TunA, involved in tunicamycin biosynthesis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x UD1: URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE(Non-covalent)

UD1.1: 21 residues within 4Å: Chain A: K.80, V.82, T.119, C.120, E.121, Y.143, N.173, E.179, D.182, A.183, L.184, R.187, P.199, V.200, E.201, Q.206, R.208, V.242, R.264, E.267 Ligands: NAD.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.184 Hydrogen bonds: A:K.80, A:K.80, A:T.119, A:E.121, A:Y.143, A:Y.143, A:N.173, A:D.182, A:L.184, A:P.199, A:E.201, A:E.201, A:Q.206, A:E.267 Water bridges: A:N.173, A:R.208, A:R.264 Salt bridges: A:R.208, A:R.264, A:R.264

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.2: 32 residues within 4Å: Chain A: G.14, A.16, G.17, F.18, I.19, L.37, D.38, D.39, L.40, R.41, V.42, K.57, P.58, V.59, L.76, A.77, S.78, K.80, D.94, S.98, G.117, S.118, T.119, Y.143, K.147, F.171, F.172, N.173, V.174, E.179, R.180 Ligands: UD1.1 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:F.171 Hydrogen bonds: A:F.18, A:I.19, A:D.39, A:L.40, A:R.41, A:V.42, A:V.42, A:V.59, A:L.76, A:S.78, A:S.78, A:S.78, A:K.80, A:D.94, A:S.98, A:K.147, A:V.174, A:E.179 Water bridges: A:G.20, A:R.41, A:L.60, A:D.94, A:D.94, A:R.180 Salt bridges: A:K.80, A:K.80, A:R.180 pi-Stacking: A:F.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wyszynski, F.J. et al., Biosynthesis of nucleoside antibiotic tunicamycin proceeds via unique exo-glycal intermediates. To be published

Release Date

2012-04-18

Peptides

NAD-dependent epimerase/dehydratase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

NAD-dependent epimerase/dehydratase

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