SMTL ID : 3ruc.1 (1 other biounit)

Specific recognition of N-acetylated substrates and domain flexibility in WbgU: a UDP-GalNAc 4-epimerase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 29 residues within 4Å: Chain A: G.32, A.34, G.35, F.36, I.37, D.56, N.57, F.58, S.59, T.60, G.61, G.86, D.87, I.88, R.89, Q.107, A.108, A.109, T.126, A.149, A.150, S.151, Y.175, K.179, Y.202, N.204, V.205, Q.210 Ligands: UD2.2 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:Y.202 Hydrogen bonds: A:G.32, A:F.36, A:I.37, A:N.57, A:N.57, A:F.58, A:S.59, A:S.59, A:T.60, A:T.60, A:T.60, A:T.60, A:G.61, A:D.87, A:I.88, A:Q.107, A:A.109, A:Y.175, A:K.179, A:V.205, A:Q.210 Water bridges: A:G.38 pi-Stacking: A:Y.202 NAD.4: 29 residues within 4Å: Chain B: G.32, A.34, G.35, F.36, I.37, D.56, N.57, F.58, S.59, T.60, G.61, G.86, D.87, I.88, R.89, Q.107, A.108, A.109, T.126, A.149, A.150, S.151, Y.175, K.179, Y.202, N.204, V.205, Q.210 Ligands: UD2.5 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:Y.202 Hydrogen bonds: B:A.34, B:F.36, B:I.37, B:N.57, B:N.57, B:S.59, B:S.59, B:T.60, B:T.60, B:T.60, B:T.60, B:G.61, B:I.88, B:Q.107, B:A.109, B:T.126, B:T.126, B:K.179, B:V.205, B:V.205, B:Q.210 Water bridges: B:G.35, B:G.38, B:R.89 pi-Stacking: B:Y.202

2 x UD2: URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE(Non-covalent)

UD2.2: 23 residues within 4Å: Chain A: G.111, S.112, S.151, S.152, S.153, Y.175, Y.202, N.204, A.218, V.219, K.222, W.223, Y.234, I.235, N.236, T.241, R.243, L.280, R.308, D.311, V.312, S.315 Ligands: NAD.1 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:V.219 Hydrogen bonds: A:S.112, A:S.151, A:S.152, A:S.152, A:N.204, A:N.204, A:N.204, A:V.219, A:K.222, A:Y.234, A:N.236, A:N.236, A:D.311 Water bridges: A:R.308, A:R.308, A:R.308, A:R.308, A:R.308, A:D.311, A:V.312 Salt bridges: A:R.243, A:R.308, A:R.308 UD2.5: 24 residues within 4Å: Chain B: G.111, S.112, S.151, S.152, S.153, Y.175, Y.202, F.203, N.204, A.218, V.219, K.222, W.223, Y.234, I.235, N.236, T.241, R.243, L.280, R.308, D.311, V.312, S.315 Ligands: NAD.4 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:S.112, B:S.151, B:S.152, B:S.152, B:Y.175, B:N.204, B:N.204, B:N.204, B:N.204, B:V.219, B:K.222, B:Y.234, B:N.236, B:N.236, B:R.305, B:R.308, B:D.311 Water bridges: B:R.308, B:R.308 Salt bridges: B:R.243, B:R.308

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: R.13, K.262, K.327 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.13, A:K.262, A:K.327

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bhatt, V.S. et al., Specific recognition of N-acetylated substrates and domain flexibility in WbgU: a UDP-GalNAc 4-epimerase. TO BE PUBLISHED

Release Date

2011-05-25

Peptides

WbgU: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

WbgU

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