SMTL ID : 3nyt.1

X-ray crystal structure of the WlbE (WpbE) aminotransferase from pseudomonas aeruginosa, mutation K185A, in complex with the PLP external aldimine adduct with UDP-3-amino-2-N-acetyl-glucuronic acid, at 1.3 angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-dimer

Ligands

2 x ULP: (2S,3S,4R,5R,6R)-5-(acetylamino)-6-{[(R)-{[(S)-{[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}-3-hydroxy-4-{[(1E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}tetrahydro-2H-pyran-2-carboxylic acid (non-preferred name)(Non-covalent)

ULP.1: 26 residues within 4Å: Chain A: F.4, I.5, L.7, N.58, G.59, T.60, T.84, Y.85, A.87, T.88, V.130, D.156, A.158, Q.159, S.180, F.182, S.184, H.308, Y.309 Chain B: G.29, Q.30, Y.31, I.32, Y.219, N.227, R.229 32 PLIP interactions: 21 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:Y.85, A:Y.85, A:V.130, A:A.158 Hydrogen bonds: A:F.4, A:I.5, A:I.5, A:G.59, A:T.60, A:Y.85, A:Q.159, A:S.180, A:S.184, A:G.193, A:Y.309, A:Y.309, B:G.29, B:Y.31, B:I.32, B:Y.219, B:N.227 Water bridges: A:E.3, A:S.180, A:S.184, A:H.308, B:Q.30, B:Q.30, B:Q.215, B:R.229, B:R.229 Salt bridges: A:H.308, B:R.229 ULP.3: 26 residues within 4Å: Chain A: G.29, Q.30, Y.31, I.32, Y.219, N.227, R.229 Chain B: F.4, I.5, L.7, N.58, G.59, T.60, T.84, Y.85, A.87, T.88, V.130, D.156, A.158, Q.159, S.180, F.182, S.184, H.308, Y.309 29 PLIP interactions: 9 interactions with chain A, 20 interactions with chain B Hydrogen bonds: A:G.29, A:Y.31, A:I.32, A:N.227, B:F.4, B:I.5, B:I.5, B:G.59, B:T.60, B:T.60, B:Y.85, B:Q.159, B:S.180, B:S.184, B:G.193, B:Y.309 Water bridges: A:Q.30, A:Q.215, A:R.229, A:R.229, B:S.180, B:S.184, B:H.308 Salt bridges: A:R.229, B:H.308 Hydrophobic interactions: B:Y.85, B:Y.85, B:V.130, B:A.158

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain B: D.192 Ligands: NA.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.192 Water bridges: B:D.231 NA.4: 2 residues within 4Å: Chain A: D.192 Ligands: NA.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.192 Water bridges: A:D.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dow, G.T. et al., Structural investigation on WlaRG from Campylobacter jejuni: A sugar aminotransferase. Protein Sci. (2017)

Release Date

2010-07-28

Peptides

Aminotransferase WbpE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Aminotransferase WbpE

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