SMTL ID : 3nub.1

WbpE, an Aminotransferase from Pseudomonas aeruginosa Involved in O-antigen Assembly in Complex with Product as the External Aldimine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x UD0: (2S,3S,4R,5R,6R)-5-(acetylamino)-6-{[(S)-{[(S)-{[(2S,3R,4S,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-covalent)

UD0.1: 27 residues within 4Å: Chain A: E.3, F.4, I.5, L.7, N.58, G.59, T.60, T.84, Y.85, A.87, V.130, D.156, A.158, Q.159, S.180, F.182, P.183, S.184, K.185, G.193, H.308, Y.309 Chain B: G.29, Y.31, I.32, N.227, R.229 30 PLIP interactions: 22 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:Y.85, A:Y.85, A:V.130, A:A.158, A:P.183 Hydrogen bonds: A:E.3, A:G.59, A:T.60, A:T.60, A:Y.85, A:Q.159, A:S.180, A:S.184, A:K.185, A:H.308, A:Y.309, A:Y.309, B:G.29, B:Y.31, B:I.32, B:N.227 Water bridges: A:S.180, A:D.192, A:Q.283, B:R.229, B:R.229, B:R.229 Salt bridges: A:K.185, A:H.308, B:R.229 UD0.4: 25 residues within 4Å: Chain A: H.213, N.227, R.229 Chain B: F.4, N.58, G.59, T.60, L.63, T.84, Y.85, A.87, V.130, D.156, A.158, Q.159, S.180, F.182, S.184, K.185, G.193, Q.283, T.305, A.306, H.308, Y.309 22 PLIP interactions: 19 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.85, B:A.87, B:V.130, B:A.158, B:Y.309 Hydrogen bonds: B:G.59, B:T.60, B:T.60, B:Q.159, B:S.180, B:S.184, B:S.184, B:K.185, B:Y.309, B:Y.309, A:N.227 Water bridges: B:S.180, B:D.192 Salt bridges: B:H.308, B:H.308, A:H.213, A:R.229

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: A.57, D.192, D.231 Chain B: A.57, D.192, D.231, Q.234 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:A.57, B:D.192, A:A.57, A:D.231 Water bridges: B:N.58, B:D.231, B:D.231, B:Q.234, A:D.192, A:D.231

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

SO4.3: 3 residues within 4Å: Chain A: R.24, R.27, H.28 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.27, A:R.27 Salt bridges: A:R.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Larkin, A. et al., Structural Analysis of WbpE from Pseudomonas aeruginosa PAO1: A Nucleotide Sugar Aminotransferase Involved in O-Antigen Assembly. Biochemistry (2010)

Release Date

2010-07-28

Peptides

Aminotransferase WbpE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aminotransferase WbpE

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