SMTL ID : 7zer.1

Crystal structure of UGT85B1 from Sorghum bicolor in complex with UDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

1 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.1: 21 residues within 4Å: Chain A: Q.21, G.22, A.25, E.288, N.308, G.310, S.311, M.312, V.337, W.368, C.369, Q.371, H.386, G.388, W.389, N.390, S.391, E.394, H.408, Q.411 Ligands: EDO.2 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:W.368 Hydrogen bonds: A:Q.21, A:N.308, A:S.311, A:S.311, A:M.312, A:W.368, A:C.369, A:C.369, A:Q.371, A:W.389, A:N.390, A:N.390, A:S.391, A:S.391, A:E.394, A:Q.411 Water bridges: A:G.22, A:G.22, A:Q.371, A:Q.371, A:Q.371, A:E.394 Salt bridges: A:H.386, A:H.386

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 10 residues within 4Å: Chain A: G.22, H.23, T.152, A.153, G.388, W.389, N.390, E.410, Q.411 Ligands: UDP.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.152 Water bridges: A:S.311, A:W.389, A:H.408, A:E.410 EDO.3: 8 residues within 4Å: Chain A: P.19, G.20, Y.48, N.49, R.52, L.53, Q.87, I.285 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.48, A:R.52, A:R.52 Water bridges: A:Q.87 EDO.4: 7 residues within 4Å: Chain A: N.88, M.312, A.313, V.314, C.407, H.408, R.430 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.314, A:R.430 EDO.5: 7 residues within 4Å: Chain A: R.203, T.207, R.210, P.406, C.407, T.412, R.430 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.203, A:R.210, A:R.210 EDO.6: 8 residues within 4Å: Chain A: L.296, D.297, K.299, P.300, A.301, H.377, A.378, A.379 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.296 EDO.7: 5 residues within 4Å: Chain A: L.102, R.106, A.138, A.139, E.142 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.106, A:E.142 EDO.8: 9 residues within 4Å: Chain A: E.242, L.243, E.244, K.245, D.246, V.247, V.421, W.422, W.460 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.242, A:D.246, A:D.246 Water bridges: A:D.246, A:V.247

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Del Giudice, R. et al., Structure-guided engineering of key amino acids in UGT85B1 controlling substrate and stereo-specificity in aromatic cyanogenic glucoside biosynthesis. Plant J. (2022)

Release Date

2022-07-13

Peptides

Cyanohydrin beta-glucosyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cyanohydrin beta-glucosyltransferase

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