SMTL ID : 7kmq.1

Crystal structure of the GH95 alpha-L-1,2-fucosidase (Xac1774) from Xanthomonas citri

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: W.386, T.391, N.395, W.641, H.680 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.391, A:N.395, A:W.641 Water bridges: A:T.391 GOL.2: 9 residues within 4Å: Chain A: V.67, G.69, G.70, E.74, A.163, T.165, R.176, E.177, V.178 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.70, A:A.163, A:T.165, A:R.176 GOL.3: 6 residues within 4Å: Chain A: P.669, E.670, T.672, Y.673, A.679, P.681 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.672, A:T.672, A:Y.673 GOL.5: 6 residues within 4Å: Chain B: L.374, W.386, T.391, N.395 Ligands: GOL.6, GOL.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:W.386, B:T.391, B:T.391 Water bridges: B:R.601, B:W.641 GOL.6: 9 residues within 4Å: Chain B: W.386, K.389, T.391, N.443, N.444, D.455, E.522 Ligands: GOL.5, GOL.7 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.391, B:T.391, B:N.443, B:D.455, B:E.522 Water bridges: B:K.389 GOL.7: 5 residues within 4Å: Chain B: W.386, W.459, E.522 Ligands: GOL.5, GOL.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.522

2 x CA: CALCIUM ION(Non-covalent)

CA.4: 6 residues within 4Å: Chain A: G.61, D.81, S.364, T.369, Q.370, I.377 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.61, A:D.81, A:S.364, A:Q.370, H2O.1 CA.8: 6 residues within 4Å: Chain B: G.61, D.81, S.364, T.369, Q.370, I.377 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.61, B:D.81, B:S.364, B:Q.370, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vieira, P.S. et al., Xyloglucan processing machinery in Xanthomonas pathogens and its role in the transcriptional activation of virulence factors. Nature Communications (2021)

Release Date

2021-05-26

Peptides

Glyco_hyd_65N_2 domain-containing protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glyco_hyd_65N_2 domain-containing protein