SMTL ID : 6zj1.1

Structure of an inactive E404Q variant of the catalytic domain of human endo-alpha-mannosidase MANEA in complex with tetrasaccharide N-glycan fragment and hexatungstotellurate(VI) TEW

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

monomer

Ligands

1 x MMA- MAN- MAN- GLC: alpha-D-glucopyranose-(1-3)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-methyl alpha-D-mannopyranoside

MMA-MAN-MAN-GLC.1: 23 residues within 4Å: Chain A: Y.28, W.30, H.42, H.45, D.115, E.116, N.117, H.142, E.144, Y.188, D.189, Y.191, V.224, Y.243, F.244, F.249, T.250, Y.280, I.285, R.286, Q.324, H.326, E.327 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.115, A:D.115, A:E.116, A:E.116, A:N.117, A:N.117, A:R.286, A:R.286, A:Q.324, A:Y.28, A:H.142, A:Q.324, A:E.327, A:Y.188, A:D.189, A:Y.191 Water bridges: A:E.116, A:E.144

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 1 residues within 4Å: Ligands: TEW.3 No protein-ligand interaction detected (PLIP)

2 x TEW: 6-tungstotellurate(VI)(Non-covalent)

TEW.3: 8 residues within 4Å: Chain A: K.175, T.176, K.177, T.178, A.374, L.375, D.376 Ligands: MG.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.177, A:T.178, A:T.178, A:L.375, A:D.376 TEW.4: 6 residues within 4Å: Chain A: E.226, K.229, Y.230, F.264, K.267, Y.268 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.229, A:K.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sobala, L.F. et al., Structure of human endo-alpha-1,2-mannosidase (MANEA), an antiviral host-glycosylation target. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-12-02

Peptides

Glycoprotein endo-alpha-1,2-mannosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Glycoprotein endo-alpha-1,2-mannosidase

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