SMTL ID : 6zj5.1

Structure of the catalytic domain of human endo-alpha-mannosidase MANEA in complex with GlcDMJ and hexatungstotellurate(VI) TEW

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

monomer

Ligands

3 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.1: 5 residues within 4Å: Chain A: L.233, G.236, F.237, Y.268, N.269 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.269 EPE.2: 2 residues within 4Å: Chain A: K.267 Ligands: TEW.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.267 EPE.3: 9 residues within 4Å: Chain A: A.245, N.247, S.253, H.255, W.258, G.277, Y.301, I.304, G.305 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.277 Salt bridges: A:H.255 pi-Cation interactions: A:Y.301

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

MG.4: 1 residues within 4Å: Ligands: TEW.5 No protein-ligand interaction detected (PLIP)

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

TEW.5: 9 residues within 4Å: Chain A: Y.174, T.176, K.177, T.178, G.179, A.374, L.375, D.376 Ligands: MG.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.174, A:K.177, A:K.177, A:K.177, A:T.178, A:L.375, A:D.376 TEW.6: 8 residues within 4Å: Chain A: K.229, Y.230, S.260, L.263, F.264, K.267, Y.268 Ligands: EPE.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.229, A:K.229, A:F.264, A:K.267 TEW.7: 1 residues within 4Å: Chain A: K.197 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.197

1 x DMJ: 1-DEOXYMANNOJIRIMYCIN(Non-covalent)

DMJ.8: 9 residues within 4Å: Chain A: Y.28, W.30, H.142, E.144, Y.188, Y.243, E.324, E.327 Ligands: GLC.9 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.28, A:H.142, A:Y.243 Water bridges: A:E.144, A:E.144

1 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.9: 11 residues within 4Å: Chain A: H.42, H.45, D.115, E.116, N.117, I.285, R.286, E.324, H.326, E.327 Ligands: DMJ.8 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.115, A:E.116, A:E.116, A:N.117, A:N.117, A:R.286, A:R.286

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

2020-12-09

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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