SMTL ID : 6zfa.1

Structure of the catalytic domain of human endo-alpha-mannosidase MANEA in complex with GlcIFG, alpha-1,2-mannobiose and hexatungstotellurate(VI) TEW

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose(Non-covalent)

MAN-MAN.1: 12 residues within 4Å: Chain A: Y.188, D.189, Y.191, V.224, F.244, F.249, Y.280, R.286, W.288, N.289, N.292, E.327 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.280, A:N.289, A:N.292 Water bridges: A:E.327

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

EPE.2: 5 residues within 4Å: Chain A: L.233, F.237, Y.268, N.269, L.270 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.269

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: N.269 Ligands: TEW.4 No protein-ligand interaction detected (PLIP)

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

TEW.4: 8 residues within 4Å: Chain A: Y.174, T.176, K.177, T.178, A.374, L.375, D.376 Ligands: MG.3 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Y.174, A:K.177, A:K.177, A:T.178, A:R.370, A:R.370, A:L.375, A:D.376, A:D.376 TEW.5: 6 residues within 4Å: Chain A: K.229, Y.230, S.260, L.263, F.264, K.267 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.229, A:K.229, A:K.267 TEW.6: 2 residues within 4Å: Chain A: K.194, K.197 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.197

1 x IFM: 5-HYDROXYMETHYL-3,4-DIHYDROXYPIPERIDINE(Non-covalent)

IFM.7: 8 residues within 4Å: Chain A: Y.28, H.142, E.144, Y.188, Y.243, E.324, E.327 Ligands: GLC.8 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.188 Hydrogen bonds: A:Y.28, A:H.142 Water bridges: A:E.144, A:E.327, A:E.327, A:E.327, A:E.327

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

GLC.8: 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: IFM.7 10 PLIP interactions: 10 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 Water bridges: A:Y.109, A:E.116, A:E.116

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

2020-11-18

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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