SMTL ID : 7xjv.1 (3 other biounits)

Crystal Structure of Alpha-1,3-mannosyltransferase MNT2 from Saccharomyces cerevisiae, Mn/GDP-mannose form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: D.267, D.269, N.449 Ligands: GDD.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.267, A:D.269, A:D.269

1 x GDD: GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-MANNOSE(Non-covalent)

GDD.2: 22 residues within 4Å: Chain A: S.170, A.171, S.172, Q.175, T.247, Y.248, N.250, K.251, D.267, S.268, D.269, E.355, S.356, G.357, H.386, G.387, D.388, K.389, N.449 Ligands: MN.1, GOL.3, GOL.5 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:S.170, A:S.170, A:S.170, A:S.172, A:T.247, A:K.251, A:S.268, A:S.268, A:D.269, A:S.356, A:H.386, A:D.388, A:D.388, A:K.389, A:N.449 Water bridges: A:Q.175 Salt bridges: A:H.386, A:K.389, A:K.456

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: D.269, R.296, V.434, L.436, N.449, G.450, K.456 Ligands: GDD.2, GOL.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.269, A:R.296, A:R.296, A:V.434 GOL.4: 7 residues within 4Å: Chain A: D.295, R.296, H.352, H.386, K.389, Y.514 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.295, A:R.296, A:H.386, A:K.389 GOL.5: 3 residues within 4Å: Chain A: T.247, Y.248 Ligands: GDD.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.248 GOL.6: 5 residues within 4Å: Chain A: V.333, E.334, D.335, R.402, F.403 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.334, A:D.335, A:F.403 GOL.7: 1 residues within 4Å: Chain A: E.334 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.334

1 x NA: SODIUM ION(Non-functional Binders)

NA.8: 2 residues within 4Å: Chain A: E.153, H.157 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.153, A:E.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hira, D. et al., Crystal Structure of Alpha-1,3-mannosyltransferase MNT2 from Saccharomyces cerevisiae, Mn/GDP-mannose form. To Be Published

Release Date

2023-05-31

Peptides

Alpha-1,3-mannosyltransferase MNT2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-1,3-mannosyltransferase MNT2

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