SMTL ID : 6gj0.1

Human IMPase with Mn

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 5 residues within 4Å: Chain A: K.36, L.42, E.70 Ligands: MN.2, MES.7 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.70, H2O.2, H2O.2, H2O.3 MN.2: 8 residues within 4Å: Chain A: E.70, D.90, I.92, D.93, T.95 Ligands: MN.1, MN.3, MES.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.70, A:D.90, A:I.92, H2O.4 MN.3: 6 residues within 4Å: Chain A: D.90, D.93, D.220 Ligands: MN.2, GOL.4, MES.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.90, A:D.93, A:D.220, H2O.5 MN.8: 6 residues within 4Å: Chain B: D.90, D.93, D.220 Ligands: MN.9, GOL.11, MES.14 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.90, B:D.93, B:D.220, H2O.16 MN.9: 8 residues within 4Å: Chain B: E.70, D.90, I.92, D.93, T.95 Ligands: MN.8, MN.10, MES.14 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.70, B:D.90, B:I.92, H2O.14 MN.10: 5 residues within 4Å: Chain B: K.36, L.42, E.70 Ligands: MN.9, MES.14 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.70, H2O.13, H2O.13, H2O.13

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: D.93, E.162, T.195, A.196, E.213, D.220 Ligands: MN.3, MES.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.93, A:A.196, A:E.213 GOL.5: 6 residues within 4Å: Chain A: L.163, I.190, S.192 Chain B: I.190, R.191, S.192 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:L.163, A:S.192, B:S.192, B:S.192 GOL.6: 3 residues within 4Å: Chain A: R.248, L.271, Q.272 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.248, A:R.248, A:Q.272 Water bridges: A:S.165, A:S.165 GOL.11: 8 residues within 4Å: Chain B: D.93, T.195, A.196, E.213, I.216, D.220 Ligands: MN.8, MES.14 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.196, B:E.213 GOL.12: 7 residues within 4Å: Chain A: V.99, H.100 Chain B: S.149, Q.151, K.156, H.188, D.209 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:V.99, A:H.100, B:S.149, B:Q.151, B:H.188, B:D.209 Water bridges: B:Q.151 GOL.13: 5 residues within 4Å: Chain B: V.73, K.78, S.79, D.274, D.277 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.79, B:S.79 Water bridges: B:S.79, B:Q.272

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 13 residues within 4Å: Chain A: D.47, E.70, D.90, I.92, D.93, G.94, T.95, T.96 Chain B: R.191 Ligands: MN.1, MN.2, MN.3, GOL.4 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.47, A:G.94, A:T.95 Water bridges: A:E.71, A:T.95, A:T.96, A:T.96, A:T.96, B:R.191, B:R.191 MES.14: 15 residues within 4Å: Chain A: R.191 Chain B: D.47, E.70, D.90, I.92, D.93, G.94, T.95, T.96, N.97, G.194 Ligands: MN.8, MN.9, MN.10, GOL.11 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.94, B:T.95, B:T.95, B:T.96, B:N.97 Water bridges: A:R.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kraft, L. et al., Co-crystallization of human inositol monophosphatase with the lithium mimetic L-690,330. Acta Crystallogr D Struct Biol (2018)

Release Date

2018-10-17

Peptides

Inositol monophosphatase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Inositol monophosphatase 1

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