SMTL ID : 7k6w.2 (1 other biounit)

Structure of the PTP-like myo-inositol phosphatase from Desulfovibrio magneticus in complex with myo-inositol hexakisphosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.1: 18 residues within 4Å: Chain A: R.47, N.121, R.156, R.157, D.191, H.192, S.220, R.221, G.222, G.223, A.224, G.225, R.226, T.227, S.258, R.271, R.278 Ligands: PO4.2 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:N.121, A:D.191, A:D.191, A:D.191, A:H.192, A:R.221, A:R.221, A:G.222, A:A.224, A:G.225, A:R.226, A:R.226 Water bridges: A:R.47, A:R.226, A:S.258, A:D.259, A:R.278, A:R.278 Salt bridges: A:R.156, A:R.157, A:H.192, A:H.192, A:R.221, A:R.226, A:R.278 IHP.6: 18 residues within 4Å: Chain B: R.47, R.117, N.121, R.156, R.157, D.191, H.192, S.220, R.221, G.222, G.223, A.224, G.225, R.226, T.227, S.258, R.278 Ligands: PO4.7 25 PLIP interactions: 25 interactions with chain B Hydrogen bonds: B:R.47, B:N.121, B:D.191, B:D.191, B:H.192, B:S.220, B:R.221, B:R.221, B:G.222, B:A.224, B:G.225, B:R.226, B:R.226 Water bridges: B:S.258, B:R.278, B:R.278, B:R.278 Salt bridges: B:R.117, B:R.156, B:R.157, B:H.192, B:H.192, B:R.221, B:R.226, B:R.278

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 11 residues within 4Å: Chain A: D.191, H.192, S.220, R.221, G.222, G.223, A.224, G.225, R.226, T.227 Ligands: IHP.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.191, A:D.191, A:R.221, A:G.222, A:G.222, A:A.224, A:G.225, A:R.226 Water bridges: A:H.192 Salt bridges: A:R.226 PO4.7: 10 residues within 4Å: Chain B: D.191, S.220, R.221, G.222, G.223, A.224, G.225, R.226, T.227 Ligands: IHP.6 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.191, B:S.220, B:R.221, B:G.222, B:A.224, B:G.225, B:R.226 Water bridges: B:H.192, B:H.192 Salt bridges: B:R.226

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 6 residues within 4Å: Chain A: A.129, Y.184, L.185, R.186, R.202 Chain B: A.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.186 Salt bridges: A:R.202 ACT.4: 9 residues within 4Å: Chain A: D.37, A.38, S.42, P.45, H.46, S.78, Q.79, R.157, R.221 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.78, A:Q.79 Salt bridges: A:H.46, A:R.157 ACT.5: 5 residues within 4Å: Chain A: P.147, D.148, T.164, L.165, G.166 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.148, A:D.148 ACT.8: 9 residues within 4Å: Chain B: D.37, A.38, P.39, S.42, P.45, H.46, S.78, Q.79, R.157 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.46, B:R.157 ACT.9: 5 residues within 4Å: Chain B: R.284, W.303, L.304, G.306, G.307 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.303 Hydrogen bonds: B:W.303 ACT.10: 7 residues within 4Å: Chain A: D.128, A.130, F.131 Chain B: E.134, A.137, A.138, A.141 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cleland, C.P. et al., Structure of the PTP-like myo-inositol phosphatase from Desulfovibrio magneticus in complex with myo-inositol hexakisphosphate. To Be Published

Release Date

2021-11-10

Peptides

Myo-inositol phosphohydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Myo-inositol phosphohydrolase

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