SMTL ID : 4wu3.2 (1 other biounit)

Structure of the PTP-like myo-inositol phosphatase from Mitsuokella multacida in complex with myo-inositol-(1,3,4,5)-tetrakisphosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

3 x 4IP: INOSITOL-(1,3,4,5)-TETRAKISPHOSPHATE(Non-covalent)

4IP.1: 4 residues within 4Å: Chain A: H.214, K.288, K.289, Y.297 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:K.288, A:Y.297 Water bridges: A:K.289, A:K.290, A:G.293, B:Y.292, B:Y.292, B:Y.292 Salt bridges: A:K.288, A:K.289, A:K.289 4IP.2: 14 residues within 4Å: Chain A: R.343, D.441, K.477, D.511, H.512, S.540, Q.541, A.542, G.543, A.544, G.545, R.546, K.592, Y.596 28 PLIP interactions: 28 interactions with chain A Hydrogen bonds: A:D.441, A:D.511, A:D.511, A:H.512, A:S.540, A:Q.541, A:A.542, A:G.543, A:A.544, A:G.545, A:R.546, A:Y.596 Water bridges: A:R.343, A:R.343, A:Y.437, A:D.511, A:H.512, A:N.577, A:N.577, A:Y.596 Salt bridges: A:R.343, A:K.475, A:K.477, A:K.477, A:H.512, A:R.546, A:K.592, A:K.592 4IP.7: 3 residues within 4Å: Chain B: K.288, K.289, Y.297 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.288, B:Y.297 Water bridges: B:H.140, B:K.288, B:K.289, B:K.290, A:Y.292, A:Y.292 Salt bridges: B:K.288, B:K.289, B:K.289

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

PO4.3: 8 residues within 4Å: Chain A: D.213, S.242, Y.243, A.244, G.245, M.246, G.247, R.248 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.242, A:S.242, A:S.242, A:Y.243, A:A.244, A:G.245, A:M.246, A:G.247, A:R.248 Water bridges: A:H.214, A:R.248 Salt bridges: A:R.248 PO4.8: 8 residues within 4Å: Chain B: D.511, S.540, Q.541, A.542, G.543, A.544, G.545, R.546 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:D.511, B:D.511, B:S.540, B:S.540, B:Q.541, B:A.542, B:G.543, B:A.544, B:G.545, B:R.546 Water bridges: B:D.511 Salt bridges: B:R.546 PO4.9: 8 residues within 4Å: Chain B: D.213, S.242, Y.243, A.244, G.245, M.246, G.247, R.248 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:S.242, B:S.242, B:Y.243, B:A.244, B:G.245, B:M.246, B:G.247, B:R.248 Water bridges: B:H.214 Salt bridges: B:R.248

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: Q.302, H.306, V.330, N.331 Chain B: Q.302 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:H.306, A:V.330, B:Q.302 Water bridges: B:Q.302 GOL.5: 9 residues within 4Å: Chain A: M.89, N.90, Y.229, P.233, K.234, A.236, L.238, H.256, K.260 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.90, A:P.233, A:L.238, A:K.260 Water bridges: A:N.90, A:Y.229, A:Y.229 GOL.6: 4 residues within 4Å: Chain A: F.267, Q.305, Y.308, D.309 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.305 Water bridges: A:F.267, A:D.309, B:K.329 GOL.10: 6 residues within 4Å: Chain A: Q.302 Chain B: Q.302, H.306, V.330, N.331, S.332 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.302, B:Q.302, B:V.330 Water bridges: A:Q.302, B:N.331 GOL.11: 10 residues within 4Å: Chain B: M.89, N.90, Y.229, L.232, P.233, K.234, A.236, L.238, H.256, K.260 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:M.89, B:L.238, B:K.260 Water bridges: B:N.90 GOL.12: 4 residues within 4Å: Chain B: F.267, Q.305, Y.308, D.309 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:K.329 Hydrogen bonds: B:Q.305

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bruder, L.M., Structure of the PTP-like phytase from Selenomonas ruminantium in complex with myo-inositol-(1,3,4,5)-tetrakisphosphate. To Be Published

Release Date

2015-12-09

Peptides

MYO-INOSITOL PHOSPHOHYDROLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

MYO-INOSITOL PHOSPHOHYDROLASE

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