SMTL ID : 4a6h.1

Crystal structure of Slm1-PH domain in complex with Inositol-4- phosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

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

PO4.1: 3 residues within 4Å: Chain A: K.17, H.94, N.95 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.95, A:N.95 Salt bridges: A:K.17, A:H.94 PO4.2: 8 residues within 4Å: Chain A: T.30, N.32, F.33, H.35 Chain C: T.30, N.32, F.33, H.35 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:T.30, A:T.30, A:N.32, C:N.32 Salt bridges: A:H.35, C:H.35 PO4.5: 8 residues within 4Å: Chain B: T.30, N.32, F.33, H.35 Chain D: T.30, N.32, F.33, H.35 7 PLIP interactions: 3 interactions with chain D, 4 interactions with chain B Hydrogen bonds: D:T.30, D:N.32, B:T.30, B:N.32, B:N.32 Salt bridges: D:H.35, B:H.35 PO4.6: 2 residues within 4Å: Chain B: H.94, N.95 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.95, B:N.95 Salt bridges: B:H.94 PO4.7: 4 residues within 4Å: Chain B: F.11, K.38, T.39, A.40 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.40, B:D.41 PO4.9: 6 residues within 4Å: Chain C: H.62, S.63, R.64, K.65, Y.103, M.107 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.63, C:K.65, C:Y.103 Salt bridges: C:H.62, C:R.64 PO4.10: 3 residues within 4Å: Chain D: K.17, H.94, N.95 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:N.95, D:N.95, D:N.95 Water bridges: D:N.95, D:N.95 Salt bridges: D:K.17, D:H.94 PO4.11: 3 residues within 4Å: Chain D: R.15, Y.22, K.79 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Y.22 Water bridges: D:K.99, D:K.99 Salt bridges: D:R.15, D:K.79

3 x I4D: D-MYO-INOSITOL-4-PHOSPHATE(Non-covalent)

I4D.3: 7 residues within 4Å: Chain A: R.15, K.20, S.21, Y.22, S.76, K.79, K.99 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.15, A:R.15, A:Y.22, A:S.76, A:S.76, A:K.79, A:K.99 I4D.4: 11 residues within 4Å: Chain A: F.4, E.6, Y.26, V.28, F.37, T.39, A.40, D.41, R.42, D.45, L.46 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.6, A:Y.26, A:Y.26, A:T.39, A:A.40 I4D.8: 6 residues within 4Å: Chain B: R.15, K.20, S.21, Y.22, S.76, K.79 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.15, B:R.15, B:Y.22, B:K.99 Water bridges: B:Y.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anand, K. et al., Structural Analyses of Slm1-Ph Domain Demonstrate Ligand Binding in the Non-Canonical Site. Plos One (2012)

Release Date

2012-06-13

Peptides

PHOSPHATIDYLINOSITOL 4,5-BISPHOSPHATE-BINDING PROTEIN SLM1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

PHOSPHATIDYLINOSITOL 4,5-BISPHOSPHATE-BINDING PROTEIN SLM1

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