SMTL ID : 3p7z.1

Crystal structure of the Neurofibromin Sec14-PH module containing the patient derived mutation I1584V

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x PEV: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)

PEV.1: 24 residues within 4Å: Chain A: Y.47, A.49, V.66, L.70, Y.78, V.82, L.84, T.87, N.91, R.92, F.93, L.98, F.102, Y.110, V.113, V.116, I.118, W.124, Y.128, T.129, L.136, L.139, R.144, L.145 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:Y.47, A:Y.47, A:Y.47, A:A.49, A:V.66, A:L.70, A:V.82, A:L.84, A:T.87, A:R.92, A:L.98, A:F.102, A:V.116, A:V.116, A:I.118, A:W.124, A:Y.128, A:L.136 Hydrogen bonds: A:Y.78, A:F.102, A:R.144 PEV.3: 16 residues within 4Å: Chain B: Y.47, V.66, L.70, I.80, R.92, F.93, W.101, F.102, Y.110, V.113, V.116, I.118, Y.128, T.129, G.138, L.139 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:Y.47, B:Y.47, B:V.66, B:L.70, B:I.80, B:F.93, B:F.93, B:W.101, B:W.101, B:F.102, B:F.102, B:Y.110, B:V.113, B:V.116, B:V.116, B:I.118, B:Y.128, B:T.129 Hydrogen bonds: B:F.102 Water bridges: B:R.144 Salt bridges: B:R.144

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

NA.2: 3 residues within 4Å: Chain A: A.40, G.41, N.42 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.40, A:N.42

2 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.4: 3 residues within 4Å: Chain B: R.126, K.130, K.188 6 PLIP interactions: 6 interactions with chain B Water bridges: B:R.126, B:R.126 Salt bridges: B:R.126, B:K.130, B:K.130, B:K.188 POP.5: 3 residues within 4Å: Chain B: R.92, K.94, T.95 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.95 Water bridges: B:R.92, B:R.92, B:D.96, B:Y.131, B:Y.131 Salt bridges: B:R.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Welti, S. et al., Structural and biochemical consequences of NF1 associated nontruncating mutations in the Sec14-PH module of neurofibromin. Hum.Mutat. (2011)

Release Date

2010-12-08

Peptides

Neurofibromin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Neurofibromin