SMTL ID : 5lo8.2 (1 other biounit)

The C2B domain of Rabphilin 3A in complex with PI(4,5)P2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.53, D.59, D.113, Y.114, D.115 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.53, A:D.59, A:D.113, A:Y.114, A:D.115 CA.2: 5 residues within 4Å: Chain A: M.52, D.53, D.113, D.115, D.121 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:M.52, A:D.53, A:D.113, A:D.115, A:D.121

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: W.112, S.119, N.120 Ligands: PIO.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.119 GOL.4: 4 residues within 4Å: Chain A: Y.32, K.98, H.99, S.100 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.32, A:H.99, A:S.100, A:S.100 GOL.5: 2 residues within 4Å: Chain A: A.51, M.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.52

1 x PIO: [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate(Non-covalent)

PIO.6: 7 residues within 4Å: Chain A: K.63, K.72, K.75, K.77, W.112, N.120 Ligands: GOL.3 6 PLIP interactions: 6 interactions with chain A Salt bridges: A:K.63, A:K.72, A:K.72, A:K.72, A:K.75, A:K.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferrer-Orta, C. et al., Structural characterization of the Rabphilin-3A-SNAP25 interaction. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-06-21

Peptides

Rabphilin-3A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Rabphilin-3A

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