SMTL ID : 5low.1 (1 other biounit)

Structure of the Ca2+-bound Rabphilin 3A C2B domain SNAP25 complex (P21 space group)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-3-2-2-mer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: Q.36, E.92 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.36, A:E.92 GOL.4: 1 residues within 4Å: Chain B: K.98 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.98, B:K.98 GOL.7: 1 residues within 4Å: Chain C: W.154 No protein-ligand interaction detected (PLIP)

6 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.53, D.59, D.113, Y.114, D.115 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.53, A:Y.114, A:D.115 CA.3: 6 residues within 4Å: Chain A: M.52, D.53, D.113, D.115, K.118, 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 CA.5: 6 residues within 4Å: Chain B: M.52, D.53, D.113, D.115, D.121 Ligands: CA.6 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:M.52, B:D.113, B:D.115, B:D.121, H2O.1 CA.6: 6 residues within 4Å: Chain B: D.53, D.59, D.113, Y.114, D.115 Ligands: CA.5 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.53, B:D.59, B:Y.114, B:D.115 CA.8: 5 residues within 4Å: Chain C: M.52, D.53, D.113, D.115, D.121 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:M.52, C:D.53, C:D.115, C:D.121, H2O.1 CA.9: 5 residues within 4Å: Chain C: D.53, D.59, D.113, Y.114, D.115 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.59, C:Y.114, C:D.115, H2O.1

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: ABC
Synaptosomal-associated protein 25: DF
Synaptosomal-associated protein 25: EG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

F
F

E
E

G
G

Rabphilin-3A

Synaptosomal-associated protein 25

Synaptosomal-associated protein 25

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