SMTL ID : 2cjt.2 (1 other biounit)

Structural Basis for a Munc13-1 Homodimer - Munc13-1 - RIM Heterodimer Switch: C2-domains as Versatile Protein-Protein Interaction Modules

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.44 Å

Oligo State

homo-dimer

Ligands

12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 8 residues within 4Å: Chain A: K.30, K.35, E.66, W.68 Chain B: K.30, K.35, E.66, W.68 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:K.30, B:K.35, B:E.66, A:K.30, A:W.68 Water bridges: A:K.35 EDO.2: 7 residues within 4Å: Chain A: G.71, L.72, I.73, W.74, D.75 Chain B: S.36, T.37 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.37, B:T.37, A:D.75 EDO.3: 2 residues within 4Å: Chain A: N.92, E.131 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.92 EDO.4: 9 residues within 4Å: Chain A: R.89, G.95, P.96, G.97, E.98, D.127, A.128 Ligands: EDO.5, FMT.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.97, A:G.97, A:D.127, A:A.128, A:A.128 EDO.5: 7 residues within 4Å: Chain A: I.83, E.98, L.126, D.127, A.128 Ligands: EDO.4, FMT.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.126, A:A.128 EDO.6: 7 residues within 4Å: Chain A: V.3, M.4, S.5, I.56, N.57, R.58, L.59 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.5 EDO.7: 8 residues within 4Å: Chain A: C.8, G.10, K.12, D.51, E.94, G.95, D.127, H.129 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.12, A:E.94, A:E.94 EDO.9: 5 residues within 4Å: Chain A: W.74 Chain B: V.34, M.53, F.54, E.55 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.55, B:E.55 EDO.10: 5 residues within 4Å: Chain B: E.98, L.126, D.127, A.128 Ligands: FMT.14 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.98, B:D.127, B:A.128 EDO.11: 5 residues within 4Å: Chain A: I.73 Chain B: S.36, F.52, M.53, F.54 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.36, B:S.36, B:M.53 Water bridges: B:D.51 EDO.12: 2 residues within 4Å: Chain B: E.49, Q.50 No protein-ligand interaction detected (PLIP) EDO.13: 6 residues within 4Å: Chain B: G.10, V.11, K.12, E.49, Q.50, D.51 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.12, B:E.49

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.8: 6 residues within 4Å: Chain A: T.87, I.88, R.89, A.128 Ligands: EDO.4, EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.87, A:R.89, A:A.128 FMT.14: 7 residues within 4Å: Chain B: R.89, G.95, P.96, G.97, E.98, D.127 Ligands: EDO.10 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.97, B:G.97, B:E.98, B:D.127 FMT.15: 3 residues within 4Å: Chain B: P.119, T.120, F.121 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.101 FMT.16: 6 residues within 4Å: Chain B: K.70, G.71, L.72, I.73, W.74, D.75 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.70, B:D.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, J. et al., Structural Basis for a Munc13-1 Dimeric to Munc13-1/Rim Heterodimer Switch. Plos Biol. (2006)

Release Date

2006-06-07

Peptides

UNC-13 HOMOLOG A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

UNC-13 HOMOLOG A

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