SMTL ID : 3wa5.1

Crystal Structure of type VI peptidoglycan muramidase effector Tse3 in complex with its cognate immunity protein Tsi3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: V.281, V.282, T.285, Y.326, Y.376 Chain B: G.98, S.99 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.282, A:T.285, A:T.285, A:Y.376 EDO.2: 4 residues within 4Å: Chain A: Y.289, L.291, R.325, Y.329 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.325 EDO.3: 6 residues within 4Å: Chain A: I.160, Q.165, L.168, Q.264, A.265, S.268 No protein-ligand interaction detected (PLIP) EDO.7: 4 residues within 4Å: Chain B: T.27, L.28, T.29 Ligands: EDO.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.29, B:T.29 Water bridges: B:T.27 EDO.8: 5 residues within 4Å: Chain B: L.28, T.29, R.46, F.51 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.29, B:R.46 EDO.9: 8 residues within 4Å: Chain B: R.52, Q.64, L.65, E.66, R.105, S.120, A.121, S.122 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.52, B:E.66, B:S.122 Water bridges: B:R.105, B:S.120 EDO.10: 2 residues within 4Å: Chain B: K.91, W.107 1 PLIP interactions: 1 interactions with chain B Water bridges: B:E.93 EDO.11: 4 residues within 4Å: Chain B: Y.90, E.129, T.131, W.136 No protein-ligand interaction detected (PLIP)

3 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: N.181, D.253, Q.254, E.258, Q.280 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.253, A:E.258, A:E.258, H2O.1, H2O.1 CA.5: 5 residues within 4Å: Chain A: E.258, D.262, S.275, Q.280 Chain B: E.126 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:E.258, A:D.262, A:S.275, B:E.126, B:E.126 CA.6: 5 residues within 4Å: Chain A: E.375, S.378, R.379, D.382, N.384 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.378, A:R.379, A:D.382, A:N.384, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, T. et al., Complex structure of type VI peptidoglycan muramidase effector and a cognate immunity protein. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-10-02

Peptides

Type VI secretion exported 3: A
Tse3-specific immunity protein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Type VI secretion exported 3

Tse3-specific immunity protein