SMTL ID : 6u7b.1

Structure of E. coli MS115-1 CdnC:HORMA-deltaN complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.72, D.74, D.130 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.72, A:D.74, H2O.1 MG.6: 3 residues within 4Å: Chain C: D.72, D.74, D.130 6 PLIP interactions: 2 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:D.72, C:D.74, H2O.5, H2O.6, H2O.7, H2O.9

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 6 residues within 4Å: Chain A: G.59, S.60, L.61, L.70, I.73, D.74 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain C: G.59, S.60, L.61, L.70, I.73, D.74 Ligand excluded by PLIP

5 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain B: D.100, K.104, D.160, K.161 Ligands: ACT.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.160 Water bridges: B:K.161, B:K.161 Salt bridges: B:K.161 ACT.4: 8 residues within 4Å: Chain B: T.98, D.100, N.159, D.160, K.161, T.162 Chain D: L.157 Ligands: ACT.3 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.159 ACT.5: 7 residues within 4Å: Chain B: R.106, Y.156, E.158, R.176 Chain D: Y.156, F.178, V.179 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:Y.156 Salt bridges: B:R.106, B:R.176 Hydrophobic interactions: D:Y.156 ACT.9: 4 residues within 4Å: Chain D: D.100, K.104, K.161 Ligands: ACT.10 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:D.100 Water bridges: D:D.100 Salt bridges: D:K.104, D:K.161 ACT.10: 8 residues within 4Å: Chain B: L.157 Chain D: T.98, D.100, N.159, D.160, K.161, T.162 Ligands: ACT.9 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.159, D:N.159

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.7: 18 residues within 4Å: Chain C: S.58, G.59, K.63, D.74, L.146, E.150, L.155, T.157, I.159, H.162, K.201, S.202, F.203, D.264, N.270, N.271, V.272, R.274 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:K.63, C:K.201, C:S.202, C:F.203, C:N.270, C:V.272 Water bridges: C:S.60, C:D.74, C:I.159, C:S.202, C:R.274, C:R.274 Salt bridges: C:K.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ye, Q. et al., HORMA Domain Proteins and a Trip13-like ATPase Regulate Bacterial cGAS-like Enzymes to Mediate Bacteriophage Immunity. Mol.Cell (2020)

Release Date

2019-12-25

Peptides

E. coli MS115-1 CdnC: AC
bacHORMA_1 domain-containing protein: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

E. coli MS115-1 CdnC

bacHORMA_1 domain-containing protein

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