SMTL ID : 8k7a.1

Cryo-EM structure of nucleotide-bound ComA E647Q mutant with Mg2+

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 17 residues within 4Å: Chain A: Y.493, V.499, I.518, S.519, G.520, S.521, G.522, K.523, T.524, T.525, Q.565, H.676 Chain B: G.621, S.623, G.624, G.625 Ligands: MG.2 13 PLIP interactions: 10 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:G.520, A:G.522, A:T.524, A:T.524, A:T.524, A:T.525, A:Q.565, A:H.676, B:G.621, B:G.624, B:G.625 Salt bridges: A:K.523 pi-Stacking: A:Y.493 ATP.3: 17 residues within 4Å: Chain A: G.621, I.622, S.623 Chain B: Y.493, V.499, I.518, S.519, G.520, S.521, G.522, K.523, T.524, T.525, Q.565, Q.647, H.676 Ligands: MG.4 11 PLIP interactions: 8 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.520, B:S.521, B:K.523, B:T.524, B:T.525, B:Q.565, B:Q.647, A:G.621, A:S.623, A:G.625 pi-Stacking: B:Y.493

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: K.523, T.524, Q.565 Ligands: ATP.1 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain B: T.524, Q.565 Ligands: ATP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.524

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, L. et al., Structural basis of peptide secretion for Quorum sensing by ComA. Nat Commun (2023)

Release Date

2023-10-11

Peptides

Transport/processing ATP-binding protein ComA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Transport/processing ATP-binding protein ComA

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