SMTL ID : 9kwi.1

Cryo-EM structure of MsRv1273c/72c(E553Q) mutant from Mycobacterium smegmatis in the ATP-bound Occ state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

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

ATP.1: 21 residues within 4Å: Chain A: Y.345, V.352, S.371, T.372, G.373, S.374, G.375, K.376, S.377, T.378, Q.418 Chain B: L.500, G.513, A.514, I.515, S.516, A.517, G.518, E.519, S.544 Ligands: MG.2 17 PLIP interactions: 14 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:G.373, A:G.373, A:S.374, A:G.375, A:K.376, A:S.377, A:T.378, A:T.378, A:Q.418, A:Q.418, B:S.516, B:G.518, B:E.519 Salt bridges: A:K.376, A:K.376 pi-Stacking: A:Y.345, A:Y.345 ATP.4: 20 residues within 4Å: Chain A: I.472, N.473, S.475, G.477, Q.478, A.503 Chain B: D.153, Y.387, V.393, T.413, G.414, A.415, G.416, K.417, T.418, T.419, Q.459, Q.540, H.571 Ligands: MG.3 17 PLIP interactions: 13 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.153, B:G.416, B:K.417, B:T.418, B:T.419, B:T.419, B:Q.459, B:Q.540, A:S.475, A:G.477, A:Q.478, A:Q.478 Salt bridges: B:K.417, B:K.417, B:H.571 pi-Stacking: B:Y.387, B:Y.387

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.377, Q.418 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.377 MG.3: 3 residues within 4Å: Chain B: T.418, Q.459 Ligands: ATP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.418

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, J. et al., Structure and mechanism of a mycobacterial isoniazid efflux pump MsRv1273c/72c with a degenerate nucleotide-binding site. Nat Commun (2025)

Release Date

2025-05-14

Peptides

ABC transporter, ATP-binding protein: A
ABC transporter: B

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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ABC transporter, ATP-binding protein

ABC transporter