SMTL ID : 7bvf.1

Cryo-EM structure of Mycobacterium tuberculosis arabinosyltransferase EmbA-EmbB-AcpM2 in complex with ethambutol

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.952, S.954, T.956, D.959 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.952, A:S.954, A:D.959

1 x 95E: Ethambutol(Non-covalent)

95E.2: 10 residues within 4Å: Chain A: D.299, Y.302, I.303, M.306, E.327, Y.334, H.594, W.988, W.1028 Ligands: DSL.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:D.299, A:Y.302, A:I.303, A:W.988, A:W.988, A:W.1028 Hydrogen bonds: A:D.299, A:D.299, A:D.299, A:E.327, A:H.594

1 x DSL: MONO-TRANS, OCTA-CIS DECAPRENYL-PHOSPHATE(Non-covalent)

DSL.3: 17 residues within 4Å: Chain A: F.330, R.403, V.435, L.442, Q.445, P.446, V.452, I.489, T.506, R.509, P.514, S.515, P.589, T.590, W.592, H.595 Ligands: 95E.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.330, A:F.330, A:V.435, A:P.446, A:V.452, A:I.489, A:T.506, A:P.589, A:T.590 Hydrogen bonds: A:Q.445, A:T.590 Salt bridges: A:R.403, A:H.595

2 x CDL: CARDIOLIPIN(Non-covalent)

CDL.4: 12 residues within 4Å: Chain A: V.456, R.460, R.568, W.572, G.576, F.579, G.580, F.583 Chain B: F.541, R.545, R.609, H.673 11 PLIP interactions: 6 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:F.541, A:V.456, A:W.572, A:F.579, A:F.583 Salt bridges: B:R.545, B:R.545, B:R.609, B:H.673, B:H.673, A:R.568 CDL.5: 10 residues within 4Å: Chain A: F.555, R.559, R.623, H.687, F.688 Chain B: L.441, R.445, W.558, G.562, L.569 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.555, A:F.688, B:L.441, B:L.569 Salt bridges: A:R.559, A:R.623, A:R.623, A:H.687, B:R.445

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, L. et al., Structures of cell wall arabinosyltransferases with the anti-tuberculosis drug ethambutol. Science (2020)

Release Date

2020-04-29

Peptides

Probable arabinosyltransferase B: A
Probable arabinosyltransferase A: B
Meromycolate extension acyl carrier protein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
P

Membrane

We predict this structure to be a membrane protein.
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Probable arabinosyltransferase B

Probable arabinosyltransferase A

Meromycolate extension acyl carrier protein

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