SMTL ID : 5eg1.1

Antibacterial peptide ABC transporter McjD with a resolved lipid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.42 Å

Oligo State

homo-dimer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 24 residues within 4Å: Chain A: Y.354, I.360, P.379, S.380, G.381, S.382, G.383, K.384, S.385, T.386, Q.426, E.506, H.537 Chain B: V.463, N.464, N.479, N.480, Y.481, S.482, G.483, G.484, Q.485, A.510 Ligands: MG.2 23 PLIP interactions: 7 interactions with chain B, 16 interactions with chain A Hydrogen bonds: B:N.464, B:N.464, B:N.479, B:S.482, B:G.484, B:Q.485, B:Q.485, A:S.380, A:G.381, A:S.382, A:G.383, A:K.384, A:K.384, A:K.384, A:S.385, A:S.385, A:T.386, A:T.386, A:Q.426, A:E.506 Salt bridges: A:K.389 pi-Stacking: A:Y.354, A:Y.354 ANP.3: 24 residues within 4Å: Chain A: V.463, N.464, N.479, N.480, Y.481, S.482, G.483, G.484, Q.485, A.510 Chain B: Y.354, I.360, P.379, S.380, G.381, S.382, G.383, K.384, S.385, T.386, Q.426, E.506, H.537 Ligands: MG.4 22 PLIP interactions: 16 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:G.381, B:G.381, B:S.382, B:G.383, B:K.384, B:K.384, B:K.384, B:K.384, B:S.385, B:S.385, B:T.386, B:T.386, B:Q.426, A:N.464, A:N.479, A:S.482, A:G.484, A:Q.485, A:Q.485 Salt bridges: B:K.389 pi-Stacking: B:Y.354, B:Y.354

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.385, Q.426, D.505 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.385 MG.4: 4 residues within 4Å: Chain B: S.385, Q.426, D.505 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.385

1 x P6L: (2S)-3-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-[(6E)-HEXADEC-6-ENOYLOXY]PROPYL (8E)-OCTADEC-8-ENOATE(Non-covalent)

P6L.5: 5 residues within 4Å: Chain B: I.155, I.158, F.174, T.185, R.186 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:I.155, B:I.158, B:I.158 Hydrogen bonds: B:T.185, B:T.185, B:R.186 Salt bridges: B:R.186

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mehmood, S. et al., Structural and Functional Basis for Lipid Synergy on the Activity of the Antibacterial Peptide ABC Transporter McjD. J.Biol.Chem. (2016)

Release Date

2016-08-31

Peptides

Microcin-J25 export ATP-binding/permease protein McjD: 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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Microcin-J25 export ATP-binding/permease protein McjD

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