SMTL ID : 8rky.3 (2 other biounits)

X-ray structure of the drug binding domain of AlbA in complex with the KMR-14-14 compound of the pyrrolobenzodiazepines class

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

monomer

Ligands

2 x 01: ethyl 4-[[5-[[4-[4-[[(6~{a}~{S})-2-methoxy-11-oxidanylidene-6~{a},7,8,9-tetrahydropyrrolo[2,1-c][1,4]benzodiazepin-3-yl]oxy]butanoylamino]-1-methyl-pyrrol-2-yl]carbonylamino]-1-benzothiophen-2-yl]carbonylamino]-1-methyl-imidazole-2-carboxylate

01.1: 24 residues within 4Å: Chain A: Y.3, F.17, N.25, W.28, L.29, Q.36, W.57, M.58, L.61, L.72, L.75, N.76, H.79, M.85, E.87, Q.88, T.89, G.90, V.91, I.96, T.100, M.132, P.135 Ligands: DTV.3 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.17, A:W.28, A:L.29, A:W.57, A:L.61, A:L.61, A:L.75, A:T.89, A:V.91, A:P.135 Hydrogen bonds: A:Y.3, A:Q.36, A:N.76, A:N.76, A:R.86 Water bridges: A:T.89 pi-Stacking: A:H.79 01.2: 19 residues within 4Å: Chain A: Y.127, W.134, W.163, F.167, Y.170, Q.178, F.181, R.182, E.186, T.195, M.197, S.199, S.203, Q.206, I.209, G.210, M.213 Ligands: DTV.3, DTV.4 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.127, A:F.167, A:Y.170, A:F.181, A:R.182, A:I.209, A:I.209 Hydrogen bonds: A:Y.170, A:Y.170, A:Q.178, A:Q.206, A:Q.206 pi-Stacking: A:W.134, A:W.163 pi-Cation interactions: A:W.134, A:R.182

2 x DTV: (2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL(Non-covalent)

DTV.3: 11 residues within 4Å: Chain A: F.103, Y.127, W.134, P.135, V.138, G.194, T.195, W.196 Ligands: 01.1, 01.2, DTV.4 No protein-ligand interaction detected (PLIP) DTV.4: 8 residues within 4Å: Chain A: K.107, W.111, Y.170, L.191, M.192, T.195 Ligands: 01.2, DTV.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Di Palma, M. et al., X-ray structure of the drug binding domain of AlbA in complex with the KMR-14-14 compound of the pyrrolobenzodiazepines class. To Be Published

Release Date

2025-01-15

Peptides

Albicidin resistance protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Albicidin resistance protein

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