SMTL ID : 5k69.1 (2 other biounits)

Crystal structure of Mycobacterium tuberculosis L,D-transpeptidase 2 with carbapenem drug T224

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: E.213, H.214, F.215, I.291, W.394 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.215, A:W.394 Water bridges: A:R.211 GOL.2: 6 residues within 4Å: Chain A: I.188, K.189, I.190, G.198, F.200, W.210 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.188, A:I.190, A:I.190, A:G.198

1 x 6QR: (2~{S},3~{R},4~{R})-4-(1~{H}-indol-3-ylsulfanyl)-3-methyl-2-[(2~{S},3~{S})-3-oxidanyl-1-oxidanylidene-butan-2-yl]-3,4-dihydro-2~{H}-pyrrole-5-carboxylic acid(Covalent)

6QR.3: 12 residues within 4Å: Chain A: M.303, Y.318, T.320, G.332, F.334, H.336, W.340, S.351, H.352, G.353, C.354, N.356 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.318, A:T.320, A:F.334 Hydrogen bonds: A:H.352, A:H.352, A:C.354, A:N.356 Salt bridges: A:H.336 pi-Stacking: A:W.340, A:W.340

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, P. et al., Non-classical transpeptidases yield insight into new antibacterials. Nat. Chem. Biol. (2017)

Release Date

2016-11-09

Peptides

L,D-transpeptidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

L,D-transpeptidase 2

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