SMTL ID : 7scf.1 (1 other biounit)

M. tb EgtD in complex with HD2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.67 Å

Oligo State

monomer

Ligands

1 x 8YI: (2S)-3-(1H-imidazol-5-yl)-2-(1H-pyrrol-1-yl)propanoic acid(Non-covalent)

8YI.1: 12 residues within 4Å: Chain A: Y.39, F.47, I.50, Y.56, G.161, T.163, N.166, Y.206, F.216, M.252, E.282, S.284 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.47, A:T.163 Hydrogen bonds: A:Y.56, A:Y.206, A:E.282 Salt bridges: A:K.286 pi-Stacking: A:Y.206, A:F.216

7 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 5 residues within 4Å: Chain A: L.26, Q.27, K.28, K.31, E.277 No protein-ligand interaction detected (PLIP) PEG.3: 3 residues within 4Å: Chain A: L.9, K.36, D.141 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.36, A:D.141 PEG.4: 3 residues within 4Å: Chain A: D.113, V.114, D.115 No protein-ligand interaction detected (PLIP) PEG.5: 6 residues within 4Å: Chain A: E.64, A.68, R.69, T.308, D.309, E.310 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.64, A:R.69, A:T.308 PEG.6: 3 residues within 4Å: Chain A: R.69, E.72, W.307 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.69 PEG.7: 5 residues within 4Å: Chain A: F.142, E.143, Q.174, F.175, A.178 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.143, A:Q.174, A:Q.174 PEG.8: 4 residues within 4Å: Chain A: S.75, A.76, R.305 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.305

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 3 residues within 4Å: Chain A: S.75, R.103 Ligands: PEG.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.75

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.10: 4 residues within 4Å: Chain A: A.214, R.218, Q.238, H.239 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.238, A:H.239 Salt bridges: A:R.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sudasinghe, T.D. et al., Inhibitors of Mycobacterium tuberculosis EgtD target both substrate binding sites to limit hercynine production. Sci Rep (2021)

Release Date

2021-12-01

Peptides

Histidine N-alpha-methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histidine N-alpha-methyltransferase

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