SMTL ID : 5iw8.1

Mycobacterium tuberculosis CysM in complex with the Urea-scaffold inhibitor 4 [5-(3-([1,1'-Biphenyl]-3-yl)ureido)-2-hydroxybenzoic acid]

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-dimer

Ligands

2 x 6EC: 5-{[([1,1'-biphenyl]-3-yl)carbamoyl]amino}-2-hydroxybenzoic acid(Non-covalent)

6EC.1: 18 residues within 4Å: Chain A: K.54, G.83, N.84, T.85, Q.154, Y.155, G.185, L.186, G.187, A.211, E.212, P.213, V.245, A.250, I.267, S.268, A.271 Ligands: PLP.3 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:P.213, A:A.250, A:I.267, A:A.271 Hydrogen bonds: A:N.84, A:T.85, A:T.85, A:T.85, A:T.85, A:Q.154 Salt bridges: A:K.54 pi-Cation interactions: A:K.54 6EC.4: 22 residues within 4Å: Chain B: K.54, S.82, G.83, N.84, T.85, R.112, Q.154, Y.155, G.185, G.187, T.188, A.211, E.212, P.213, L.222, N.224, V.245, A.250, I.267, S.268, A.271 Ligands: PLP.5 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:T.188, B:P.213, B:L.222, B:N.224, B:A.250, B:I.267, B:A.271 Hydrogen bonds: B:T.81, B:N.84, B:T.85, B:T.85, B:T.85, B:T.85, B:Q.154, B:Y.155, B:L.222, B:L.222 Water bridges: B:R.112 Salt bridges: B:K.54, B:R.112 pi-Cation interactions: B:K.54

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: A.143, N.146, P.147, W.149 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.149

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.3: 13 residues within 4Å: Chain A: K.54, N.84, G.185, L.186, G.187, T.188, T.189, G.190, T.191, S.268, A.297, D.298 Ligands: 6EC.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:K.54, A:A.297 Hydrogen bonds: A:N.84, A:G.187, A:T.188, A:T.189, A:G.190, A:T.191, A:T.191, A:S.268 Water bridges: A:H.164, A:T.188, A:L.192 Salt bridges: A:K.54 PLP.5: 14 residues within 4Å: Chain B: K.54, N.84, G.185, L.186, G.187, T.188, T.189, G.190, T.191, S.268, A.297, D.298, Y.303 Ligands: 6EC.4 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:K.54, B:A.297 Hydrogen bonds: B:N.84, B:G.187, B:T.188, B:T.189, B:G.190, B:T.191, B:T.191, B:S.268 Water bridges: B:N.160, B:H.164, B:L.192 Salt bridges: B:K.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brunner, K. et al., Inhibitors of the Cysteine Synthase CysM with Antibacterial Potency against Dormant Mycobacterium tuberculosis. J.Med.Chem. (2016)

Release Date

2016-08-17

Peptides

O-phosphoserine sulfhydrylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

O-phosphoserine sulfhydrylase

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