SMTL ID : 4ws2.1

Crystal structure of Mycobacterium tuberculosis uracil-DNA glycosylase in complex with 6-aminouracil, Form I

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.13 Å

Oligo State

monomer

Ligands

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 7 residues within 4Å: Chain A: Y.81, P.82, T.83, P.102, R.103, S.104 Ligands: 6UA.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.82 Hydrogen bonds: A:R.103, A:R.103, A:S.104 Water bridges: A:T.83, A:T.83, A:H.86 Salt bridges: A:R.103 CIT.2: 5 residues within 4Å: Chain A: Q.78, G.180, R.181, L.206, R.210 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.78, A:R.181 Water bridges: A:D.182, A:H.202, A:R.210

1 x 6UA: 6-aminopyrimidine-2,4(3H,5H)-dione(Non-covalent)

6UA.3: 11 residues within 4Å: Chain A: G.77, Q.78, D.79, P.80, Y.81, S.91, F.92, S.104, N.138, H.202 Ligands: CIT.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.78, A:D.79, A:F.92, A:S.104, A:S.104, A:N.138, A:N.138 Water bridges: A:Y.81 pi-Stacking: A:Y.81, A:F.92

5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 2 residues within 4Å: Chain A: G.50, R.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.52 DMS.5: 3 residues within 4Å: Chain A: I.47, R.52, Y.53 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.53 pi-Cation interactions: A:Y.53 DMS.6: 2 residues within 4Å: Chain A: T.65, F.66 No protein-ligand interaction detected (PLIP) DMS.7: 3 residues within 4Å: Chain A: P.100, W.101, A.106 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.101 DMS.8: 5 residues within 4Å: Chain A: E.19, L.20, V.21, E.22, T.65 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 3 residues within 4Å: Chain A: R.51, R.52, R.144 Ligand excluded by PLIP

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.10: 1 residues within 4Å: Chain A: Q.131 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arif, S.M. et al., Structural plasticity in Mycobacterium tuberculosis uracil-DNA glycosylase (MtUng) and its functional implications. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-07-15

Peptides

Uracil-DNA glycosylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Uracil-DNA glycosylase

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