SMTL ID : 4die.1 (5 other biounits)

Crystal structure of a cytidylate kinase CmK from Mycobacterium abscessus bound to cytidine-5'-monophosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x C5P: CYTIDINE-5'-MONOPHOSPHATE(Non-covalent)

C5P.1: 12 residues within 4Å: Chain A: T.35, G.36, Y.39, R.40, R.91, V.99, S.100, S.103, R.109, G.130, R.131, D.132 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:R.131 Hydrogen bonds: A:T.35, A:R.91, A:S.100, A:S.103, A:R.109, A:R.109, A:R.131, A:D.132, A:D.132 Water bridges: A:G.36, A:E.129 Salt bridges: A:R.40 pi-Stacking: A:Y.39 C5P.3: 13 residues within 4Å: Chain B: T.35, G.36, Y.39, R.40, R.91, V.99, S.100, S.103, R.109, G.130, R.131, D.132, I.133 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:R.131 Hydrogen bonds: B:T.35, B:R.91, B:S.100, B:S.103, B:R.109, B:R.109, B:R.131, B:D.132, B:D.132 Water bridges: B:D.34, B:G.36, B:R.40 Salt bridges: B:R.40 pi-Stacking: B:Y.39

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

PO4.2: 6 residues within 4Å: Chain A: S.13, G.14, T.15, G.16, K.17, S.18 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.14, A:G.16, A:K.17, A:S.18 Water bridges: A:S.19 PO4.4: 6 residues within 4Å: Chain B: S.13, G.14, T.15, G.16, K.17, S.18 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.14, B:G.16, B:S.18

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baugh, L. et al., Increasing the structural coverage of tuberculosis drug targets. Tuberculosis (Edinb) (2015)

Release Date

2012-02-08

Peptides

Cytidylate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cytidylate kinase

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