SMTL ID : 6nkb.1 (1 other biounit)

Crystal structure of Dethiobiotin Synthetase from Mycobacterium tuberculosis in complex with 2'-deoxycytidine diphosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x YYY: DEOXYCYTIDINE DIPHOSPHATE(Non-covalent)

YYY.1: 15 residues within 4Å: Chain A: G.19, V.20, G.21, K.22, T.23, V.24, E.115, G.176, S.177, L.203, P.204, G.206, A.207, A.208 Ligands: MG.2 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:A.208 Hydrogen bonds: A:G.19, A:V.20, A:G.21, A:K.22, A:T.23, A:T.23, A:V.24, A:G.176, A:G.206, A:A.207, A:A.208 Water bridges: A:T.23, A:T.23, A:E.115, A:E.115 Salt bridges: A:K.22 YYY.3: 14 residues within 4Å: Chain B: G.19, V.20, G.21, K.22, T.23, V.24, E.115, G.176, S.177, L.203, P.204, G.206, A.207, A.208 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:V.24, B:A.208 Hydrogen bonds: B:G.19, B:V.20, B:G.21, B:K.22, B:T.23, B:T.23, B:T.23, B:V.24, B:E.115, B:G.176, B:G.206, B:A.207, B:A.208 Water bridges: B:K.22, B:K.22, B:K.22, B:K.22, B:K.22, B:T.23 Salt bridges: B:K.22

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: T.23, K.44, D.56, E.115 Ligands: YYY.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.23, A:D.56, A:E.115, H2O.2, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thompson, A.P. et al., Crystal structure of Dethiobiotin Synthetase from Mycobacterium tuberculosis in complex with 2'-deoxycytidine diphosphate. To be published

Release Date

2020-01-15

Peptides

ATP-dependent dethiobiotin synthetase BioD: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ATP-dependent dethiobiotin synthetase BioD

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