SMTL ID : 4a03.1

Crystal Structure of Mycobacterium tuberculosis DXR in complex with the antibiotic FR900098 and cofactor NADPH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: K.137, D.160, S.161, E.162, E.231 Ligands: F98.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.160, A:E.162, A:E.231 MN.5: 6 residues within 4Å: Chain B: K.137, D.160, S.161, E.162, E.231 Ligands: F98.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.160, B:E.162, B:E.231

2 x F98: 3-[ethanoyl(hydroxy)amino]propylphosphonic acid(Non-covalent)

F98.2: 18 residues within 4Å: Chain A: K.137, D.160, S.161, E.162, A.185, S.186, G.188, H.209, W.212, M.214, N.218, S.222, N.227, K.228, E.231, M.276 Ligands: MN.1, NDP.3 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.212 Hydrogen bonds: A:K.137, A:S.161, A:S.186, A:G.188, A:S.222, A:N.227, A:K.228, A:K.228 Water bridges: A:G.187, A:G.187, A:K.228 Salt bridges: A:D.160, A:E.162, A:E.231 F98.6: 18 residues within 4Å: Chain B: K.137, D.160, S.161, E.162, A.185, S.186, G.188, H.209, W.212, M.214, N.218, S.222, N.227, K.228, E.231, M.276 Ligands: MN.5, NDP.7 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:W.212 Hydrogen bonds: B:K.137, B:S.161, B:S.186, B:G.188, B:S.222, B:N.227, B:K.228, B:K.228 Water bridges: B:G.187, B:G.187, B:K.228 Salt bridges: B:D.160, B:E.162, B:E.231

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.3: 27 residues within 4Å: Chain A: G.28, S.29, T.30, G.31, S.32, I.33, A.55, G.56, G.57, A.58, H.59, A.78, A.112, L.113, V.114, L.117, A.135, N.136, K.137, E.138, D.160, M.214, G.215, P.216, N.218, M.276 Ligands: F98.2 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:I.33 Hydrogen bonds: A:G.28, A:T.30, A:T.30, A:G.31, A:S.32, A:S.32, A:S.32, A:I.33, A:G.56, A:G.57, A:A.58, A:H.59, A:L.113, A:V.114, A:N.136, A:K.137, A:G.215, A:N.218 Water bridges: A:G.34, A:Q.36, A:E.138, A:E.138 Salt bridges: A:H.59 NDP.7: 27 residues within 4Å: Chain B: G.28, S.29, T.30, G.31, S.32, I.33, A.55, G.56, G.57, A.58, H.59, A.78, A.112, L.113, V.114, L.117, A.135, N.136, K.137, E.138, D.160, M.214, G.215, P.216, N.218, M.276 Ligands: F98.6 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:I.33 Hydrogen bonds: B:G.28, B:T.30, B:T.30, B:G.31, B:S.32, B:S.32, B:S.32, B:I.33, B:G.56, B:G.57, B:A.58, B:H.59, B:L.113, B:N.136, B:K.137, B:G.215, B:N.218 Water bridges: B:G.34, B:Q.36, B:E.138, B:E.138, B:N.218 Salt bridges: B:H.59

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: T.73, N.74, P.90, Y.91 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.73 Water bridges: A:T.73, A:Y.91, A:Y.91

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bjorkelid, C. et al., Structural Studies on Mycobacterium Tuberculosis Dxr in Complex with the Antibiotic Fr-900098. Acta Crystallogr.,Sect.D (2012)

Release Date

2012-01-18

Peptides

1-DEOXY-D-XYLULOSE 5-PHOSPHATE REDUCTOISOMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

1-DEOXY-D-XYLULOSE 5-PHOSPHATE REDUCTOISOMERASE

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