SMTL ID : 8f8f.1

The structure of Rv2173 from M. tuberculosis (APO form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: F.72, V.73, G.76, E.109, H.112, A.113 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.76, A:E.109, A:E.109 Water bridges: A:G.75 GOL.2: 9 residues within 4Å: Chain A: D.119, D.123, Q.205, D.208, I.209, E.212, K.229, K.295 Ligands: GOL.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.119, A:Q.205, A:E.212, A:K.229, A:K.295, A:K.295 Water bridges: A:I.209 GOL.3: 7 residues within 4Å: Chain A: R.81, H.112, L.116, D.119, Q.205, K.229, Y.233 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.81, A:D.119, A:D.119, A:Q.205 GOL.4: 8 residues within 4Å: Chain A: D.208, V.225, K.229, Q.268, K.295, R.296, T.297 Ligands: GOL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.229, A:K.295, A:K.295 Water bridges: A:R.296 GOL.6: 6 residues within 4Å: Chain B: G.64, L.65, D.68, R.137, Y.138, L.141 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.137 Water bridges: B:G.64 GOL.7: 5 residues within 4Å: Chain B: F.72, V.73, E.109, H.112, A.113 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:F.72, B:E.109 Water bridges: B:R.79 GOL.8: 7 residues within 4Å: Chain B: R.81, H.112, A.115, D.119, V.201, Q.205, Y.233 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.81, B:Q.205 Water bridges: B:T.234 GOL.9: 8 residues within 4Å: Chain B: D.119, I.122, D.123, Q.205, D.208, E.212, K.229, K.295 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.123, B:Q.205, B:Q.205, B:E.212, B:K.229 GOL.10: 6 residues within 4Å: Chain B: L.80, T.230, T.234, F.267, D.271, A.382 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.234, B:T.234, B:D.271, B:A.382

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 3 residues within 4Å: Chain A: S.175 Chain B: D.171, S.175 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:S.175, A:S.175, H2O.1, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Titterington, J.A. et al., Structures of Mycobacterium tuberculosis isoprenyl diphosphate synthase Rv2173 in substrate-bound forms. Acta Crystallogr.,Sect.F (2025)

Release Date

2023-11-29

Peptides

(2E,6E)-farnesyl diphosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

(2E,6E)-farnesyl diphosphate synthase

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