SMTL ID : 6uw5.1

The crystal structure of FbiA from Mycobacterium smegmatis, GDP and Fo bound form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 20 residues within 4Å: Chain A: G.8, G.9, V.10, G.11, G.12, D.57, P.209, S.210, N.211, S.215, S.240, P.241, I.243, R.249, A.252, L.304, L.305, M.306 Ligands: FO1.2, CA.5 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.8, A:G.9, A:V.10, A:G.11, A:G.12, A:N.211, A:S.215, A:S.215, A:S.240, A:L.304, A:M.306 GDP.6: 15 residues within 4Å: Chain B: G.8, G.9, V.10, G.11, G.12, P.209, S.210, N.211, S.215, S.240, P.241, I.243, L.304, L.305, M.306 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:V.10, B:G.11, B:G.12, B:N.211, B:S.215, B:S.215, B:S.240, B:L.304, B:M.306

1 x FO1: 1-deoxy-1-(8-hydroxy-2,4-dioxo-3,4-dihydropyrimido[4,5-b]quinolin-10(2H)-yl)-D-ribitol(Non-covalent)

FO1.2: 18 residues within 4Å: Chain A: D.45, I.54, P.56, D.57, D.59, W.75, F.98, G.99, L.100, D.104, H.108, F.165, Q.166, W.169, V.170, R.173 Ligands: GDP.1, CA.5 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.54, A:P.56, A:F.98, A:F.98, A:F.98 Hydrogen bonds: A:G.99, A:Q.166, A:R.173, A:R.173 Water bridges: A:D.59, A:D.59 pi-Stacking: A:W.75, A:W.75

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: E.144, Q.188 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.144, A:E.144, A:Q.188, H2O.2 CA.4: 1 residues within 4Å: Chain A: Q.221 No protein-ligand interaction detected (PLIP) CA.5: 5 residues within 4Å: Chain A: D.45, D.57, S.215 Ligands: GDP.1, FO1.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.45, A:D.57, A:D.57, H2O.1 CA.7: 1 residues within 4Å: Chain B: G.245 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:G.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grinter, R. et al., Cellular and Structural Basis of Synthesis of the Unique Intermediate Dehydro-F420-0 in Mycobacteria. mSystems (2020)

Release Date

2020-05-13

Peptides

Phosphoenolpyruvate transferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Phosphoenolpyruvate transferase

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