SMTL ID : 7kl8.1

Structure of F420 binding protein Rv1558 from Mycobacterium tuberculosis with F420 bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.47 Å

Oligo State

homo-dimer

Ligands

1 x 6J4: COENZYME F420-3(Non-covalent)

6J4.1: 24 residues within 4Å: Chain A: W.9, S.10, Q.13, L.28, G.40, A.41, K.42, T.43, R.47, T.49, P.50, L.51, M.52, V.63, A.64, S.65, L.66, P.73, V.74, W.75, H.77, N.78, Y.120 Ligands: SO4.4 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.28, A:A.41, A:P.50, A:L.51, A:V.74 Hydrogen bonds: A:W.9, A:S.10, A:K.42, A:T.43, A:R.47, A:M.52, A:V.63, A:S.65, A:V.74, A:W.75, A:N.78, A:Y.120 Salt bridges: A:K.42, A:R.47, A:R.47, A:H.77

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: R.84, R.140 Chain B: K.45, R.47 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Salt bridges: B:K.45, B:R.47, A:R.84, A:R.140 SO4.3: 4 residues within 4Å: Chain A: K.71, N.72, H.77, R.129 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.72, A:N.72 Salt bridges: A:K.71, A:H.77, A:R.129 SO4.4: 4 residues within 4Å: Chain A: K.45, R.47 Chain B: R.84 Ligands: 6J4.1 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Salt bridges: A:K.45, A:R.47, B:R.84 SO4.5: 4 residues within 4Å: Chain A: P.70, T.127, D.128, R.129 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.127, A:D.128 SO4.7: 3 residues within 4Å: Chain B: K.71, N.72, H.77 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.72, B:N.72 Salt bridges: B:H.77 SO4.8: 3 residues within 4Å: Chain B: P.70, T.127, D.128 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.127, B:D.128

1 x F42: COENZYME F420(Non-covalent)

F42.6: 22 residues within 4Å: Chain B: L.7, S.10, Q.13, L.28, G.40, A.41, K.42, T.43, R.47, T.49, P.50, L.51, M.52, V.63, A.64, S.65, L.66, P.73, V.74, W.75, N.78, Y.120 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:L.28, B:L.51 Hydrogen bonds: B:S.10, B:S.10, B:R.11, B:Q.13, B:K.42, B:T.43, B:R.47, B:P.50, B:M.52, B:V.63, B:S.65, B:L.66, B:V.74, B:W.75, B:N.78 Salt bridges: B:R.47, B:R.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aragaw, W.W. et al., Potency boost of a Mycobacterium tuberculosis dihydrofolate reductase inhibitor by multienzyme F 420 H 2 -dependent reduction. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2021-03-24

Peptides

Deazaflavin-dependent nitroreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Deazaflavin-dependent nitroreductase