SMTL ID : 7few.1

Pseudomonas aeruginosa Virulence Factor Regulator with cAMP ligand and auranofin gold analogues

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-mer

Ligands

2 x CMP: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE(Non-covalent)

CMP.1: 16 residues within 4Å: Chain A: I.50, I.62, F.71, G.72, E.73, L.74, G.75, R.86, S.87, A.88, V.90, Y.103, R.127, T.131 Chain B: L.128, T.132 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.72, A:E.73, A:E.73, A:L.74, A:G.75, A:S.87, A:S.87, A:Y.103, A:R.127, A:T.131, B:T.132 Water bridges: A:T.131, A:T.131 Salt bridges: A:R.86 CMP.6: 18 residues within 4Å: Chain A: L.128, T.132 Chain B: I.31, C.37, I.50, I.62, F.71, G.72, E.73, L.74, G.75, R.86, S.87, A.88, V.90, Y.103, R.127, T.131 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:G.72, B:E.73, B:E.73, B:L.74, B:G.75, B:S.87, B:Y.103, B:R.127, B:T.131, B:T.131 Water bridges: B:E.85, B:S.87 Salt bridges: B:R.86

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

SO4.2: 2 residues within 4Å: Chain A: T.29, Y.32 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.29, A:T.29, A:Y.32 Water bridges: A:R.91, A:R.91 SO4.3: 4 residues within 4Å: Chain A: T.172, R.173, Q.174, R.184 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.172, A:R.173, A:Q.174 Salt bridges: A:R.173, A:R.184 SO4.4: 3 residues within 4Å: Chain A: A.26, V.94, E.95 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.95 SO4.5: 5 residues within 4Å: Chain A: D.126, R.129, K.130, R.133 Chain B: Q.84 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Q.84, A:D.126 Salt bridges: A:R.129, A:K.130, A:R.133 SO4.7: 4 residues within 4Å: Chain B: T.172, R.173, N.174, R.184 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.173, B:R.173, B:N.174 Water bridges: B:N.174 Salt bridges: B:R.184 SO4.8: 2 residues within 4Å: Chain B: H.18, K.105 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.18, B:K.105 SO4.9: 4 residues within 4Å: Chain B: H.20, I.101, S.102, K.105 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.102, B:S.102 Water bridges: B:H.18, B:H.20 Salt bridges: B:H.20, B:K.105 SO4.10: 3 residues within 4Å: Chain B: R.21, R.22, R.23 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.23 Salt bridges: B:R.22 SO4.11: 4 residues within 4Å: Chain B: S.183, E.185, M.186, R.189 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.183, B:E.185, B:M.186 Salt bridges: B:R.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Y. et al., Structural basis for the inhibitory mechanism of auranofin and gold(I) analogues against Pseudomonas aeruginosa global virulence factor regulator Vfr. Comput Struct Biotechnol J (2023)

Release Date

2022-07-27

Peptides

cAMP-activated global transcriptional regulator Vfr: A
cAMP-activated global transcriptional regulator Vfr: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

cAMP-activated global transcriptional regulator Vfr

cAMP-activated global transcriptional regulator Vfr

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