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Zinc in PDB 6bv5: Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone

Enzymatic activity of Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone

All present enzymatic activity of Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone:
3.1.26.5;

Protein crystallography data

The structure of Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone, PDB code: 6bv5 was solved by A.Karasik, N.Wu, C.A.Fierke, M.Koutmos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 87.08 / 1.79
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 41.616, 110.838, 140.743, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 22.3

Other elements in 6bv5:

The structure of Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone also contains other interesting chemical elements:

Manganese (Mn) 1 atom
Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone (pdb code 6bv5). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone, PDB code: 6bv5:

Zinc binding site 1 out of 1 in 6bv5

Go back to Zinc Binding Sites List in 6bv5
Zinc binding site 1 out of 1 in the Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Proteinaceous Rnase P 1 (PRORP1) From A. Thaliana After 45-Minute Soak with Juglone within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn603

b:39.7
occ:1.00
 NE2 A:HIS548 2.1 33.2 1.0
SG A:CYS347 2.2 45.5 1.0
SG A:CYS565 2.3 41.7 1.0
SG A:CYS344 2.3 40.9 1.0
CD2 A:HIS548 3.0 33.3 1.0
HB3 A:CYS344 3.0 40.0 1.0
H A:CYS347 3.0 48.5 1.0
HB2 A:CYS565 3.1 35.2 1.0
HB3 A:CYS347 3.1 46.1 1.0
CB A:CYS344 3.1 40.0 1.0
CE1 A:HIS548 3.1 35.0 1.0
HD2 A:HIS548 3.1 33.3 1.0
HB2 A:CYS344 3.2 40.0 1.0
CB A:CYS347 3.2 46.1 1.0
CB A:CYS565 3.3 35.2 1.0
HE1 A:HIS548 3.3 35.0 1.0
HB3 A:CYS346 3.6 60.5 1.0
N A:CYS347 3.7 48.5 1.0
HB3 A:GLU349 3.9 49.5 1.0
HA A:CYS565 4.0 35.5 1.0
CA A:CYS347 4.0 44.9 1.0
HB2 A:CYS347 4.0 46.1 1.0
HB3 A:CYS565 4.0 35.2 1.0
CG A:HIS548 4.2 32.2 1.0
ND1 A:HIS548 4.2 34.2 1.0
H A:GLU349 4.2 45.7 1.0
HE1 A:MET338 4.3 40.0 1.0
CA A:CYS565 4.3 35.5 1.0
HG21 A:THR546 4.3 40.5 1.0
HG21 A:THR336 4.4 41.8 1.0
CB A:CYS346 4.6 60.5 1.0
H A:CYS346 4.6 55.2 1.0
HB2 A:GLU349 4.6 49.5 1.0
HG22 A:THR546 4.6 40.5 1.0
CA A:CYS344 4.6 40.3 1.0
H A:LYS348 4.7 48.1 1.0
HD2 A:LYS567 4.7 48.2 1.0
C A:CYS346 4.7 56.6 1.0
CB A:GLU349 4.7 49.5 1.0
C A:CYS347 4.7 47.2 1.0
CG2 A:THR546 4.8 40.5 1.0
HA A:CYS347 4.8 44.9 1.0
HG23 A:THR546 4.9 40.5 1.0
HB2 A:LYS567 4.9 41.7 1.0
N A:LYS348 4.9 48.1 1.0
HA A:CYS344 4.9 40.3 1.0
HD1 A:HIS548 5.0 34.2 1.0

Reference:

N.Wu, A.Karasik, L.Muehlbauer, M.Koutmos, C.A.Fierke. Inhibition of Protein-Only Rnase P with Gambogic Acid and Juglone To Be Published.
Page generated: Thu Aug 21 12:51:25 2025

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