Zinc in PDB 7y3s: Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1

Enzymatic activity of Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1

All present enzymatic activity of Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1:
6.1.1.15; 6.1.1.17;

Protein crystallography data

The structure of Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1, PDB code: 7y3s was solved by S.Kim, I.Yoon, J.Son, S.Park, K.Y.Hwang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.25 / 2.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 71.897, 92.017, 87.326, 90, 108.16, 90
R / Rfree (%) 20.3 / 25

Other elements in 7y3s:

The structure of Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1 also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms
Bromine (Br) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1 (pdb code 7y3s). 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 Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1, PDB code: 7y3s:

Zinc binding site 1 out of 1 in 7y3s

Go back to Zinc Binding Sites List in 7y3s
Zinc binding site 1 out of 1 in the Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl- Trna Synthetase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2603

b:91.2
occ:1.00
 SG B:CYS1495 2.3 61.9 1.0
SG B:CYS1453 2.3 126.8 1.0
SG B:CYS1448 2.3 101.3 1.0
SG B:CYS1497 2.3 93.9 1.0
CB B:CYS1497 3.1 78.4 1.0
CB B:CYS1453 3.2 67.8 1.0
CB B:CYS1495 3.2 65.6 1.0
CB B:CYS1448 3.3 58.4 1.0
N B:CYS1497 3.9 63.8 1.0
N B:CYS1448 3.9 50.5 1.0
CA B:CYS1497 4.1 68.5 1.0
CA B:CYS1448 4.2 55.6 1.0
CD1 B:PHE1447 4.4 55.2 1.0
CE1 B:PHE1447 4.4 60.6 1.0
CA B:CYS1453 4.6 51.9 1.0
CA B:CYS1495 4.6 62.6 1.0
N B:VAL1496 4.7 64.5 1.0
C B:CYS1495 4.9 61.2 1.0

Reference:

S.Kim, K.Hwang, I.Yoon. Controlling Fibrosis Using Compound with Novel Binding Mode to Prolyl-Trna Synthetase 1 To Be Published.
Page generated: Wed Oct 30 15:30:07 2024

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