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Zinc in PDB 5v58: Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa

Enzymatic activity of Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa

All present enzymatic activity of Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa:
6.1.1.15; 6.1.1.17;

Protein crystallography data

The structure of Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa, PDB code: 5v58 was solved by H.Zhou, Y.Song, P.Schimmel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.54 / 2.59
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 86.766, 86.766, 108.773, 90.00, 90.00, 120.00
R / Rfree (%) 22.7 / 27.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa (pdb code 5v58). 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 Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa, PDB code: 5v58:

Zinc binding site 1 out of 1 in 5v58

Go back to Zinc Binding Sites List in 5v58
Zinc binding site 1 out of 1 in the Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Human Prolyl-Trna Synthetase in Complex with Aze- Sa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1602

b:93.0
occ:1.00
SG A:CYS1448 2.6 74.1 1.0
SG A:CYS1495 2.6 84.5 1.0
OD1 A:ASN1500 2.9 93.8 1.0
CB A:CYS1495 3.2 82.2 1.0
CB A:CYS1448 3.5 72.5 1.0
SG A:CYS1453 3.6 74.5 1.0
CB A:CYS1497 3.7 82.7 1.0
CB A:CYS1453 3.9 71.9 1.0
CG A:ASN1500 3.9 92.0 1.0
ND2 A:ASN1500 4.3 92.8 1.0
SG A:CYS1497 4.4 81.9 1.0
N A:CYS1448 4.5 69.8 1.0
O A:ASN1500 4.5 88.5 1.0
N A:CYS1497 4.6 84.2 1.0
CA A:CYS1448 4.6 72.6 1.0
CA A:CYS1497 4.6 84.1 1.0
N A:ASN1500 4.7 90.8 1.0
CA A:CYS1495 4.7 81.5 1.0
N A:GLY1498 4.9 87.6 1.0
N A:LYS1499 5.0 90.7 1.0

Reference:

Y.Song, H.Zhou, M.N.Vo, Y.Shi, M.H.Nawaz, O.Vargas-Rodriguez, J.K.Diedrich, J.R.Yates, S.Kishi, K.Musier-Forsyth, P.Schimmel. Double Mimicry Evades Trna Synthetase Editing By Toxic Vegetable-Sourced Non-Proteinogenic Amino Acid. Nat Commun V. 8 2281 2017.
ISSN: ESSN 2041-1723
PubMed: 29273753
DOI: 10.1038/S41467-017-02201-Z
Page generated: Wed Dec 16 11:07:45 2020

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