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Zinc in PDB 1jyb: Crystal Structure of Rubrerythrin

Protein crystallography data

The structure of Crystal Structure of Rubrerythrin, PDB code: 1jyb was solved by W.R.Chang, M.Li, M.Y.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.20
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 49.670, 81.552, 99.754, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 23.1

Other elements in 1jyb:

The structure of Crystal Structure of Rubrerythrin also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Rubrerythrin (pdb code 1jyb). 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 Rubrerythrin, PDB code: 1jyb:

Zinc binding site 1 out of 1 in 1jyb

Go back to Zinc Binding Sites List in 1jyb
Zinc binding site 1 out of 1 in the Crystal Structure of Rubrerythrin


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 Rubrerythrin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn601

b:36.1
occ:1.00
OE2 A:GLU97 2.1 35.3 1.0
OE1 A:GLU53 2.2 26.1 1.0
OE1 A:GLU20 2.2 33.1 1.0
OE1 A:GLU128 2.3 30.5 1.0
OE2 A:GLU20 2.6 31.8 1.0
CD A:GLU20 2.8 24.0 1.0
CD A:GLU128 2.9 21.7 1.0
CD A:GLU97 3.1 30.2 1.0
CD A:GLU53 3.1 20.6 1.0
OE1 A:GLU97 3.2 40.0 1.0
OE2 A:GLU128 3.3 19.4 1.0
FE A:FE600 3.4 36.4 1.0
OE2 A:GLU53 3.6 19.4 1.0
CG A:GLU128 3.9 18.9 1.0
OE1 A:GLU94 4.2 27.9 1.0
CG A:GLU20 4.3 21.2 1.0
CG A:GLU53 4.3 18.5 1.0
OH A:TYR102 4.5 28.4 1.0
CG A:GLU97 4.5 29.6 1.0
ND1 A:HIS56 4.5 17.6 1.0
CE2 A:TYR102 4.8 26.9 1.0
OE2 A:GLU94 4.8 28.9 1.0
CD A:GLU94 4.9 28.5 1.0
CB A:GLU97 4.9 22.3 1.0

Reference:

M.Li, M.Y.Liu, J.Legall, L.L.Gui, J.Liao, T.Jiang, J.P.Zhang, D.C.Liang, W.R.Chang. Crystal Structure Studies on Rubrerythrin: Enzymatic Activity in Relation to the Zinc Movement. J.Biol.Inorg.Chem. V. 8 149 2003.
ISSN: ISSN 0949-8257
PubMed: 12459910
DOI: 10.1007/S00775-002-0400-0
Page generated: Wed Dec 16 02:54:13 2020

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