Atomistry » Zinc » PDB 2iux-2ja7 » 2j9u
Atomistry »
  Zinc »
    PDB 2iux-2ja7 »
      2j9u »

Zinc in PDB 2j9u: 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II

Protein crystallography data

The structure of 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II, PDB code: 2j9u was solved by D.J.Gill, H.L.Teo, J.Sun, O.Perisic, D.B.Veprintsev, S.D.Emr, R.L.Williams, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.03 / 2.00
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 66.645, 99.961, 115.619, 90.00, 90.00, 90.00
R / Rfree (%) 22.3 / 26

Zinc Binding Sites:

The binding sites of Zinc atom in the 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II (pdb code 2j9u). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II, PDB code: 2j9u:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2j9u

Go back to Zinc Binding Sites List in 2j9u
Zinc binding site 1 out of 2 in the 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1162

b:19.1
occ:1.00
SG B:CYS123 2.3 17.0 1.0
SG B:CYS146 2.3 23.9 1.0
SG B:CYS143 2.4 22.7 1.0
SG B:CYS120 2.4 23.9 1.0
CB B:CYS120 3.1 24.6 1.0
CB B:CYS143 3.2 25.9 1.0
CB B:CYS146 3.4 24.0 1.0
CB B:CYS123 3.4 21.7 1.0
N B:CYS146 3.8 24.1 1.0
N B:CYS123 3.9 21.7 1.0
CA B:CYS146 4.1 23.9 1.0
CA B:CYS123 4.2 21.9 1.0
CB B:ILE122 4.5 21.2 1.0
CA B:CYS120 4.6 25.0 1.0
CA B:CYS143 4.7 26.2 1.0
CB B:ASN145 4.7 25.2 1.0
C B:ASN145 4.8 24.9 1.0
ND2 B:ASN145 4.8 23.2 1.0
O B:HOH2004 4.8 17.2 1.0
C B:CYS146 4.9 23.7 1.0
C B:CYS123 4.9 23.6 1.0
C B:ILE122 4.9 21.4 1.0
N B:GLY147 4.9 24.0 1.0
N B:MET124 4.9 25.0 1.0

Zinc binding site 2 out of 2 in 2j9u

Go back to Zinc Binding Sites List in 2j9u
Zinc binding site 2 out of 2 in the 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 2 Angstrom X-Ray Structure of the Yeast Escrt-I VPS28 C-Terminus in Complex with the Nzf-N Domain From Escrt-II within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1162

b:19.5
occ:1.00
SG D:CYS123 2.3 21.6 1.0
SG D:CYS120 2.3 23.1 1.0
SG D:CYS146 2.4 21.6 1.0
SG D:CYS143 2.4 24.4 1.0
CB D:CYS120 3.2 24.7 1.0
CB D:CYS143 3.2 26.1 1.0
CB D:CYS146 3.5 22.9 1.0
CB D:CYS123 3.5 22.8 1.0
N D:CYS146 3.8 23.9 1.0
N D:CYS123 3.8 22.1 1.0
CA D:CYS146 4.2 23.2 1.0
CA D:CYS123 4.2 22.5 1.0
CB D:ILE122 4.5 21.8 1.0
CA D:CYS120 4.6 25.1 1.0
CB D:ASN145 4.7 24.8 1.0
CA D:CYS143 4.7 26.9 1.0
C D:ILE122 4.8 22.3 1.0
O D:HOH2003 4.9 15.6 1.0
C D:ASN145 4.9 24.8 1.0
C D:CYS123 4.9 23.8 1.0
ND2 D:ASN145 4.9 23.1 1.0
N D:MET124 5.0 24.8 1.0
CB D:VAL125 5.0 29.2 1.0
C D:CYS146 5.0 23.3 1.0
N D:GLY147 5.0 22.9 1.0

Reference:

D.J.Gill, H.L.Teo, J.Sun, O.Perisic, D.B.Veprintsev, S.D.Emr, R.L.Williams. Structural Insight Into the Escrt-I/-II Link and Its Role in Mvb Trafficking. Embo J. V. 26 600 2007.
ISSN: ISSN 0261-4189
PubMed: 17215868
DOI: 10.1038/SJ.EMBOJ.7601501
Page generated: Wed Dec 16 03:31:41 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy