Zinc in PDB 4xol: Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals.

The structure of Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals., PDB code: 4xol was solved by N.Coquelle, M.Peixiang, P.Schanda, J.P.Colletier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.98 / 2.91
Space group	P 43 3 2
Cell size a, b, c (Å), α, β, γ (°)	104.946, 104.946, 104.946, 90.00, 90.00, 90.00
R / Rfree (%)	23.7 / 26.9

The binding sites of Zinc atom in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals. (pdb code 4xol). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals., PDB code: 4xol:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:89.0 occ:0.94 NE2 A:HIS68 2.1 95.3 1.0 CE1 A:HIS68 3.0 0.6 1.0 CD2 A:HIS68 3.2 92.3 1.0 ND1 A:HIS68 4.1 1.0 1.0 CG A:HIS68 4.3 99.1 1.0 CG2 A:THR66 4.6 89.8 1.0 O A:THR66 4.9 89.1 1.0 CB A:THR66 4.9 89.2 1.0

Zinc binding site 2 out of 5 in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:69.3 occ:0.97 OD1 A:ASP21 2.3 61.5 1.0 OD2 A:ASP21 2.5 49.2 1.0 CG A:ASP21 2.7 54.5 1.0 O A:HOH403 2.8 23.8 1.0 OE2 A:GLU18 3.4 86.5 1.0 CE A:LYS29 4.0 69.2 1.0 NZ A:LYS29 4.1 70.5 1.0 CB A:ASP21 4.2 49.0 1.0 CD A:GLU18 4.4 74.5 1.0 CB A:GLU18 4.4 65.2 1.0 ND2 A:ASN25 4.4 65.5 1.0 N A:GLU18 4.5 55.5 1.0 CG A:GLU18 4.7 66.3 1.0 CA A:ASP21 4.9 57.4 1.0

Zinc binding site 3 out of 5 in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:82.5 occ:0.92 OD1 A:ASP32 1.9 72.5 1.0 CG A:ASP32 2.8 76.8 1.0 OD2 A:ASP32 3.2 94.8 1.0 O A:HOH404 3.5 31.2 1.0 CB A:ASP32 4.2 55.9 1.0

Zinc binding site 4 out of 5 in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn101 b:98.1 occ:1.00 O B:HOH205 2.4 23.8 1.0 OD1 B:ASP21 2.4 83.0 1.0 OD2 B:ASP21 2.8 79.3 1.0 CG B:ASP21 3.0 78.5 1.0 O B:HOH206 3.4 31.2 0.3 OE2 B:GLU18 3.4 96.7 1.0 CB B:ASP21 4.5 66.4 1.0 CD B:GLU18 4.5 89.7 1.0 CE B:LYS29 4.5 79.7 1.0 CB B:GLU18 4.6 76.3 1.0 ND2 B:ASN25 4.7 75.0 1.0 NZ B:LYS29 4.8 76.6 1.0 N B:GLU18 4.8 77.2 1.0 CG B:GLU18 4.8 87.6 1.0

Zinc binding site 5 out of 5 in the Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Observing the Overall Rocking Motion of A Protein in A Crystal - Cubic Ubiquitin Crystals. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn102 b:99.0 occ:0.97 OD2 B:ASP32 2.0 0.2 1.0 O B:HOH204 2.4 31.2 1.0 CG B:ASP32 2.9 96.2 1.0 OD1 B:ASP32 3.3 0.2 1.0 CB B:ASP32 4.3 88.7 1.0

P.Ma, Y.Xue, N.Coquelle, J.D.Haller, T.Yuwen, I.Ayala, O.Mikhailovskii, D.Willbold, J.P.Colletier, N.R.Skrynnikov, P.Schanda. Observing the Overall Rocking Motion of A Protein in A Crystal. Nat Commun V. 6 8361 2015.
ISSN: ESSN 2041-1723
PubMed: 26436197
DOI: 10.1038/NCOMMS9361