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Zinc in PDB 1bt0: Structure of Ubiquitin-Like Protein, RUB1

Protein crystallography data

The structure of Structure of Ubiquitin-Like Protein, RUB1, PDB code: 1bt0 was solved by W.P.Delacruz, A.J.Fisher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 28.600, 35.600, 37.900, 90.00, 102.80, 90.00
R / Rfree (%) 18 / 24.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Ubiquitin-Like Protein, RUB1 (pdb code 1bt0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Ubiquitin-Like Protein, RUB1, PDB code: 1bt0:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1bt0

Go back to Zinc Binding Sites List in 1bt0
Zinc binding site 1 out of 2 in the Structure of Ubiquitin-Like Protein, RUB1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Ubiquitin-Like Protein, RUB1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:16.9
occ:1.00
OD1 A:ASP16 1.9 10.7 1.0
N A:MET1 2.1 19.0 1.0
CG A:ASP16 2.9 17.2 1.0
CA A:MET1 2.9 19.1 1.0
OD2 A:ASP16 3.1 29.8 1.0
C A:MET1 3.3 15.8 1.0
O A:HOH106 3.6 17.9 1.0
O A:MET1 3.8 9.8 1.0
N A:LEU2 3.8 10.1 1.0
O A:ILE17 3.9 18.0 1.0
CB A:ASP16 4.2 10.5 1.0
CB A:MET1 4.3 23.6 1.0
O A:HOH126 4.4 29.1 1.0
CA A:ASP16 4.6 7.3 1.0
O A:HOH124 4.6 38.6 1.0
N A:ILE17 4.6 18.8 1.0
CA A:LEU2 4.8 10.0 1.0
C A:ASP16 4.8 11.1 1.0
C A:ILE17 4.9 17.9 1.0

Zinc binding site 2 out of 2 in 1bt0

Go back to Zinc Binding Sites List in 1bt0
Zinc binding site 2 out of 2 in the Structure of Ubiquitin-Like Protein, RUB1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Ubiquitin-Like Protein, RUB1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:28.2
occ:1.00
O A:HOH141 1.7 30.6 1.0
O A:HOH153 1.9 24.8 1.0
NE2 A:HIS68 2.1 17.5 1.0
CE1 A:HIS68 2.9 9.5 1.0
CD2 A:HIS68 3.3 17.1 1.0
O A:HOH122 3.8 21.6 1.0
NZ A:LYS6 3.9 28.1 1.0
O A:HOH167 4.0 49.5 1.0
ND1 A:HIS68 4.1 13.1 1.0
CD A:LYS6 4.2 69.5 1.0
CG A:HIS68 4.3 14.4 1.0
CE A:LYS6 4.5 31.9 1.0

Reference:

C.Rao-Naik, W.Delacruz, J.M.Laplaza, S.Tan, J.Callis, A.J.Fisher. The Rub Family of Ubiquitin-Like Proteins. Crystal Structure of Arabidopsis RUB1 and Expression of Multiple Rubs in Arabidopsis. J.Biol.Chem. V. 273 34976 1998.
ISSN: ISSN 0021-9258
PubMed: 9857029
DOI: 10.1074/JBC.273.52.34976
Page generated: Wed Dec 16 02:46:00 2020

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