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Zinc in PDB 6li2: Crystal Structure of GPR52 Ligand Free Form with Rubredoxin Fusion

Protein crystallography data

The structure of Crystal Structure of GPR52 Ligand Free Form with Rubredoxin Fusion, PDB code: 6li2 was solved by Z.P.Luo, X.Lin, F.Xu, G.W.Han, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.25 / 2.80
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 77.223, 113.229, 138.615, 90.00, 90.00, 90.00
R / Rfree (%) 24.1 / 26.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of GPR52 Ligand Free Form with Rubredoxin Fusion (pdb code 6li2). 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 GPR52 Ligand Free Form with Rubredoxin Fusion, PDB code: 6li2:

Zinc binding site 1 out of 1 in 6li2

Go back to Zinc Binding Sites List in 6li2
Zinc binding site 1 out of 1 in the Crystal Structure of GPR52 Ligand Free Form with Rubredoxin Fusion


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 GPR52 Ligand Free Form with Rubredoxin Fusion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1201

b:56.1
occ:1.00
SG A:CYS1006 2.3 73.9 1.0
SG A:CYS1042 2.3 63.0 1.0
SG A:CYS1009 2.3 66.1 1.0
SG A:CYS1039 2.4 59.6 1.0
CB A:CYS1006 3.2 65.3 1.0
CB A:CYS1042 3.5 71.6 1.0
CB A:CYS1039 3.6 55.2 1.0
CB A:CYS1009 3.6 73.0 1.0
N A:CYS1009 3.9 70.4 1.0
N A:CYS1042 4.0 59.5 1.0
CG2 A:VAL1044 4.1 76.5 1.0
CA A:CYS1042 4.3 68.1 1.0
CA A:CYS1009 4.3 78.3 1.0
CB A:TYR1011 4.5 66.7 1.0
CB A:VAL1008 4.5 67.3 1.0
CB A:LEU1041 4.6 74.5 1.0
CA A:CYS1006 4.6 54.3 1.0
N A:GLY1010 4.6 66.5 1.0
C A:LEU1041 4.7 63.2 1.0
C A:VAL1008 4.8 54.0 1.0
N A:TYR1011 4.8 67.5 1.0
C A:CYS1009 4.9 67.9 1.0
CZ A:PHE1049 4.9 74.7 1.0
CA A:CYS1039 4.9 57.9 1.0
C A:CYS1042 5.0 56.6 1.0
N A:VAL1008 5.0 53.6 1.0
CA A:VAL1008 5.0 56.3 1.0

Reference:

X.Lin, M.Y.Li, N.D.Wang, Y.R.Wu, Z.P.Luo, S.M.Guo, G.W.Han, X.Xie, S.B.Li, Y.Yue, X.H.Wei, Y.Chen, S.W.Zhao, J.Wu, M.Lei, F.Xu. Structural Basis of Ligand Recognition and Self-Activation of Orphan GPR52 Nature 2020.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-020-2019-0
Page generated: Wed Dec 16 12:15:04 2020

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