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Mercury in PDB 6l8o: Crystal Structure of the K. Lactis RAD5 (Hg-Derivative)

Protein crystallography data

The structure of Crystal Structure of the K. Lactis RAD5 (Hg-Derivative), PDB code: 6l8o was solved by M.Shen, S.Xiang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.91 / 3.30
Space group P 62 2 2
Cell size a, b, c (Å), α, β, γ (°) 187.635, 187.635, 197.544, 90.00, 90.00, 120.00
R / Rfree (%) 19.1 / 22.9

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of the K. Lactis RAD5 (Hg-Derivative) (pdb code 6l8o). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 3 binding sites of Mercury where determined in the Crystal Structure of the K. Lactis RAD5 (Hg-Derivative), PDB code: 6l8o:
Jump to Mercury binding site number: 1; 2; 3;

Mercury binding site 1 out of 3 in 6l8o

Go back to Mercury Binding Sites List in 6l8o
Mercury binding site 1 out of 3 in the Crystal Structure of the K. Lactis RAD5 (Hg-Derivative)


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Crystal Structure of the K. Lactis RAD5 (Hg-Derivative) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1201

b:0.8
occ:1.00
SG A:CYS861 2.6 1.0 1.0
SG A:CYS858 2.7 0.6 1.0
SG A:CYS885 2.7 0.1 1.0
SG A:CYS882 2.8 0.5 1.0
CB A:CYS882 2.8 1.0 1.0
CB A:CYS885 3.2 0.9 1.0
CB A:CYS858 3.6 0.3 1.0
N A:CYS882 3.8 0.7 1.0
CA A:CYS882 3.9 0.5 1.0
CB A:CYS861 3.9 0.6 1.0
N A:CYS861 4.4 0.1 1.0
CA A:CYS885 4.5 0.2 1.0
O A:CYS882 4.6 0.4 1.0
C A:CYS882 4.7 0.0 1.0
N A:CYS885 4.8 0.7 1.0
CA A:CYS861 4.8 0.7 1.0
OG1 A:THR863 4.9 0.5 1.0

Mercury binding site 2 out of 3 in 6l8o

Go back to Mercury Binding Sites List in 6l8o
Mercury binding site 2 out of 3 in the Crystal Structure of the K. Lactis RAD5 (Hg-Derivative)


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Crystal Structure of the K. Lactis RAD5 (Hg-Derivative) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1202

b:0.4
occ:1.00
ND1 A:HIS879 2.3 0.9 1.0
SG A:CYS877 2.6 86.7 1.0
SG A:CYS902 2.6 0.8 1.0
SG A:CYS905 2.6 92.4 1.0
CE1 A:HIS879 2.9 96.5 1.0
CB A:CYS902 3.2 0.0 1.0
CG A:HIS879 3.3 85.7 1.0
CB A:CYS905 3.8 95.1 1.0
CB A:HIS879 3.9 84.8 1.0
N A:CYS905 3.9 0.7 1.0
CB A:CYS877 4.0 0.2 1.0
NE2 A:HIS879 4.0 87.8 1.0
CD2 A:HIS879 4.2 86.6 1.0
OG1 A:THR875 4.2 84.0 1.0
CB A:TYR904 4.3 92.2 1.0
CA A:CYS905 4.4 0.6 1.0
CA A:CYS902 4.6 91.6 1.0
C A:TYR904 4.8 0.9 1.0
N A:TYR904 4.9 94.0 1.0
CA A:TYR904 4.9 97.6 1.0
CD2 A:TYR904 4.9 99.8 1.0
O A:CYS877 5.0 84.0 1.0

Mercury binding site 3 out of 3 in 6l8o

Go back to Mercury Binding Sites List in 6l8o
Mercury binding site 3 out of 3 in the Crystal Structure of the K. Lactis RAD5 (Hg-Derivative)


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of Crystal Structure of the K. Lactis RAD5 (Hg-Derivative) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1203

b:0.7
occ:0.50
NE2 A:GLN1114 3.7 0.3 1.0
CE A:MET1111 3.8 98.7 1.0
CG A:MET1111 4.3 0.5 1.0
NH2 A:ARG1086 4.4 0.1 1.0
CD A:GLN1114 4.5 0.5 1.0
CD A:ARG1082 4.5 0.4 1.0
CB A:ARG1082 4.6 93.0 1.0
SD A:MET1111 4.6 97.3 1.0
OE1 A:GLN1114 4.6 96.3 1.0
CB A:MET1111 4.9 0.4 1.0

Reference:

M.Shen, S.Xiang. Structure and Function of RAD5 To Be Published.
Page generated: Sun Dec 13 19:15:26 2020

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