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Mercury in PDB 2qlt: Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae

Protein crystallography data

The structure of Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae, PDB code: 2qlt was solved by K.Tan, E.Evdokimova, M.Kudritska, A.Savchenko, A.Edwards, A.Joachimiak, Midwest Center For Structural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.93 / 1.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 39.636, 55.578, 97.748, 90.00, 90.00, 90.00
R / Rfree (%) 16.8 / 19.5

Other elements in 2qlt:

The structure of Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 1 atom

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae (pdb code 2qlt). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 6 binding sites of Mercury where determined in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae, PDB code: 2qlt:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6;

Mercury binding site 1 out of 6 in 2qlt

Go back to Mercury Binding Sites List in 2qlt
Mercury binding site 1 out of 6 in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae


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 An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg274

b:17.8
occ:0.40
HG A:HG274 0.0 17.8 0.4
HG A:HG274 2.1 29.2 0.3
SG A:CYS232 2.4 24.7 1.0
O A:CYS232 2.8 21.4 1.0
O A:LEU227 2.8 18.4 1.0
O A:LYS230 3.1 20.3 1.0
CL A:CL279 3.1 23.5 0.8
N A:CYS232 3.3 21.8 1.0
CB A:CYS232 3.3 22.9 1.0
C A:CYS232 3.4 20.1 1.0
CA A:CYS232 3.5 21.7 1.0
CD1 A:ILE235 3.5 19.4 1.0
C A:LEU227 3.8 18.6 1.0
CG1 A:ILE235 3.9 18.6 1.0
C A:LYS230 3.9 19.7 1.0
CA A:LYS228 4.2 19.8 1.0
C A:GLY231 4.3 21.1 1.0
N A:LYS228 4.4 18.4 1.0
C A:LYS228 4.5 20.8 1.0
N A:LYS230 4.5 19.4 1.0
O A:HOH408 4.5 28.6 1.0
N A:ASP233 4.5 18.2 1.0
O A:LYS228 4.6 22.4 1.0
CA A:LYS230 4.6 19.4 1.0
N A:GLY231 4.7 19.4 1.0
CE A:LYS265 4.7 25.4 1.0
CA A:GLY231 4.8 20.3 1.0
CB A:LYS230 4.9 20.0 1.0
CA A:LEU227 4.9 17.3 1.0
CB A:LEU227 5.0 17.0 1.0

Mercury binding site 2 out of 6 in 2qlt

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Mercury binding site 2 out of 6 in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae


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 An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg274

b:29.2
occ:0.30
HG A:HG274 0.0 29.2 0.3
HG A:HG274 2.1 17.8 0.4
CL A:CL279 2.9 23.5 0.8
O A:CYS232 3.4 21.4 1.0
O A:HOH408 3.6 28.6 1.0
O A:LYS228 3.6 22.4 1.0
O A:LYS230 3.7 20.3 1.0
CA A:LYS228 3.7 19.8 1.0
CE A:LYS265 3.8 25.4 1.0
CE2 A:TYR263 3.8 25.3 1.0
O A:LEU227 3.8 18.4 1.0
C A:LYS228 3.9 20.8 1.0
CD2 A:TYR263 4.0 24.0 1.0
CD1 A:ILE235 4.1 19.4 1.0
CG A:LYS265 4.4 18.9 1.0
C A:CYS232 4.4 20.1 1.0
SG A:CYS232 4.5 24.7 1.0
C A:LEU227 4.6 18.6 1.0
O A:HOH522 4.6 46.8 1.0
N A:LYS228 4.6 18.4 1.0
CB A:LYS228 4.6 20.0 1.0
CD A:LYS265 4.7 23.2 1.0
CZ A:TYR263 4.7 25.1 1.0
CG A:LYS228 4.7 21.5 1.0
NZ A:LYS265 4.7 31.0 1.0
N A:CYS232 4.8 21.8 1.0
C A:LYS230 4.8 19.7 1.0
CG1 A:ILE235 4.8 18.6 1.0
N A:LYS230 5.0 19.4 1.0
N A:GLU229 5.0 19.7 1.0

Mercury binding site 3 out of 6 in 2qlt

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Mercury binding site 3 out of 6 in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae


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 An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg275

b:18.6
occ:0.55
HG A:HG275 0.0 18.6 0.6
HG A:HG275 2.2 27.6 0.3
SG A:CYS121 2.2 19.9 1.0
O A:ALA117 2.9 17.2 1.0
CB A:CYS121 3.2 20.3 1.0
N A:CYS121 3.3 19.3 1.0
CA A:CYS121 3.5 19.5 1.0
C A:ALA117 3.7 18.1 1.0
CG1 A:ILE44 3.9 16.5 1.0
CA A:ALA117 4.0 17.2 1.0
CD1 A:ILE44 4.1 16.6 1.0
C A:LEU120 4.2 19.1 1.0
CB A:ALA117 4.2 17.2 1.0
CB A:LEU120 4.3 18.0 1.0
CG2 A:ILE44 4.5 17.2 1.0
CE1 A:PHE38 4.7 19.6 1.0
CG A:LEU120 4.7 18.8 1.0
CD1 A:PHE38 4.7 19.8 1.0
CA A:LEU120 4.7 18.5 1.0
CB A:ILE44 4.8 16.4 1.0
CD1 A:LEU124 4.8 27.2 1.0
N A:VAL118 4.9 18.6 1.0
O A:LEU120 4.9 19.3 1.0

Mercury binding site 4 out of 6 in 2qlt

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Mercury binding site 4 out of 6 in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg275

b:27.6
occ:0.30
HG A:HG275 0.0 27.6 0.3
HG A:HG275 2.2 18.6 0.6
NE2 A:HIS239 3.5 20.7 1.0
CA A:ALA117 3.6 17.2 1.0
CD2 A:HIS239 3.6 19.7 1.0
CE1 A:PHE38 3.6 19.6 1.0
O A:ALA117 3.7 17.2 1.0
CE1 A:HIS239 3.7 23.4 1.0
CB A:ALA117 3.8 17.2 1.0
CD1 A:PHE38 3.9 19.8 1.0
CG A:HIS239 3.9 19.1 1.0
CB A:LEU120 3.9 18.0 1.0
CD2 A:LEU120 3.9 17.8 1.0
CG1 A:ILE44 3.9 16.5 1.0
ND1 A:HIS239 4.0 20.6 1.0
C A:ALA117 4.1 18.1 1.0
CG A:LEU120 4.2 18.8 1.0
SG A:CYS121 4.4 19.9 1.0
O A:THR43 4.6 18.5 1.0
N A:CYS121 4.6 19.3 1.0
CZ A:PHE38 4.6 21.6 1.0
CD1 A:ILE44 4.7 16.6 1.0
CB A:HIS239 4.7 17.0 1.0
N A:ALA117 4.8 16.4 1.0
CA A:ILE44 4.8 16.2 1.0
CB A:ILE44 4.8 16.4 1.0
CG A:PHE38 4.9 20.1 1.0

Mercury binding site 5 out of 6 in 2qlt

Go back to Mercury Binding Sites List in 2qlt
Mercury binding site 5 out of 6 in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg276

b:22.7
occ:0.15
NH1 A:ARG178 1.8 16.1 1.0
SG A:CYS213 2.0 18.4 1.0
O A:ALA211 2.7 16.7 1.0
CZ A:ARG178 2.8 16.9 1.0
CD A:ARG178 3.1 15.5 1.0
N A:CYS213 3.1 16.7 1.0
CA A:CYS213 3.2 16.3 1.0
CB A:CYS213 3.2 16.1 1.0
C A:GLY212 3.2 17.1 1.0
NE A:ARG178 3.2 17.1 1.0
O A:GLY212 3.4 16.9 1.0
C A:ALA211 3.6 15.9 1.0
CB A:VAL195 3.7 14.3 1.0
NH2 A:ARG178 3.9 16.3 1.0
O A:HOH367 3.9 15.8 1.0
CA A:GLY212 4.0 16.6 1.0
CG1 A:VAL195 4.1 15.3 1.0
N A:GLY212 4.2 15.2 1.0
O A:VAL195 4.2 16.1 1.0
CG A:ARG178 4.3 17.3 1.0
CB A:ALA211 4.4 16.5 1.0
CG2 A:VAL195 4.5 15.2 1.0
CB A:ARG178 4.5 16.1 1.0
C A:CYS213 4.7 16.1 1.0
CA A:ALA211 4.7 15.8 1.0
CA A:VAL195 4.7 13.7 1.0
C A:VAL195 4.7 15.6 1.0
O A:GLY208 4.8 16.2 1.0
CG1 A:ILE185 4.9 16.2 1.0

Mercury binding site 6 out of 6 in 2qlt

Go back to Mercury Binding Sites List in 2qlt
Mercury binding site 6 out of 6 in the Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P, From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg277

b:23.3
occ:0.15
ND1 A:HIS72 2.4 30.9 1.0
NE2 A:HIS75 2.4 19.1 1.0
O A:HOH449 3.0 32.3 1.0
CE1 A:HIS72 3.2 31.9 1.0
CE1 A:HIS75 3.4 21.8 1.0
CD2 A:HIS75 3.4 19.8 1.0
CG A:HIS72 3.5 26.6 1.0
O A:HOH457 3.6 33.3 1.0
CB A:HIS72 3.9 21.8 1.0
CA A:HIS72 3.9 21.6 1.0
NE2 A:HIS72 4.4 32.0 1.0
O A:HOH465 4.5 22.9 1.0
O A:HIS72 4.5 22.8 1.0
ND1 A:HIS75 4.5 21.1 1.0
O A:ILE71 4.6 19.6 1.0
CG A:HIS75 4.6 18.2 1.0
CD2 A:HIS72 4.6 28.1 1.0
CG2 A:THR221 4.6 15.8 1.0
C A:HIS72 4.7 21.0 1.0
N A:HIS72 4.8 19.4 1.0
C A:ILE71 4.9 19.0 1.0
CG2 A:ILE71 5.0 16.9 1.0

Reference:

K.Tan, E.Evdokimova, M.Kudritska, A.Savchenko, A.Edwards, A.Joachimiak. The Crystal Structure of An Isoform of Dl-Glycerol-3-Phosphatase, RHR2P From Saccharomyces Cerevisiae. To Be Published.
Page generated: Wed Oct 28 18:41:56 2020

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