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Mercury in PDB 1hzx: Crystal Structure of Bovine Rhodopsin

Protein crystallography data

The structure of Crystal Structure of Bovine Rhodopsin, PDB code: 1hzx was solved by D.C.Teller, T.Okada, C.A.Behnke, K.Palczewski, R.E.Stenkamp, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.80
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 97.246, 97.246, 149.544, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 21.2

Other elements in 1hzx:

The structure of Crystal Structure of Bovine Rhodopsin also contains other interesting chemical elements:

Zinc (Zn) 7 atoms

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of Bovine Rhodopsin (pdb code 1hzx). 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 Bovine Rhodopsin, PDB code: 1hzx:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6;

Mercury binding site 1 out of 6 in 1hzx

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Mercury binding site 1 out of 6 in the Crystal Structure of Bovine Rhodopsin


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 Bovine Rhodopsin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg901

b:58.4
occ:1.00
SG A:CYS264 2.2 23.9 1.0
CB A:CYS264 3.0 23.7 1.0
OG1 A:THR297 3.2 15.6 1.0
CA A:CYS264 3.7 24.3 1.0
CD2 A:TYR301 3.7 21.2 1.0
O A:ALA260 3.8 27.4 1.0
CZ A:PHE294 3.8 16.4 1.0
N A:CYS264 3.9 24.0 1.0
CE2 A:TYR301 4.0 21.9 1.0
CG A:TYR301 4.3 20.5 1.0
CB A:THR297 4.3 20.6 1.0
CE1 A:PHE294 4.3 15.5 1.0
CE2 A:PHE294 4.5 17.1 1.0
C A:ILE263 4.6 24.2 1.0
CB A:TYR301 4.7 23.2 1.0
CZ A:TYR301 4.8 20.9 1.0
C A:ALA260 4.8 25.3 1.0
CB A:ILE263 5.0 21.6 1.0
CG2 A:ILE263 5.0 21.6 1.0
C A:THR297 5.0 24.2 1.0

Mercury binding site 2 out of 6 in 1hzx

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Mercury binding site 2 out of 6 in the Crystal Structure of Bovine Rhodopsin


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 Bovine Rhodopsin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg903

b:74.7
occ:1.00
SG A:CYS222 2.5 49.3 1.0
CD1 A:LEU226 3.2 81.4 1.0
O A:CYS222 3.4 56.0 1.0
O A:ALA132 3.5 39.8 1.0
C A:CYS222 3.6 55.8 1.0
N A:TYR223 3.8 57.9 1.0
CB A:CYS222 3.8 52.8 1.0
CA A:TYR223 3.9 60.4 1.0
CA A:ALA132 3.9 37.7 1.0
C A:ALA132 4.1 39.3 1.0
CB A:ALA132 4.2 38.0 1.0
CG A:LEU226 4.3 81.2 1.0
CA A:CYS222 4.4 54.0 1.0
CB A:LEU226 4.4 82.2 1.0
CB A:ARG135 4.5 50.5 1.0
CB A:TYR223 4.5 61.3 1.0
CG A:ARG135 4.6 48.3 1.0
O A:ILE219 4.7 45.4 1.0
CD2 A:LEU226 4.8 80.7 1.0
N A:TYR136 4.8 58.0 1.0

Mercury binding site 3 out of 6 in 1hzx

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Mercury binding site 3 out of 6 in the Crystal Structure of Bovine Rhodopsin


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 Bovine Rhodopsin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg905

b:79.6
occ:0.80
SG A:CYS316 2.4 37.7 1.0
O A:GLN312 3.3 36.1 1.0
CB A:CYS316 3.6 38.2 1.0
CG1 A:VAL337 3.6 55.3 1.0
O A:VAL337 3.8 52.4 1.0
CA A:CYS316 3.8 39.0 1.0
N A:CYS316 3.8 38.3 1.0
N A:VAL337 4.0 57.9 1.0
CG A:GLN312 4.2 44.3 1.0
C A:GLN312 4.3 36.8 1.0
CA A:THR336 4.3 58.7 1.0
C A:THR336 4.4 58.0 1.0
C A:ASN315 4.5 36.8 1.0
O A:THR335 4.5 59.3 1.0
C A:VAL337 4.6 55.1 1.0
CA A:VAL337 4.7 56.2 1.0
CA A:GLN312 4.7 38.1 1.0
CB A:VAL337 4.8 56.0 1.0
CB A:ASN315 4.8 38.5 1.0
CB A:THR336 4.9 59.1 1.0
O A:ASN315 4.9 37.0 1.0
ND1 A:HIS65 5.0 41.6 1.0

Mercury binding site 4 out of 6 in 1hzx

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Mercury binding site 4 out of 6 in the Crystal Structure of Bovine Rhodopsin


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 Bovine Rhodopsin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg902

b:60.5
occ:1.00
SG B:CYS264 2.3 24.2 1.0
CB B:CYS264 3.1 27.1 1.0
OG1 B:THR297 3.2 23.4 1.0
O B:ALA260 3.5 35.1 1.0
CA B:CYS264 3.6 27.9 1.0
CD2 B:TYR301 3.7 34.9 1.0
N B:CYS264 3.8 26.6 1.0
CZ B:PHE294 3.8 20.1 1.0
CE2 B:TYR301 4.1 36.6 1.0
CG B:TYR301 4.2 33.9 1.0
CB B:THR297 4.4 25.7 1.0
CE1 B:PHE294 4.4 18.7 1.0
CE2 B:PHE294 4.5 21.5 1.0
C B:ILE263 4.5 25.6 1.0
CB B:TYR301 4.6 31.9 1.0
C B:ALA260 4.6 34.3 1.0
CG2 B:ILE263 4.6 22.7 1.0
CB B:ILE263 4.7 24.5 1.0
CZ B:TYR301 4.8 36.9 1.0
CD1 B:TYR301 4.9 34.4 1.0
O B:ILE263 4.9 24.3 1.0

Mercury binding site 5 out of 6 in 1hzx

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Mercury binding site 5 out of 6 in the Crystal Structure of Bovine Rhodopsin


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 Bovine Rhodopsin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg904

b:77.7
occ:0.90
SG B:CYS222 2.5 65.7 1.0
CD1 B:LEU226 3.1 81.2 1.0
O B:CYS222 3.1 66.9 1.0
C B:CYS222 3.3 68.0 1.0
O B:ALA132 3.5 55.7 1.0
N B:TYR223 3.5 70.4 1.0
CA B:TYR223 3.5 73.7 1.0
CB B:CYS222 3.8 67.0 1.0
CA B:ALA132 3.9 55.0 1.0
C B:ALA132 4.1 55.9 1.0
CA B:CYS222 4.2 67.2 1.0
CG B:LEU226 4.2 81.3 1.0
CB B:ALA132 4.2 54.6 1.0
CB B:TYR223 4.2 73.7 1.0
CB B:ARG135 4.3 62.3 1.0
CB B:LEU226 4.3 81.9 1.0
CG B:ARG135 4.5 61.6 1.0
O B:ILE219 4.5 54.0 1.0
CD2 B:LEU226 4.7 80.7 1.0
N B:TYR136 4.7 66.2 1.0
C B:TYR223 4.8 76.1 1.0
CD1 B:TYR223 4.9 73.6 1.0

Mercury binding site 6 out of 6 in 1hzx

Go back to Mercury Binding Sites List in 1hzx
Mercury binding site 6 out of 6 in the Crystal Structure of Bovine Rhodopsin


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 Bovine Rhodopsin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg906

b:75.7
occ:0.50
SG B:CYS316 2.3 45.0 1.0
CB B:CYS316 2.6 48.2 1.0
ND1 B:HIS65 3.0 57.9 1.0
CD B:LYS67 3.1 65.5 1.0
CE1 B:HIS65 3.2 58.6 1.0
CA B:CYS316 3.3 48.9 1.0
CE B:LYS67 3.7 67.0 1.0
NZ B:LYS67 3.8 69.7 1.0
NZ B:LYS66 3.9 53.6 1.0
CG B:LYS67 4.0 63.8 1.0
CG B:HIS65 4.0 57.6 1.0
N B:CYS316 4.2 49.1 1.0
NE2 B:HIS65 4.2 58.3 1.0
C B:CYS316 4.4 48.9 1.0
O B:CYS316 4.5 48.2 1.0
OG1 B:THR319 4.5 60.2 1.0
CG2 B:THR319 4.6 59.0 1.0
CB B:THR319 4.6 59.4 1.0
CD2 B:HIS65 4.6 58.0 1.0
CB B:HIS65 4.7 57.0 1.0

Reference:

D.C.Teller, T.Okada, C.A.Behnke, K.Palczewski, R.E.Stenkamp. Advances in Determination of A High-Resolution Three-Dimensional Structure of Rhodopsin, A Model of G-Protein-Coupled Receptors (Gpcrs). Biochemistry V. 40 7761 2001.
ISSN: ISSN 0006-2960
PubMed: 11425302
DOI: 10.1021/BI0155091
Page generated: Sun Dec 13 19:03:05 2020

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