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Mercury in PDB 2is1: Crystal Structure of Uvrd-Dna-SO4 Complex

Protein crystallography data

The structure of Crystal Structure of Uvrd-Dna-SO4 Complex, PDB code: 2is1 was solved by W.Yang, J.Y.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.76 / 2.90
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 152.451, 94.490, 136.443, 90.00, 90.00, 90.00
R / Rfree (%) 23.6 / 29.5

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of Uvrd-Dna-SO4 Complex (pdb code 2is1). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 5 binding sites of Mercury where determined in the Crystal Structure of Uvrd-Dna-SO4 Complex, PDB code: 2is1:
Jump to Mercury binding site number: 1; 2; 3; 4; 5;

Mercury binding site 1 out of 5 in 2is1

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Mercury binding site 1 out of 5 in the Crystal Structure of Uvrd-Dna-SO4 Complex


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 Uvrd-Dna-SO4 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg681

b:84.3
occ:0.50
SG A:CYS322 2.6 56.6 1.0
NH1 A:ARG645 3.3 77.1 1.0
O A:CYS322 3.5 49.4 1.0
CB A:CYS322 3.5 53.0 1.0
O A:ALA323 3.5 50.6 1.0
C A:CYS322 3.6 50.4 1.0
OE1 A:GLU616 3.6 59.1 1.0
C A:ALA323 3.8 52.5 1.0
N A:ALA323 3.9 50.9 1.0
CA A:CYS322 4.1 50.9 1.0
CA A:ALA323 4.2 51.9 1.0
N A:PHE324 4.3 53.0 1.0
CD A:GLU616 4.4 61.1 1.0
CD A:ARG645 4.5 75.2 1.0
CG A:GLU616 4.5 60.2 1.0
CZ A:ARG645 4.5 78.0 1.0
CB A:GLU616 4.5 57.5 1.0
CA A:PHE324 4.7 55.4 1.0
CD1 A:PHE324 4.9 52.4 1.0
NE A:ARG645 5.0 77.0 1.0

Mercury binding site 2 out of 5 in 2is1

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Mercury binding site 2 out of 5 in the Crystal Structure of Uvrd-Dna-SO4 Complex


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 Uvrd-Dna-SO4 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg682

b:75.7
occ:0.50
SG A:CYS640 2.4 62.8 1.0
OD1 A:ASN288 3.1 52.7 1.0
CB A:CYS640 3.3 62.1 1.0
CA A:CYS640 3.5 61.8 1.0
N A:CYS640 3.6 62.5 1.0
O A:HOH706 3.8 40.1 1.0
OG A:SER291 4.0 41.3 1.0
CG A:ASN288 4.0 49.0 1.0
C A:GLU639 4.1 62.2 1.0
CB A:SER291 4.1 38.2 1.0
OE1 A:GLU639 4.1 68.3 1.0
CA A:ASN288 4.3 43.9 1.0
O A:GLU639 4.4 61.5 1.0
CB A:GLU639 4.4 63.9 1.0
CB A:ASN288 4.5 46.4 1.0
CA A:GLU639 4.9 62.3 1.0
CD A:GLU639 5.0 68.4 1.0
O A:ASN288 5.0 43.3 1.0

Mercury binding site 3 out of 5 in 2is1

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Mercury binding site 3 out of 5 in the Crystal Structure of Uvrd-Dna-SO4 Complex


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 Uvrd-Dna-SO4 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg683

b:0.9
occ:0.50
SG A:CYS52 2.4 55.2 1.0
CB A:CYS52 3.5 51.7 1.0
CZ A:ARG22 3.7 39.9 1.0
NE A:ARG22 3.7 37.1 1.0
ND2 A:ASN216 3.9 36.8 1.0
NH1 A:ARG22 4.0 43.7 1.0
CA A:CYS52 4.0 49.8 1.0
NH2 A:ARG22 4.1 40.7 1.0
CD A:ARG22 4.2 33.5 1.0
OG1 A:THR215 4.5 35.2 1.0
O A:GLU50 4.6 48.6 1.0
N A:CYS52 4.7 49.7 1.0
CG A:ASN216 4.8 36.5 1.0
OD1 A:ASN216 4.9 34.1 1.0
OG A:SER56 4.9 31.8 1.0

Mercury binding site 4 out of 5 in 2is1

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Mercury binding site 4 out of 5 in the Crystal Structure of Uvrd-Dna-SO4 Complex


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 Uvrd-Dna-SO4 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg681

b:0.5
occ:0.50
SG B:CYS322 2.7 85.2 1.0
O B:CYS322 2.9 76.3 1.0
CB B:CYS322 3.4 79.5 1.0
C B:CYS322 3.4 75.9 1.0
O B:ALA323 3.7 75.0 1.0
CG B:GLU616 3.7 69.0 1.0
C B:ALA323 3.9 76.4 1.0
CA B:CYS322 4.0 76.8 1.0
N B:ALA323 4.1 75.4 1.0
N B:PHE324 4.4 78.0 1.0
CA B:ALA323 4.4 75.9 1.0
CA B:PHE324 4.6 80.5 1.0
CB B:GLU616 4.7 72.6 1.0
CD B:GLU616 4.7 66.2 1.0
OE2 B:GLU616 4.9 63.2 1.0

Mercury binding site 5 out of 5 in 2is1

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Mercury binding site 5 out of 5 in the Crystal Structure of Uvrd-Dna-SO4 Complex


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 Uvrd-Dna-SO4 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg682

b:0.2
occ:0.50
SG B:CYS640 2.3 87.6 1.0
OD1 B:ASN288 2.4 73.4 1.0
CB B:CYS640 3.2 88.3 1.0
CA B:CYS640 3.5 87.1 1.0
CG B:ASN288 3.5 72.5 1.0
N B:CYS640 3.8 86.6 1.0
OG B:SER291 3.8 81.0 1.0
CA B:ASN288 3.9 72.8 1.0
OD1 B:ASP314 4.0 83.9 1.0
CB B:ASN288 4.1 72.7 1.0
C B:GLU639 4.2 86.0 1.0
O B:GLU639 4.3 85.2 1.0
N B:ASN288 4.6 73.0 1.0
ND2 B:ASN288 4.6 71.6 1.0
CB B:GLU639 4.6 86.2 1.0
CB B:SER291 4.8 78.9 1.0
O B:ASN288 4.8 72.4 1.0
C B:ASN288 4.9 72.7 1.0
CG B:ASP314 4.9 84.5 1.0
C B:CYS640 4.9 86.9 1.0
OD2 B:ASP314 4.9 84.5 1.0

Reference:

J.Y.Lee, W.Yang. Uvrd Helicase Unwinds Dna One Base Pair at A Time By A Two-Part Power Stroke. Cell(Cambridge,Mass.) V. 127 1349 2006.
ISSN: ISSN 0092-8674
PubMed: 17190599
DOI: 10.1016/J.CELL.2006.10.049
Page generated: Wed Oct 28 18:41:39 2020

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