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Mercury in PDB 5g5n: Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative

Protein crystallography data

The structure of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative, PDB code: 5g5n was solved by T.H.Nguyen, A.K.Singh, B.Albala-Perez, M.J.Van Raaij, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.00 / 2.30
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 149.259, 149.259, 108.689, 90.00, 90.00, 90.00
R / Rfree (%) 17.2 / 20.5

Other elements in 5g5n:

The structure of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative also contains other interesting chemical elements:

Chlorine (Cl) 14 atoms

Mercury Binding Sites:

The binding sites of Mercury atom in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative (pdb code 5g5n). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 10 binding sites of Mercury where determined in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative, PDB code: 5g5n:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Mercury binding site 1 out of 10 in 5g5n

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Mercury binding site 1 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1377

b:51.4
occ:0.80
HG A:MMC1377 0.0 51.4 0.8
SG A:CYS253 1.9 48.6 1.0
C A:MMC1377 2.3 38.6 0.8
O A:CYS219 3.1 38.1 1.0
CB A:CYS253 3.2 44.6 1.0
CA A:CYS253 3.6 47.8 1.0
O A:ASN251 3.6 47.3 1.0
C A:LEU250 3.8 42.3 1.0
CB A:LEU250 3.9 42.6 1.0
N A:ASN251 3.9 41.6 1.0
N A:CYS253 3.9 46.1 1.0
C A:CYS219 4.0 35.7 1.0
CA A:LEU250 4.1 42.6 1.0
C A:ASN251 4.1 42.5 1.0
N A:CYS219 4.2 34.1 1.0
O A:LEU250 4.3 50.2 1.0
CB A:CYS219 4.3 36.1 1.0
CA A:CYS219 4.4 33.2 1.0
C A:HIS252 4.5 44.0 1.0
CA A:ASN251 4.5 45.3 1.0
N A:MET222 4.7 30.6 1.0
CA A:GLY275 4.8 29.4 1.0
C A:ARG220 4.8 33.5 1.0
O A:ALA216 4.8 41.0 1.0
O A:ARG220 4.8 27.8 1.0
N A:HIS252 4.8 46.0 1.0
O A:HIS252 4.9 45.4 1.0
N A:CYS221 4.9 31.3 1.0
CB A:MET222 5.0 31.9 1.0

Mercury binding site 2 out of 10 in 5g5n

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Mercury binding site 2 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1378

b:88.8
occ:0.50
HG A:MMC1378 0.0 88.8 0.5
C A:MMC1378 2.4 76.4 0.5
NE2 A:HIS242 2.9 43.8 1.0
OD1 A:ASN208 3.2 45.5 1.0
CD2 A:HIS242 3.4 40.0 1.0
ND2 A:ASN208 3.7 41.5 1.0
CE3 C:TRP294 3.8 38.3 1.0
CG A:ASN208 3.8 37.1 1.0
CD2 C:TRP294 4.0 37.8 1.0
CE1 A:HIS242 4.0 40.8 1.0
OH A:TYR187 4.2 38.0 1.0
CG C:TRP294 4.2 38.9 1.0
CB C:TRP294 4.2 38.3 1.0
CE1 C:HIS252 4.3 60.0 1.0
ND2 C:ASN251 4.3 39.0 1.0
CZ3 C:TRP294 4.4 42.2 1.0
CG A:HIS242 4.7 38.8 1.0
CE2 C:TRP294 4.8 39.5 1.0
O A:HOH3035 4.9 39.1 1.0
NE2 C:HIS252 4.9 55.8 1.0
ND1 A:HIS242 5.0 42.8 1.0
ND2 A:ASN239 5.0 48.1 1.0
CD1 C:TRP294 5.0 43.4 1.0

Mercury binding site 3 out of 10 in 5g5n

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Mercury binding site 3 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1379

b:67.7
occ:0.50
HG A:MMC1379 0.0 67.7 0.5
C A:MMC1379 2.3 57.1 0.5
CL A:CL1382 2.6 86.9 1.0
ND1 A:HIS85 3.2 55.7 1.0
CD2 A:TRP126 3.3 39.5 1.0
CB A:HIS85 3.5 41.2 1.0
CG A:TRP126 3.5 36.9 1.0
CE2 A:TRP126 3.6 41.9 1.0
CE3 A:TRP126 3.6 41.4 1.0
SD A:MET87 3.7 68.1 1.0
CG A:HIS85 3.8 50.4 1.0
O A:TRP126 3.8 37.7 1.0
CA A:HIS85 3.9 38.2 1.0
CD1 A:TRP126 3.9 37.9 1.0
NE1 A:TRP126 4.0 38.0 1.0
CB A:TRP126 4.2 36.3 1.0
CZ3 A:TRP126 4.2 43.5 1.0
CZ2 A:TRP126 4.2 45.7 1.0
N A:ILE86 4.2 39.4 1.0
CE1 A:HIS85 4.3 60.6 1.0
CH2 A:TRP126 4.4 43.5 1.0
C A:HIS85 4.4 38.7 1.0
C A:TRP126 4.4 36.2 1.0
CE A:MET87 4.5 66.3 1.0
O A:ILE86 4.8 41.3 1.0
CG2 A:ILE128 4.9 51.1 1.0
CA A:TRP126 5.0 34.8 1.0

Mercury binding site 4 out of 10 in 5g5n

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Mercury binding site 4 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1375

b:47.5
occ:0.70
HG B:MMC1375 0.0 47.5 0.7
SG B:CYS253 1.9 39.7 1.0
C B:MMC1375 2.3 38.7 0.7
O B:CYS219 3.0 31.4 1.0
CB B:CYS253 3.2 36.4 1.0
CA B:CYS253 3.6 37.5 1.0
O B:ASN251 3.6 34.9 1.0
C B:LEU250 3.8 37.9 1.0
N B:CYS253 3.8 38.8 1.0
CB B:LEU250 3.9 36.4 1.0
N B:ASN251 3.9 37.5 1.0
C B:CYS219 4.0 29.7 1.0
CA B:LEU250 4.1 38.2 1.0
C B:ASN251 4.1 36.0 1.0
O B:LEU250 4.2 43.5 1.0
N B:CYS219 4.3 31.0 1.0
CB B:CYS219 4.3 37.3 1.0
CA B:CYS219 4.4 32.6 1.0
C B:HIS252 4.5 37.9 1.0
CA B:ASN251 4.5 37.9 1.0
C B:ARG220 4.7 33.1 1.0
N B:MET222 4.7 29.7 1.0
O B:ARG220 4.7 30.5 1.0
CA B:GLY275 4.7 31.6 1.0
O B:HIS252 4.8 40.3 1.0
N B:HIS252 4.9 37.5 1.0
N B:CYS221 4.9 29.5 1.0
O B:ALA216 4.9 28.1 1.0
CB B:MET222 5.0 31.8 1.0
N B:ARG220 5.0 27.7 1.0

Mercury binding site 5 out of 10 in 5g5n

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Mercury binding site 5 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1376

b:77.2
occ:0.50
HG B:MMC1376 0.0 77.2 0.5
C B:MMC1376 2.4 68.4 0.5
ND1 B:HIS252 2.7 52.6 1.0
OD1 B:ASN218 2.8 39.1 1.0
CE1 B:HIS252 3.5 56.5 1.0
CG B:HIS252 3.5 46.8 1.0
CG B:ASN218 3.5 38.5 1.0
ND2 B:ASN218 3.7 41.6 1.0
CB B:HIS252 3.8 37.8 1.0
OH C:TYR187 3.9 42.8 1.0
O B:GLY256 4.1 51.1 1.0
CE2 C:TYR187 4.1 39.6 1.0
O C:HOH3030 4.2 62.4 1.0
CB B:SER217 4.2 37.2 1.0
CZ C:TYR187 4.3 39.6 1.0
NE2 B:HIS252 4.5 60.9 1.0
CD2 B:HIS252 4.5 52.2 1.0
N B:ASN218 4.6 37.1 1.0
CB B:ASN218 4.9 37.1 1.0
CA B:GLY257 4.9 51.1 1.0
OG B:SER217 5.0 40.5 1.0

Mercury binding site 6 out of 10 in 5g5n

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Mercury binding site 6 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1377

b:98.7
occ:1.00
HG B:MMC1377 0.0 98.7 1.0
C B:MMC1377 2.3 82.5 1.0
CL B:CL1380 3.0 79.7 1.0
ND1 B:HIS85 3.2 56.3 1.0
CD2 B:TRP126 3.4 33.6 1.0
CB B:HIS85 3.5 41.3 1.0
CG B:TRP126 3.6 33.1 1.0
CE2 B:TRP126 3.6 39.5 1.0
CE3 B:TRP126 3.7 42.9 1.0
SD B:MET87 3.7 67.4 1.0
CG B:HIS85 3.8 50.6 1.0
O B:TRP126 3.9 37.7 1.0
CD1 B:TRP126 3.9 35.8 1.0
CA B:HIS85 3.9 38.7 1.0
NE1 B:TRP126 3.9 38.9 1.0
CZ2 B:TRP126 4.2 44.2 1.0
CB B:TRP126 4.2 34.9 1.0
CZ3 B:TRP126 4.2 48.5 1.0
N B:ILE86 4.3 37.1 1.0
CE1 B:HIS85 4.3 63.4 1.0
CH2 B:TRP126 4.4 45.9 1.0
C B:TRP126 4.4 33.6 1.0
C B:HIS85 4.4 37.3 1.0
CE B:MET87 4.6 73.2 1.0
O B:ILE86 4.8 42.5 1.0
CG2 B:ILE128 5.0 54.5 1.0
CA B:TRP126 5.0 32.5 1.0

Mercury binding site 7 out of 10 in 5g5n

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Mercury binding site 7 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 7 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1378

b:95.4
occ:0.50
HG B:MMC1378 0.0 95.4 0.5
C B:MMC1378 2.4 85.0 0.5
NE2 B:HIS242 3.2 53.1 1.0
OD1 B:ASN208 3.3 44.8 1.0
CD2 B:HIS242 3.7 53.2 1.0
CE3 A:TRP294 3.8 43.7 1.0
ND2 B:ASN208 3.8 41.4 1.0
CG B:ASN208 3.9 37.8 1.0
OH B:TYR187 3.9 61.2 1.0
CD2 A:TRP294 4.1 51.6 1.0
CE1 A:HIS252 4.1 64.8 1.0
CB A:TRP294 4.3 40.5 1.0
CG A:TRP294 4.3 46.0 1.0
CE1 B:HIS242 4.3 52.9 1.0
CZ3 A:TRP294 4.4 51.3 1.0
ND2 A:ASN251 4.5 47.2 1.0
NE2 A:HIS252 4.7 63.7 1.0
CE2 A:TRP294 4.9 49.3 1.0
CE2 A:TYR295 5.0 79.6 1.0
ND1 A:HIS252 5.0 60.7 1.0
CZ B:TYR187 5.0 53.7 1.0

Mercury binding site 8 out of 10 in 5g5n

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Mercury binding site 8 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 8 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Hg1375

b:43.8
occ:0.70
HG C:MMC1375 0.0 43.8 0.7
SG C:CYS253 1.7 38.5 1.0
C C:MMC1375 2.3 39.3 0.7
O C:CYS219 3.1 33.8 1.0
CB C:CYS253 3.1 44.2 1.0
CA C:CYS253 3.5 46.4 1.0
O C:ASN251 3.6 41.2 1.0
N C:CYS253 3.8 39.1 1.0
C C:LEU250 3.9 35.6 1.0
CB C:LEU250 3.9 36.8 1.0
N C:ASN251 3.9 35.7 1.0
C C:CYS219 4.0 38.5 1.0
C C:ASN251 4.1 41.9 1.0
CA C:LEU250 4.1 34.7 1.0
O C:LEU250 4.2 39.7 1.0
N C:CYS219 4.3 41.2 1.0
CB C:CYS219 4.4 38.4 1.0
C C:HIS252 4.4 40.5 1.0
CA C:CYS219 4.5 38.7 1.0
CA C:ASN251 4.5 38.7 1.0
CA C:GLY275 4.7 34.1 1.0
C C:ARG220 4.7 34.1 1.0
N C:MET222 4.7 29.6 1.0
O C:ARG220 4.8 30.9 1.0
N C:HIS252 4.8 40.4 1.0
O C:HIS252 4.8 40.8 1.0
N C:CYS221 4.9 33.7 1.0
O C:ALA216 4.9 32.0 1.0
C C:CYS253 5.0 49.8 1.0

Mercury binding site 9 out of 10 in 5g5n

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Mercury binding site 9 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 9 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Hg1376

b:74.9
occ:0.30
HG C:MMC1376 0.0 74.9 0.3
C C:MMC1376 2.4 71.4 0.3
NE2 C:HIS242 2.8 44.1 1.0
OD1 C:ASN208 3.3 36.1 1.0
CD2 C:HIS242 3.4 41.8 1.0
ND2 C:ASN208 3.7 40.8 1.0
CE3 B:TRP294 3.9 41.4 1.0
CG C:ASN208 3.9 36.0 1.0
CE1 C:HIS242 4.0 40.5 1.0
CE1 B:HIS252 4.0 56.5 1.0
CD2 B:TRP294 4.1 45.5 1.0
OH C:TYR187 4.2 42.8 1.0
CB B:TRP294 4.3 36.0 1.0
CG B:TRP294 4.3 42.5 1.0
ND2 B:ASN251 4.4 36.7 1.0
CZ3 B:TRP294 4.5 45.4 1.0
NE2 B:HIS252 4.6 60.9 1.0
CG C:HIS242 4.7 37.1 1.0
O C:HOH3030 4.7 62.4 1.0
ND2 C:ASN239 4.8 41.5 1.0
ND1 B:HIS252 4.9 52.6 1.0
CE2 B:TRP294 4.9 44.3 1.0
ND1 C:HIS242 4.9 44.0 1.0
OD1 C:ASN239 5.0 37.2 1.0

Mercury binding site 10 out of 10 in 5g5n

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Mercury binding site 10 out of 10 in the Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 10 of Structure of the Snake Adenovirus 1 Hexon-Interlacing LH3 Protein, Methylmercury Chloride Derivative within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Hg1377

b:88.2
occ:0.50
HG C:MMC1377 0.0 88.2 0.5
C C:MMC1377 2.3 74.0 0.5
CL C:CL1380 2.8 71.0 1.0
ND1 C:HIS85 2.9 82.3 1.0
CD2 C:TRP126 3.3 50.2 1.0
CB C:HIS85 3.3 55.4 1.0
CE3 C:TRP126 3.5 57.9 1.0
CG C:HIS85 3.5 71.2 1.0
CG C:TRP126 3.6 43.2 1.0
CE2 C:TRP126 3.6 52.9 1.0
SD C:MET87 3.8 68.7 1.0
CA C:HIS85 3.8 45.5 1.0
O C:TRP126 3.9 37.7 1.0
CD1 C:TRP126 4.0 43.5 1.0
CZ3 C:TRP126 4.1 65.8 1.0
NE1 C:TRP126 4.1 45.4 1.0
CE1 C:HIS85 4.1 76.4 1.0
CB C:TRP126 4.1 38.2 1.0
CZ2 C:TRP126 4.2 58.9 1.0
N C:ILE86 4.3 38.4 1.0
CH2 C:TRP126 4.4 63.8 1.0
C C:HIS85 4.4 44.9 1.0
C C:TRP126 4.5 34.9 1.0
CE C:MET87 4.7 70.2 1.0
CD2 C:HIS85 4.8 77.5 1.0
O C:ILE86 4.9 40.9 1.0
CA C:TRP126 5.0 36.7 1.0

Reference:

R.Menendez-Conejero, T.H.Nguyen, A.K.Singh, G.N.Condezo, R.E.Marschang, M.J.Van Raaij, C.San Martin. Structure of A Reptilian Adenovirus Reveals A Phage Tailspike Fold Stabilizing A Vertebrate Virus Capsid. Structure V. 25 1562 2017.
ISSN: ISSN 0969-2126
PubMed: 28943338
DOI: 10.1016/J.STR.2017.08.007
Page generated: Sun Dec 13 19:12:42 2020

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