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Mercury in PDB 7byf: The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex

Protein crystallography data

The structure of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex, PDB code: 7byf was solved by P.Gao, H.Feng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.90 / 2.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 135.397, 150.63, 101.618, 90, 111.03, 90
R / Rfree (%) 18.4 / 23.3

Other elements in 7byf:

The structure of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex also contains other interesting chemical elements:

Sodium (Na) 4 atoms

Mercury Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Mercury atom in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex (pdb code 7byf). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 24 binding sites of Mercury where determined in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex, PDB code: 7byf:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Mercury binding site 1 out of 24 in 7byf

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Mercury binding site 1 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg401

b:35.9
occ:0.51
SG A:CYS322 2.5 44.4 1.0
O A:HOH591 2.6 27.5 1.0
O A:HOH613 2.8 27.9 1.0
O A:HOH554 3.3 30.3 1.0
CB A:CYS322 3.5 25.1 1.0
CA A:CYS322 4.0 28.7 1.0
O A:LEU45 4.2 33.7 1.0
O A:PHE323 4.3 35.3 1.0
O A:HOH507 4.3 37.4 1.0
N A:PHE323 4.4 35.0 1.0
CA A:SER46 4.6 30.0 1.0
C A:CYS322 4.7 35.7 1.0
O A:HOH540 4.7 31.1 1.0
N A:PHE47 4.7 28.8 1.0
O A:CYS321 4.9 22.1 1.0

Mercury binding site 2 out of 24 in 7byf

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Mercury binding site 2 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg402

b:40.7
occ:0.33
CB A:CYS93 2.9 32.0 1.0
O A:HOH557 2.9 29.8 1.0
O A:HOH526 3.2 29.2 1.0
O A:HOH569 3.2 30.3 1.0
SG A:CYS93 3.6 38.7 1.0
O A:HOH539 3.8 31.4 1.0
CD2 A:HIS134 3.8 28.9 1.0
CA A:CYS93 4.1 28.8 1.0
CA A:HIS134 4.3 30.1 1.0
N A:TRP135 4.5 33.8 1.0
O A:ILE133 4.5 31.8 1.0
CG A:HIS134 4.6 34.4 1.0
N A:TRP94 4.7 28.6 1.0
CB A:HIS134 4.7 28.9 1.0
NE2 A:HIS134 4.8 34.3 1.0
O A:VAL92 4.8 29.0 1.0
C A:CYS93 4.9 31.3 1.0
C A:HIS134 5.0 31.5 1.0

Mercury binding site 3 out of 24 in 7byf

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Mercury binding site 3 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg403

b:44.8
occ:0.79
SG A:CYS68 2.7 44.4 1.0
CB A:CYS68 3.3 34.2 1.0
CD1 A:LEU115 3.6 36.1 1.0
CB A:LYS80 3.7 42.1 1.0
CG A:LYS80 4.2 48.1 1.0
CD2 A:PHE56 4.2 40.5 1.0
CD2 A:LEU115 4.2 43.6 1.0
CG A:LEU115 4.4 44.6 1.0
CE2 A:PHE56 4.6 38.9 1.0
CA A:CYS68 4.7 41.9 1.0
CG A:PHE56 4.8 37.6 1.0
N A:ALA81 4.8 45.5 1.0
CB A:LEU115 5.0 45.4 1.0
C A:CYS68 5.0 37.5 1.0
CA A:LYS80 5.0 42.5 1.0

Mercury binding site 4 out of 24 in 7byf

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Mercury binding site 4 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg404

b:25.3
occ:0.75
SG A:CYS143 2.6 40.1 1.0
CB A:CYS143 3.1 28.3 1.0
CE A:MET164 3.2 33.5 1.0
CE1 A:TYR141 3.3 34.0 1.0
CD1 A:TYR141 3.3 31.3 1.0
CB A:PHE155 3.7 27.7 1.0
SD A:MET164 3.7 49.3 1.0
CG A:PRO201 4.0 33.2 1.0
CG A:PHE155 4.0 29.3 1.0
CD2 A:PHE155 4.1 27.2 1.0
CD A:PRO201 4.2 38.6 1.0
CZ A:TYR141 4.3 37.7 1.0
CG A:TYR141 4.3 36.3 1.0
CA A:CYS143 4.5 34.1 1.0
CB A:MET164 4.7 35.9 1.0
N A:CYS143 4.8 35.5 1.0
CG A:MET164 4.9 38.1 1.0
OH A:TYR141 4.9 35.5 1.0
CD1 A:PHE155 5.0 28.8 1.0
CA A:PHE155 5.0 31.3 1.0

Mercury binding site 5 out of 24 in 7byf

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Mercury binding site 5 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg503

b:41.1
occ:0.47
SG F:CYS226 3.1 62.3 1.0
O F:CYS226 3.1 50.5 1.0
CB F:CYS226 3.2 51.8 1.0
NZ F:LYS176 3.2 44.5 1.0
CD F:LYS176 3.3 61.8 1.0
C F:CYS226 3.4 50.8 1.0
OG1 F:THR212 3.7 51.8 1.0
CE F:LYS176 3.8 63.1 1.0
N F:ASN228 3.8 57.7 1.0
CA F:CYS226 3.9 50.7 1.0
N F:LEU227 3.9 46.5 1.0
CG2 F:THR212 4.1 47.1 1.0
C F:LEU227 4.2 55.3 1.0
O F:HOH652 4.2 45.6 1.0
CA F:LEU227 4.3 50.3 1.0
N F:THR212 4.3 48.3 1.0
CB F:ASN228 4.4 62.2 1.0
CB F:THR212 4.5 48.7 1.0
O F:HIS210 4.5 52.9 1.0
CG F:LYS176 4.6 62.1 1.0
CA F:ASN228 4.6 61.4 1.0
CB F:LYS176 4.9 56.6 1.0
O F:LEU227 4.9 56.0 1.0
CA F:LEU211 5.0 50.6 1.0
C F:LEU211 5.0 49.3 1.0

Mercury binding site 6 out of 24 in 7byf

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Mercury binding site 6 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg504

b:39.2
occ:0.51
CB F:CYS274 2.6 52.9 1.0
SG F:CYS274 2.7 57.7 1.0
O F:THR276 3.2 67.3 1.0
CA F:CYS274 3.4 54.8 1.0
CD1 F:LEU345 3.4 52.0 1.0
CB F:LEU345 3.8 52.3 1.0
CD1 F:LEU351 3.9 42.5 1.0
C F:THR276 4.0 65.8 1.0
C F:CYS274 4.1 63.9 1.0
O F:LEU345 4.1 54.8 1.0
CB F:ARG278 4.1 62.1 1.0
N F:ARG278 4.2 60.7 1.0
CD1 F:LEU288 4.2 51.7 1.0
N F:ASP275 4.3 67.3 1.0
CG F:LEU345 4.3 50.4 1.0
N F:THR276 4.4 67.5 1.0
OG1 F:THR276 4.6 67.7 1.0
N F:CYS274 4.7 48.5 1.0
NA F:NA502 4.7 54.1 1.0
N F:GLU277 4.8 59.6 1.0
CA F:THR276 4.8 66.4 1.0
CA F:GLU277 4.8 57.6 1.0
CA F:ARG278 4.8 62.0 1.0
CG F:LEU351 4.8 41.0 1.0
C F:GLU277 4.8 66.7 1.0
O F:CYS274 4.9 57.3 1.0
CD2 F:LEU351 4.9 45.2 1.0
C F:LEU345 4.9 57.5 1.0
CA F:LEU345 5.0 56.6 1.0

Mercury binding site 7 out of 24 in 7byf

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Mercury binding site 7 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 7 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg505

b:29.1
occ:0.64
SG F:CYS133 2.4 43.5 1.0
N F:CYS133 3.2 46.5 1.0
C F:SER132 3.2 51.2 1.0
CB F:CYS133 3.5 42.0 1.0
O F:SER132 3.6 49.3 1.0
CA F:CYS133 3.6 43.3 1.0
CA F:SER132 3.7 47.9 1.0
N F:SER132 4.1 44.6 1.0
O F:PHE190 4.2 43.0 1.0
CD2 F:PHE254 4.2 48.7 1.0
CB F:PHE254 4.4 45.8 1.0
CG F:PHE254 4.6 44.9 1.0
CA F:ALA257 4.8 46.5 1.0
C F:MET131 4.9 48.9 1.0
CB F:ALA257 4.9 36.9 1.0
CE2 F:PHE258 4.9 47.4 1.0
O F:ALA256 5.0 47.9 1.0

Mercury binding site 8 out of 24 in 7byf

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Mercury binding site 8 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 8 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg506

b:51.9
occ:0.42
CB F:CYS375 2.8 37.7 1.0
O F:HOH670 3.2 28.9 1.0
N F:CYS375 3.2 35.8 1.0
CG2 F:THR384 3.2 43.0 1.0
SG F:CYS375 3.3 51.2 1.0
CA F:CYS375 3.4 35.8 1.0
HG F:HG507 3.6 30.4 0.3
OG1 F:THR373 3.9 40.7 1.0
CB F:THR384 4.0 48.1 1.0
O F:THR373 4.0 52.6 1.0
O F:CYS375 4.1 32.6 1.0
C F:ILE374 4.2 42.1 1.0
C F:CYS375 4.2 36.4 1.0
O F:HOH668 4.2 36.9 1.0
O F:THR384 4.3 48.0 1.0
C F:THR373 4.6 51.1 1.0
CA F:ILE374 4.8 43.2 1.0
O F:ILE374 4.9 35.6 1.0
OG1 F:THR384 4.9 53.1 1.0
N F:ILE374 5.0 42.6 1.0
C F:THR384 5.0 49.9 1.0

Mercury binding site 9 out of 24 in 7byf

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Mercury binding site 9 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 9 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg507

b:30.4
occ:0.32
O F:HOH645 2.4 39.9 1.0
O F:CYS375 2.6 32.6 1.0
C F:CYS375 3.0 36.4 1.0
CB F:THR384 3.3 48.1 1.0
OG1 F:THR384 3.3 53.1 1.0
CB F:CYS375 3.5 37.7 1.0
CB F:SER81 3.6 33.4 1.0
HG F:HG506 3.6 51.9 0.4
N F:TYR376 3.7 33.5 1.0
CA F:CYS375 3.7 35.8 1.0
CG2 F:THR384 3.9 43.0 1.0
CA F:TYR376 4.1 36.2 1.0
O F:HOH668 4.1 36.9 1.0
C F:TYR376 4.1 34.0 1.0
N F:SER377 4.1 36.4 1.0
O F:VAL382 4.3 46.8 1.0
N F:CYS375 4.3 35.8 1.0
CA F:SER81 4.5 37.2 1.0
O F:TYR376 4.5 34.8 1.0
CA F:THR384 4.5 45.3 1.0
N F:THR384 4.6 44.7 1.0
OG F:SER81 4.6 34.7 1.0
O F:HOH670 4.7 28.9 1.0
CB F:SER377 4.8 42.8 1.0
CA F:SER377 5.0 42.7 1.0

Mercury binding site 10 out of 24 in 7byf

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Mercury binding site 10 out of 24 in the The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 10 of The Crystal Structure of Mouse ORF10-RAE1-NUP98 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg508

b:37.4
occ:0.48
O F:HOH616 2.2 36.6 1.0
SG F:CYS385 2.5 42.0 1.0
O F:CYS385 3.0 45.8 1.0
C F:CYS385 3.1 43.3 1.0
CB F:CYS385 3.3 38.5 1.0
N F:GLY386 3.5 45.2 1.0
CA F:CYS385 3.8 41.5 1.0
CA F:GLY386 3.8 51.7 1.0
CD1 F:LEU324 3.9 39.3 1.0
CB F:LEU324 4.0 35.7 1.0
N F:THR372 4.1 64.7 1.0
CD2 F:LEU324 4.2 42.9 1.0
CG F:LEU324 4.2 43.1 1.0
C F:GLY386 4.8 55.5 1.0
N F:ALA387 4.9 59.3 1.0

Reference:

H.Feng, H.Tian, Y.Wang, Q.Zhang, N.Lin, S.Liu, Y.Yu, H.Deng, P.Gao. Molecular Mechanism Underlying Selective Inhibition of Mrna Nuclear Export By Herpesvirus Protein ORF10. Proc.Natl.Acad.Sci.Usa V. 117 26719 2020.
ISSN: ESSN 1091-6490
PubMed: 33033226
DOI: 10.1073/PNAS.2007774117
Page generated: Sat Apr 3 15:59:55 2021

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