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Gold in PDB 3m6e: F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris

Protein crystallography data

The structure of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris, PDB code: 3m6e was solved by E.J.Levin, M.Zhou, New York Consortium On Membrane Protein Structure(Nycomps), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.89 / 2.65
Space group P 63
Cell size a, b, c (Å), α, β, γ (°) 110.558, 110.558, 84.523, 90.00, 90.00, 120.00
R / Rfree (%) 19.4 / 22.4

Gold Binding Sites:

The binding sites of Gold atom in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris (pdb code 3m6e). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 9 binding sites of Gold where determined in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris, PDB code: 3m6e:
Jump to Gold binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Gold binding site 1 out of 9 in 3m6e

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Gold binding site 1 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au338

b:0.1
occ:0.40
OE1 A:GLN24 3.7 68.2 1.0
O A:HOH354 3.7 70.9 1.0
O A:ALA322 3.9 97.2 1.0
NE2 A:GLN24 4.1 71.7 1.0
O A:PHE27 4.3 77.8 1.0
CD A:GLN24 4.3 71.5 1.0
CB A:PHE27 4.8 75.7 1.0
CG2 A:ILE255 4.9 72.0 1.0
C A:PHE27 4.9 77.3 1.0

Gold binding site 2 out of 9 in 3m6e

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Gold binding site 2 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au339

b:97.2
occ:0.55
SG A:CYS19 1.3 84.8 1.0
AU A:AU340 2.8 0.6 0.5
CB A:CYS19 3.2 82.5 1.0
CD1 A:LEU35 3.3 93.5 1.0
CB A:LEU35 3.7 90.6 1.0
AU A:AU345 3.7 0.9 0.4
CG2 A:THR31 3.8 94.1 1.0
CG A:LEU35 3.9 93.1 1.0
O A:THR31 4.0 90.9 1.0
CD2 A:LEU35 4.2 95.7 1.0
CA A:CYS19 4.2 80.4 1.0
CA A:LEU35 4.5 89.6 1.0
SG A:CYS15 4.5 92.6 1.0
AU A:AU346 4.7 0.8 0.4
C A:THR31 4.7 91.1 1.0
N A:LEU35 4.8 88.4 1.0
O A:CYS15 4.9 87.8 1.0

Gold binding site 3 out of 9 in 3m6e

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Gold binding site 3 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au340

b:0.6
occ:0.50
SG A:CYS15 1.9 92.6 1.0
SG A:CYS19 2.4 84.8 1.0
O A:CYS15 2.6 87.8 1.0
AU A:AU339 2.8 97.2 0.6
AU A:AU345 3.0 0.9 0.4
CB A:CYS19 3.1 82.5 1.0
AU A:AU346 3.3 0.8 0.4
N A:CYS19 3.4 81.4 1.0
C A:CYS15 3.4 89.7 1.0
CA A:CYS19 3.5 80.4 1.0
CB A:CYS15 3.6 93.5 1.0
CA A:CYS15 4.1 92.0 1.0
N A:ASP16 4.3 89.2 1.0
C A:VAL18 4.5 80.1 1.0
CA A:ASP16 4.7 87.2 1.0
CB A:VAL18 4.9 82.5 1.0
CD1 A:LEU35 4.9 93.5 1.0

Gold binding site 4 out of 9 in 3m6e

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Gold binding site 4 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au341

b:86.5
occ:0.60
SG A:CYS51 2.5 96.7 1.0
AU A:AU343 2.9 94.8 0.6
CD1 A:LEU100 3.0 88.5 1.0
O A:THR47 3.3 92.4 1.0
CG2 A:THR47 3.5 96.5 1.0
N A:CYS51 3.5 90.0 1.0
CG1 A:VAL50 3.7 94.6 1.0
CB A:VAL50 3.7 94.2 1.0
CB A:CYS51 3.7 87.9 1.0
CA A:CYS51 4.0 88.7 1.0
C A:VAL50 4.1 91.0 1.0
C A:THR47 4.2 92.5 1.0
CG A:LEU100 4.5 88.0 1.0
CA A:VAL50 4.5 92.2 1.0
CA A:THR47 4.5 95.5 1.0
CB A:THR47 4.6 96.3 1.0
O A:VAL50 4.8 91.1 1.0
CD2 A:LEU100 4.9 91.4 1.0
CG2 A:VAL50 4.9 95.9 1.0

Gold binding site 5 out of 9 in 3m6e

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Gold binding site 5 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 5 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au342

b:0.8
occ:0.45
SG A:CYS224 2.7 84.3 1.0
AU A:AU344 2.9 0.5 0.4
CB A:CYS224 3.1 81.0 1.0
CA A:CYS224 4.7 79.0 1.0

Gold binding site 6 out of 9 in 3m6e

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Gold binding site 6 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 6 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au343

b:94.8
occ:0.60
SG A:CYS51 1.8 96.7 1.0
AU A:AU341 2.9 86.5 0.6
CG2 A:THR47 3.5 96.5 1.0
CB A:CYS51 3.6 87.9 1.0
CG A:MET99 3.7 83.5 1.0
CG A:PRO90 3.8 71.9 1.0
CD1 A:LEU100 3.9 88.5 1.0
CB A:PRO90 4.0 72.4 1.0
O A:THR47 4.3 92.4 1.0
CB A:MET99 4.7 82.8 1.0
CA A:CYS51 4.8 88.7 1.0
CB A:THR47 4.8 96.3 1.0
CD A:PRO90 4.9 70.8 1.0
C A:THR47 4.9 92.5 1.0
SD A:MET99 4.9 87.1 1.0
CD2 A:TYR95 5.0 90.2 1.0

Gold binding site 7 out of 9 in 3m6e

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Gold binding site 7 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 7 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au344

b:0.5
occ:0.40
SG A:CYS224 1.7 84.3 1.0
CB A:CYS224 2.7 81.0 1.0
AU A:AU342 2.9 0.8 0.5
CA A:CYS224 3.8 79.0 1.0
O A:CYS224 4.3 78.0 1.0
C A:CYS224 4.5 77.1 1.0
CD1 A:LEU227 4.7 80.8 1.0
CE1 A:PHE177 4.8 96.0 1.0
CB A:LEU227 4.8 80.6 1.0
CG1 A:ILE228 4.8 83.7 1.0
CZ A:PHE177 4.9 99.8 1.0
CD1 A:ILE228 5.0 83.8 1.0

Gold binding site 8 out of 9 in 3m6e

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Gold binding site 8 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 8 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au345

b:0.9
occ:0.40
AU A:AU346 2.9 0.8 0.4
AU A:AU340 3.0 0.6 0.5
SG A:CYS19 3.1 84.8 1.0
SG A:CYS15 3.2 92.6 1.0
CB A:CYS15 3.6 93.5 1.0
C A:CYS15 3.7 89.7 1.0
O A:CYS15 3.7 87.8 1.0
AU A:AU339 3.7 97.2 0.6
N A:ASP16 3.7 89.2 1.0
CA A:ASP16 4.0 87.2 1.0
CA A:CYS15 4.3 92.0 1.0
CD1 A:ILE12 4.3 0.7 1.0
CB A:CYS19 4.4 82.5 1.0
O A:ILE12 4.6 98.1 1.0
CB A:ASP16 4.6 88.3 1.0
CG2 A:THR31 4.9 94.1 1.0
OD1 A:ASP16 5.0 89.5 1.0
CG1 A:ILE12 5.0 1.0 1.0

Gold binding site 9 out of 9 in 3m6e

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Gold binding site 9 out of 9 in the F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 9 of F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au346

b:0.8
occ:0.40
SG A:CYS15 2.5 92.6 1.0
AU A:AU345 2.9 0.9 0.4
CB A:CYS15 3.0 93.5 1.0
AU A:AU340 3.3 0.6 0.5
CD1 A:ILE12 4.2 0.7 1.0
CA A:CYS15 4.4 92.0 1.0
C A:CYS15 4.6 89.7 1.0
O A:CYS15 4.7 87.8 1.0
SG A:CYS19 4.7 84.8 1.0
AU A:AU339 4.7 97.2 0.6

Reference:

E.J.Levin, M.Zhou. F80A Mutant of the Urea Transporter From Desulfovibrio Vulgaris To Be Published.
Page generated: Sat Dec 12 01:53:44 2020

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