Gold in PDB 7pv5: Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)

The structure of Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A), PDB code: 7pv5 was solved by M.Witzenberger, R.Janowski, D.Niessing, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.64 / 1.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	92.41, 41.89, 48.82, 90, 110.8, 90
R / Rfree (%)	14.1 / 19.9

The structure of Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) also contains other interesting chemical elements:

Chlorine	(Cl)	46 atoms
Sodium	(Na)	16 atoms

The binding sites of Gold atom in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) (pdb code 7pv5). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 4 binding sites of Gold where determined in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A), PDB code: 7pv5:
Jump to Gold binding site number: 1; 2; 3; 4;

Gold binding site 1 out of 4 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) within 5.0Å range: probe atom residue distance (Å) B Occ A:Au103 b:18.6 occ:1.00 AU1 A:85L103 0.0 18.6 1.0 SG A:85L103 2.3 19.5 1.0 CL1 A:85L103 2.3 22.5 1.0 CB A:85L103 3.1 17.8 1.0 AU2 A:85L103 3.3 23.8 0.9 N A:85L103 3.4 13.8 1.0 C A:VAL102 3.7 14.1 1.0 CA A:85L103 3.7 15.1 1.0 CG A:LYS62 3.8 21.0 1.0 CB A:LYS90 3.9 19.3 1.0 O A:HOH349 3.9 47.4 1.0 O A:LYS90 4.0 20.7 1.0 CE A:LYS62 4.0 25.1 1.0 CD A:LYS90 4.0 23.1 0.5 CG A:LYS90 4.1 20.9 1.0 CD A:LYS62 4.1 21.5 1.0 O A:VAL102 4.2 15.8 1.0 CA A:VAL102 4.3 13.1 1.0 N A:VAL102 4.3 13.4 1.0 C A:LYS90 4.4 17.9 1.0 CB A:LYS62 4.5 17.7 1.0 C A:PHE101 4.6 12.7 1.0 CA A:LYS90 4.8 18.5 1.0 O A:PHE101 4.8 14.5 1.0 CB A:PHE101 4.9 15.2 1.0

Gold binding site 2 out of 4 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) within 5.0Å range: probe atom residue distance (Å) B Occ A:Au103 b:23.8 occ:0.90 AU2 A:85L103 0.0 23.8 0.9 CL2 A:85L103 2.3 40.1 0.9 SG A:85L103 2.3 19.5 1.0 CB A:85L103 3.1 17.8 1.0 AU1 A:85L103 3.3 18.6 1.0 O A:HOH334 3.5 42.1 1.0 O A:HOH360 3.5 65.9 1.0 O A:HOH327 3.8 47.0 1.0 CG2 A:ILE60 4.0 31.2 1.0 CD A:LYS90 4.1 23.1 0.5 CB A:LYS90 4.4 19.3 1.0 O A:HOH317 4.6 22.6 1.0 CA A:85L103 4.6 15.1 1.0 CG1 A:ILE60 4.7 36.4 1.0 OG1 A:THR89 4.7 21.2 1.0 CE A:LYS62 4.8 25.1 1.0 O A:HOH349 4.8 47.4 1.0 CG A:LYS90 4.8 20.9 1.0 CB A:ILE60 4.8 30.6 1.0

Gold binding site 3 out of 4 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) within 5.0Å range: probe atom residue distance (Å) B Occ B:Au103 b:19.6 occ:1.00 AU1 B:85L103 0.0 19.6 1.0 SG B:85L103 2.2 21.6 1.0 CL1 B:85L103 2.3 22.8 1.0 CB B:85L103 3.1 20.6 1.0 AU2 B:85L103 3.4 26.2 0.9 N B:85L103 3.4 16.9 1.0 C B:VAL102 3.7 14.3 1.0 CA B:85L103 3.7 17.7 1.0 CD B:LYS90 3.8 28.5 1.0 CB B:LYS90 3.8 21.9 1.0 CD B:LYS62 3.9 20.5 1.0 CG B:LYS62 3.9 20.4 1.0 CG B:LYS90 4.1 24.3 1.0 O B:LYS90 4.1 18.4 1.0 CL B:CL208 4.2 66.9 1.0 O B:VAL102 4.3 17.0 1.0 CA B:VAL102 4.3 15.0 1.0 N B:VAL102 4.4 15.1 1.0 C B:LYS90 4.4 19.2 1.0 CB B:LYS62 4.6 17.9 1.0 C B:PHE101 4.6 15.0 1.0 CE B:LYS90 4.7 33.2 1.0 CA B:LYS90 4.7 19.9 1.0 O B:PHE101 4.8 15.1 1.0 CE B:LYS62 4.9 24.1 1.0 CB B:PHE101 4.9 13.7 1.0

Gold binding site 4 out of 4 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) within 5.0Å range: probe atom residue distance (Å) B Occ B:Au103 b:26.2 occ:0.90 AU2 B:85L103 0.0 26.2 0.9 SG B:85L103 2.3 21.6 1.0 CL2 B:85L103 2.3 40.0 0.9 CB B:85L103 3.1 20.6 1.0 AU1 B:85L103 3.4 19.6 1.0 CE B:LYS90 3.9 33.2 1.0 CL B:CL206 4.0 64.8 1.0 NZ B:LYS90 4.0 39.1 1.0 CG2 B:ILE60 4.1 28.3 1.0 CD1 B:ILE60 4.2 42.5 1.0 CD B:LYS90 4.2 28.5 1.0 NA B:NA231 4.3 49.4 1.0 CL B:CL217 4.3 43.0 1.0 CB B:LYS90 4.4 21.9 1.0 OG1 B:THR89 4.5 29.0 1.0 CA B:85L103 4.6 17.7 1.0 CG1 B:ILE60 4.9 33.9 1.0 CG B:LYS90 4.9 24.3 1.0

M.Witzenberger, R.Janowski, D.Niessing. Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A) To Be Published.