Chlorine 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:

Gold	(Au)	4 atoms
Sodium	(Na)	16 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 46;

Binding sites:

The binding sites of Chlorine 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 Chlorine atom.
In total 46 binding sites of Chlorine where determined in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A), PDB code: 7pv5:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl 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:Cl103 b:22.5 occ:1.00 CL1 A:85L103 0.0 22.5 1.0 AU1 A:85L103 2.3 18.6 1.0 CG A:LYS92 3.3 21.1 1.0 O A:HOH349 3.4 47.4 1.0 N A:LYS92 3.5 16.6 1.0 CB A:LYS92 3.6 19.0 1.0 O A:PHE101 3.7 14.5 1.0 CB A:PHE101 3.7 15.2 1.0 C A:PHE101 3.8 12.7 1.0 CG A:LYS90 3.8 20.9 1.0 CD A:LYS90 4.0 23.1 0.5 C A:ILE91 4.0 17.4 1.0 CD A:LYS92 4.0 25.6 1.0 CA A:LYS92 4.2 16.8 1.0 CA A:ILE91 4.2 18.4 1.0 N A:VAL102 4.3 13.4 1.0 O A:LYS90 4.3 20.7 1.0 C A:LYS90 4.3 17.9 1.0 N A:ILE91 4.4 18.2 1.0 CB A:LYS90 4.4 19.3 1.0 CA A:PHE101 4.4 12.4 1.0 SG A:85L103 4.5 19.5 1.0 CE A:LYS92 4.6 33.9 1.0 CA A:VAL102 4.6 13.1 1.0 C A:VAL102 4.7 14.1 1.0 CE A:LYS90 4.7 28.1 0.5 N A:85L103 4.7 13.8 1.0 O A:ILE91 4.8 21.3 1.0 CG A:PHE101 4.9 14.9 1.0 CD A:LYS62 4.9 21.5 1.0 CG A:LYS62 5.0 21.0 1.0

Chlorine binding site 2 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl 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:Cl103 b:40.1 occ:0.90 CL2 A:85L103 0.0 40.1 0.9 AU2 A:85L103 2.3 23.8 0.9 O A:HOH334 3.2 42.1 1.0 O A:HOH360 3.5 65.9 1.0 O A:HOH327 4.0 47.0 1.0 CD A:LYS90 4.1 23.1 0.5 SG A:85L103 4.5 19.5 1.0 NZ A:LYS90 4.7 33.4 0.5 CG1 A:ILE60 4.7 36.4 1.0 CD1 A:ILE60 4.8 37.6 1.0 CE A:LYS90 5.0 28.1 0.5

Chlorine binding site 3 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl 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:Cl103 b:22.8 occ:1.00 CL1 B:85L103 0.0 22.8 1.0 AU1 B:85L103 2.3 19.6 1.0 CG B:LYS92 3.4 19.6 1.0 N B:LYS92 3.6 17.7 1.0 CB B:PHE101 3.6 13.7 1.0 O B:PHE101 3.7 15.1 1.0 CD B:LYS90 3.7 28.5 1.0 CB B:LYS92 3.7 18.9 1.0 CL B:CL208 3.7 66.9 1.0 CD B:LYS92 3.8 22.4 1.0 CG B:LYS90 3.8 24.3 1.0 C B:PHE101 3.8 15.0 1.0 C B:ILE91 4.0 17.8 1.0 CE B:LYS92 4.1 29.6 1.0 CA B:LYS92 4.3 16.5 1.0 N B:VAL102 4.3 15.1 1.0 CA B:ILE91 4.3 16.6 1.0 CB B:LYS90 4.3 21.9 1.0 C B:LYS90 4.4 19.2 1.0 O B:LYS90 4.4 18.4 1.0 CA B:PHE101 4.4 13.8 1.0 N B:ILE91 4.4 18.8 1.0 SG B:85L103 4.5 21.6 1.0 CA B:VAL102 4.6 15.0 1.0 CD B:LYS62 4.6 20.5 1.0 C B:VAL102 4.8 14.3 1.0 O B:ILE91 4.8 21.9 1.0 N B:85L103 4.8 16.9 1.0 CG B:PHE101 4.8 14.7 1.0

Chlorine binding site 4 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl 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:Cl103 b:40.0 occ:0.90 CL2 B:85L103 0.0 40.0 0.9 AU2 B:85L103 2.3 26.2 0.9 NZ B:LYS90 3.0 39.1 1.0 CE B:LYS90 3.4 33.2 1.0 CD1 B:ILE60 3.9 42.5 1.0 CL B:CL206 4.1 64.8 1.0 CD B:LYS90 4.5 28.5 1.0 SG B:85L103 4.6 21.6 1.0 NA B:NA231 4.7 49.4 1.0 CG1 B:ILE60 5.0 33.9 1.0

Chlorine binding site 5 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 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:Cl202 b:22.0 occ:1.00 O A:HOH325 3.0 44.3 1.0 N A:GLY69 3.2 13.9 1.0 CA A:GLY69 3.6 14.3 1.0 CA A:GLU98 3.7 13.9 0.5 N A:MET68 3.7 13.3 1.0 CA A:GLU98 3.7 14.2 0.5 CG A:GLU98 3.7 17.8 0.5 CA A:ASN67 3.7 15.1 1.0 C A:ASN67 3.8 14.1 1.0 CB A:GLU98 3.8 16.6 0.5 CE A:LYS125 3.8 27.4 1.0 OD1 A:ASN67 3.9 18.9 1.0 NA A:NA224 3.9 44.8 1.0 NZ A:LYS125 4.0 30.9 1.0 CG A:GLU98 4.0 21.1 0.5 CB A:GLU98 4.1 16.2 0.5 C A:MET68 4.3 13.5 1.0 O A:GLU98 4.4 13.8 0.5 O A:ASN67 4.4 16.7 1.0 N A:GLU98 4.4 14.2 0.5 CD A:GLU98 4.4 20.0 0.5 N A:ASN67 4.5 13.8 1.0 O A:GLU98 4.5 13.4 0.5 N A:GLU98 4.5 14.3 0.5 OE1 A:GLU98 4.6 30.5 0.5 C A:GLU98 4.6 13.9 0.5 CA A:MET68 4.6 12.9 1.0 C A:GLU98 4.6 13.8 0.5 CG A:ASN67 4.7 15.5 1.0 C A:GLY69 4.8 13.4 1.0 CB A:ASN67 4.9 14.1 1.0 CD A:GLU98 4.9 19.1 0.5 O A:GLY69 5.0 16.5 1.0

Chlorine binding site 6 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 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:Cl203 b:41.6 occ:1.00 OG1 A:THR83 2.8 19.9 1.0 O A:HOH333 2.9 18.8 1.0 O A:HOH331 3.5 21.7 1.0 CB A:THR83 3.6 15.2 1.0 OE2 B:GLU115 3.7 31.1 0.4 CA A:LEU79 3.7 15.1 1.0 O A:HOH357 3.8 38.9 1.0 CD1 A:LEU79 3.9 19.6 1.0 CG2 A:THR83 4.0 17.2 1.0 CB A:LEU79 4.0 15.7 1.0 N A:LEU79 4.1 11.7 1.0 NE1 A:TRP122 4.2 16.6 1.0 O B:HOH306 4.3 33.0 1.0 CD B:GLU115 4.4 22.7 0.4 O A:HOH304 4.4 56.8 1.0 CG A:LYS78 4.5 28.0 1.0 CD1 A:TRP122 4.6 15.1 1.0 C A:LYS78 4.6 13.7 1.0 CG A:LEU79 4.6 16.8 1.0 CD A:LYS78 4.7 38.3 1.0 NA A:NA221 4.7 34.1 1.0 NZ A:LYS78 4.7 52.7 1.0 CE A:LYS78 4.8 49.4 1.0 O A:LYS78 4.8 18.0 1.0 OE1 B:GLU115 4.9 28.2 0.4 C A:LEU79 5.0 13.0 1.0

Chlorine binding site 7 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 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:Cl204 b:30.1 occ:0.50 CL A:CL204 0.0 30.1 0.5 CL A:CL204 1.9 37.5 0.5 O A:HOH322 3.4 39.9 1.0 CB A:ASN118 3.7 14.1 1.0 O A:ASN118 4.2 17.6 1.0 O A:HOH372 4.5 40.0 1.0 CG A:ASN118 4.6 12.1 1.0 C A:ASN118 4.7 14.2 1.0 CA A:ASN118 4.8 14.3 1.0 O A:HOH353 4.8 46.8 1.0

Chlorine binding site 8 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 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:Cl204 b:37.5 occ:0.50 CL A:CL204 0.0 37.5 0.5 CL A:CL204 1.9 30.1 0.5 O A:HOH322 2.6 39.9 1.0 O A:ASN118 3.1 17.6 1.0 O A:HOH353 3.2 46.8 1.0 C A:ASN118 4.0 14.2 1.0 CB A:ASN118 4.1 14.1 1.0 O A:HOH372 4.4 40.0 1.0 O A:HOH369 4.5 32.1 0.5 CA A:ASN118 4.7 14.3 1.0 O A:GLU115 4.8 21.3 1.0 N A:GLY119 4.8 15.5 1.0

Chlorine binding site 9 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 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:Cl205 b:49.3 occ:1.00 NZ A:LYS121 3.1 45.1 1.0 CA A:GLY124 3.9 15.9 1.0 O A:HOH337 4.3 28.8 1.0 CE A:LYS121 4.3 45.4 1.0 O A:GLY124 4.7 16.8 1.0 C A:GLY124 4.7 14.4 1.0 N A:GLY124 4.8 14.7 1.0 CD A:LYS121 5.0 32.5 1.0

Chlorine binding site 10 out of 46 in the Rbd Domain of D. Melanogaster Trna (Uracil-5-)-Methyltransferase Homolog A (TRMT2A)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 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:Cl206 b:15.3 occ:1.00 O A:HOH361 3.1 33.0 1.0 O A:HOH319 3.2 17.0 1.0 N A:TYR70 3.3 11.9 1.0 CA A:GLY69 3.6 14.3 1.0 CD1 A:TYR70 4.0 16.9 1.0 C A:GLY69 4.0 13.4 1.0 CB A:TYR70 4.2 15.0 1.0 CA A:TYR70 4.2 15.0 1.0 O A:TYR70 4.3 14.9 1.0 CG A:TYR70 4.6 14.3 1.0 O A:LYS123 4.6 14.0 1.0 CG A:LYS125 4.7 18.2 1.0 C A:TYR70 4.8 15.3 1.0 N A:GLY69 4.8 13.9 1.0 CD A:LYS125 4.8 20.3 1.0 O A:MET68 4.9 16.4 1.0 CE A:LYS125 5.0 27.4 1.0 CE1 A:TYR70 5.0 22.3 1.0

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