Bromine in PDB 6p1m: Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG

All present enzymatic activity of Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG:
2.7.7.7;

The structure of Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG, PDB code: 6p1m was solved by A.M.Kaminski, L.C.Pedersen, K.Bebenek, K.K.Chiruvella, D.A.Ramsden, T.A.Kunkel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.13 / 1.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	59.929, 68.263, 110.413, 90.00, 90.00, 90.00
R / Rfree (%)	16.6 / 19

The structure of Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG also contains other interesting chemical elements:

Potassium	(K)	1 atom
Chlorine	(Cl)	2 atoms

The binding sites of Bromine atom in the Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG (pdb code 6p1m). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG, PDB code: 6p1m:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in the Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG within 5.0Å range: probe atom residue distance (Å) B Occ A:Br501 b:21.3 occ:0.73 O A:HOH770 3.0 32.7 0.8 N A:GLU475 3.4 13.8 1.0 CA A:SER474 3.6 15.7 1.0 CD2 A:LEU431 3.9 13.2 1.0 C A:SER474 4.0 13.4 1.0 CG A:GLU475 4.0 13.3 1.0 CA A:PRO428 4.1 14.1 1.0 CE2 A:PHE427 4.2 17.8 1.0 CB A:PRO428 4.2 16.3 1.0 CD2 A:PHE427 4.2 15.9 1.0 O A:HOH813 4.3 16.6 1.0 CB A:SER474 4.3 15.1 1.0 CG A:PRO428 4.4 20.4 1.0 O A:HOH611 4.4 38.0 1.0 CA A:GLU475 4.5 12.8 1.0 CB A:GLU475 4.6 13.4 1.0 O A:ALA473 4.6 19.0 1.0 N A:SER474 4.7 17.1 1.0 N A:PRO428 4.7 14.2 1.0 O A:HOH875 4.8 43.8 1.0 CD A:GLU475 4.9 14.9 1.0

Bromine binding site 2 out of 2 in the Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Binary Complex of Human Dna Polymerase Mu with 1-Nt Gapped Substrate Containing Template 8OG within 5.0Å range: probe atom residue distance (Å) B Occ A:Br504 b:19.2 occ:0.78 OG A:SER458 3.2 18.2 1.0 N A:SER458 3.4 13.5 1.0 NH2 A:ARG387 3.4 19.0 1.0 NH1 A:ARG445 3.5 16.2 1.0 C1' T:DA7 3.5 17.9 1.0 NH2 A:ARG445 3.5 14.8 1.0 CB A:SER458 3.7 15.9 1.0 C2' T:DA7 3.8 17.2 1.0 CB A:ASN457 3.9 15.9 1.0 CZ A:ARG445 4.0 16.5 1.0 O4' T:DA7 4.0 18.5 1.0 CA A:SER458 4.1 12.6 1.0 O2 T:DT6 4.2 16.2 1.0 O1 A:EDO510 4.2 16.2 1.0 C2 A:EDO510 4.2 18.6 1.0 C4' T:DA7 4.3 21.2 1.0 C A:ASN457 4.4 15.5 1.0 CA A:ASN457 4.4 14.0 1.0 C1 A:EDO510 4.5 17.7 1.0 CZ A:ARG387 4.5 16.7 1.0 N9 T:DA7 4.7 18.7 1.0 NH1 A:ARG387 4.7 16.3 1.0 C3' T:DA7 4.7 18.4 1.0 CG A:ASN457 4.7 16.6 1.0 N3 T:DA7 4.8 18.2 1.0

A.M.Kaminski, K.K.Chiruvella, D.A.Ramsden, T.A.Kunkel, K.Bebenek, L.C.Pedersen. Unexpected Behavior of Dna Polymerase Mu Opposite Template 8-Oxo-7,8-Dihydro-2'-Guanosine. Nucleic Acids Res. V. 47 9410 2019.
ISSN: ESSN 1362-4962
PubMed: 31435651
DOI: 10.1093/NAR/GKZ680