Manganese in PDB 3bam: Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex)

All present enzymatic activity of Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex):
3.1.21.4;

The structure of Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex), PDB code: 3bam was solved by H.Viadiu, A.K.Aggarwal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	106.400, 79.600, 67.600, 90.00, 90.00, 90.00
R / Rfree (%)	22.6 / 26.8

The binding sites of Manganese atom in the Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex) (pdb code 3bam). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex), PDB code: 3bam:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn902 b:75.8 occ:1.00 OD1 A:ASP94 2.8 39.9 1.0 O3' D:DG4 2.9 26.5 1.0 O A:HOH903 3.0 41.3 1.0 C3' D:DG4 3.1 22.7 1.0 O A:HOH912 3.3 33.4 1.0 OE1 A:GLU111 3.5 36.5 1.0 C4' D:DG4 3.6 23.5 1.0 CG A:ASP94 3.6 34.9 1.0 O A:PRO92 3.6 27.7 1.0 OP3 E:DG1 3.8 25.5 1.0 MN A:MN901 3.9 44.9 1.0 O A:HOH902 3.9 0.8 1.0 N A:ASP94 4.0 31.2 1.0 OD2 A:ASP94 4.0 39.0 1.0 C5' D:DG4 4.1 25.9 1.0 CA A:ASP94 4.4 31.1 1.0 CD A:GLU111 4.5 36.1 1.0 C A:ILE93 4.5 31.9 1.0 CB A:ASP94 4.6 31.2 1.0 C2' D:DG4 4.6 22.2 1.0 C A:PRO92 4.7 27.6 1.0 OE2 A:GLU111 4.7 38.9 1.0 CA A:ILE93 4.7 29.1 1.0 O A:HOH1024 4.8 48.6 1.0 O4' D:DG4 4.9 23.4 1.0 P E:DG1 4.9 30.8 1.0 O5' D:DG4 4.9 28.5 1.0 OP2 E:DG1 4.9 38.5 1.0 O5' E:DG1 4.9 30.1 1.0

Manganese binding site 2 out of 2 in the Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Restriction Endonuclease Bamhi Complex with Dna and Manganese Ions (Post-Reactive Complex) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn901 b:44.9 occ:1.00 OP2 E:DG1 2.3 38.5 1.0 O A:HOH902 2.5 0.8 1.0 OD2 A:ASP94 2.5 39.0 1.0 O A:PHE112 2.5 33.7 1.0 OD1 A:ASP94 3.1 39.9 1.0 CG A:ASP94 3.1 34.9 1.0 P E:DG1 3.3 30.8 1.0 O A:HOH905 3.3 17.9 1.0 O5' E:DG1 3.4 30.1 1.0 OP3 E:DG1 3.6 25.5 1.0 C A:PHE112 3.7 29.0 1.0 MN D:MN902 3.9 75.8 1.0 O3' D:DG4 4.1 26.5 1.0 N A:PHE112 4.2 28.4 1.0 OH A:TYR65 4.3 46.2 1.0 CA A:PHE112 4.5 28.9 1.0 OE1 A:GLU111 4.5 36.5 1.0 CB A:ASP94 4.6 31.2 1.0 OP1 E:DG1 4.6 34.4 1.0 N A:GLU113 4.7 27.6 1.0 C5' E:DG1 4.7 24.8 1.0 CB A:PHE112 4.7 30.8 1.0 CA A:GLU113 4.8 25.1 1.0 OE2 A:GLU113 4.9 20.8 1.0

H.Viadiu, A.K.Aggarwal. The Role of Metals in Catalysis By the Restriction Endonuclease Bamhi. Nat.Struct.Biol. V. 5 910 1998.
ISSN: ISSN 1072-8368
PubMed: 9783752
DOI: 10.1038/2352