Calcium in PDB 2bam: Restriction Endonuclease Bamhi Complex with Dna and Calcium Ions (Pre- Reactive Complex).

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

The structure of Restriction Endonuclease Bamhi Complex with Dna and Calcium Ions (Pre- Reactive Complex)., PDB code: 2bam 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 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	105.200, 79.400, 66.400, 90.00, 90.00, 90.00
R / Rfree (%)	23.3 / 25.1

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

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


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Restriction Endonuclease Bamhi Complex with Dna and Calcium Ions (Pre- Reactive Complex). within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:30.8 occ:1.00 OP1 D:DG5 2.3 22.2 1.0 O A:PHE112 2.4 11.4 1.0 O D:HOH13 2.5 15.1 1.0 OD2 A:ASP94 2.6 19.7 1.0 O A:HOH503 2.7 2.0 1.0 OE2 A:GLU111 2.8 29.3 1.0 OD1 A:ASP94 3.3 22.4 1.0 CG A:ASP94 3.3 19.8 1.0 P D:DG5 3.3 17.0 1.0 O5' D:DG5 3.6 16.3 1.0 C A:PHE112 3.6 13.1 1.0 CD A:GLU111 3.8 31.0 1.0 OP2 D:DG5 3.9 15.7 1.0 OH A:TYR65 4.2 24.4 1.0 N A:PHE112 4.3 12.4 1.0 CA A:CA502 4.3 24.1 1.0 O A:HOH510 4.4 19.1 1.0 CG A:GLU111 4.4 25.6 1.0 CD A:GLU113 4.5 7.0 1.0 CA A:GLU113 4.5 9.4 1.0 CA A:PHE112 4.5 11.1 1.0 N A:GLU113 4.5 11.3 1.0 OE2 A:GLU113 4.6 9.1 1.0 O3' D:DG4 4.6 19.1 1.0 OE1 A:GLU113 4.6 12.5 1.0 OE1 A:GLU111 4.6 22.0 1.0 CB A:ASP94 4.7 15.6 1.0 CD1 A:PHE112 4.7 7.0 1.0 CB A:PHE112 4.7 10.5 1.0 CG A:GLU113 4.8 2.0 1.0 C5' D:DG5 5.0 13.2 1.0

Calcium binding site 2 out of 2 in the Restriction Endonuclease Bamhi Complex with Dna and Calcium Ions (Pre- Reactive Complex).


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Restriction Endonuclease Bamhi Complex with Dna and Calcium Ions (Pre- Reactive Complex). within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:24.1 occ:1.00 OD1 A:ASP94 2.5 22.4 1.0 OP1 D:DG5 2.6 22.2 1.0 O A:HOH504 2.6 16.3 1.0 O D:HOH14 2.6 50.1 1.0 OE1 A:GLU77 2.8 19.9 1.0 O3' D:DG4 3.0 19.1 1.0 O A:HOH510 3.2 19.1 1.0 OE2 A:GLU77 3.4 19.4 1.0 P D:DG5 3.4 17.0 1.0 CD A:GLU77 3.5 21.2 1.0 CG A:ASP94 3.6 19.8 1.0 C3' D:DG4 3.7 15.6 1.0 C4' D:DG4 3.9 15.4 1.0 CA A:ASP94 4.1 16.9 1.0 N A:ASP94 4.2 16.3 1.0 OE2 A:GLU111 4.3 29.3 1.0 CA A:CA501 4.3 30.8 1.0 O A:PRO92 4.3 18.0 1.0 OD2 A:ASP94 4.4 19.7 1.0 O5' D:DG5 4.4 16.3 1.0 CB A:ASP94 4.5 15.6 1.0 OP2 D:DG5 4.5 15.7 1.0 C A:ILE93 4.7 14.6 1.0 OE1 A:GLU111 4.7 22.0 1.0 O A:HOH623 4.7 38.6 1.0 C5' D:DG4 4.8 14.7 1.0 CG A:GLU77 4.9 20.0 1.0 CD A:GLU111 4.9 31.0 1.0 NH2 A:ARG76 4.9 36.8 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