Manganese in PDB 6tvv: Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii

The structure of Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii, PDB code: 6tvv was solved by M.De March, B.Medagli, I.Krastanova, I.Saha, F.Pisani, S.Onesti, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	87.33 / 2.80
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	92.07, 92.07, 275.76, 90, 90, 90
R / Rfree (%)	21.5 / 26.4

The binding sites of Manganese atom in the Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii (pdb code 6tvv). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii, PDB code: 6tvv:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn501 b:57.4 occ:1.00 OD1 A:ASP84 2.4 59.4 1.0 OD2 A:ASP164 2.4 53.2 1.0 OD2 A:ASP34 2.5 37.7 1.0 NE2 A:HIS105 2.6 47.4 1.0 CG A:ASP84 3.1 55.8 1.0 CG A:ASP164 3.2 47.3 1.0 OD1 A:ASP164 3.2 49.3 1.0 MN A:MN502 3.2 73.3 0.5 OD2 A:ASP84 3.3 49.7 1.0 CE1 A:HIS105 3.3 43.7 1.0 CG A:ASP34 3.4 48.2 1.0 CB A:ASP34 3.7 47.5 1.0 CD2 A:HIS105 3.8 49.1 1.0 OD2 A:ASP32 3.9 48.8 1.0 NE2 A:HIS106 4.0 73.9 0.6 CB A:ASP84 4.4 53.8 1.0 ND1 A:HIS105 4.6 41.0 1.0 CB A:ASP164 4.6 49.3 1.0 CD2 A:HIS106 4.6 66.7 0.6 OD1 A:ASP34 4.6 49.8 1.0 CG A:HIS105 4.8 44.1 1.0 CG A:ASP32 4.9 43.4 1.0

Manganese binding site 2 out of 4 in the Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn502 b:73.3 occ:0.50 OD2 A:ASP32 2.0 48.8 1.0 OD2 A:ASP84 2.4 49.7 1.0 ND1 A:HIS30 2.8 76.9 1.0 CE1 A:HIS30 3.1 87.3 1.0 CG A:ASP32 3.1 43.4 1.0 CG A:ASP84 3.2 55.8 1.0 MN A:MN501 3.2 57.4 1.0 OD1 A:ASP84 3.3 59.4 1.0 OD1 A:ASP32 3.6 49.7 1.0 CG A:HIS30 3.9 72.4 1.0 NE2 A:HIS106 4.0 73.9 0.6 NE2 A:HIS30 4.3 96.5 1.0 CB A:ASP32 4.3 36.6 1.0 CE1 A:HIS106 4.4 73.6 0.6 O A:ASP84 4.5 61.8 1.0 CB A:ASP84 4.6 53.8 1.0 CB A:HIS30 4.6 67.2 1.0 CD2 A:HIS30 4.7 76.3 1.0 OD1 A:ASP164 4.8 49.3 1.0

Manganese binding site 3 out of 4 in the Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn501 b:59.0 occ:1.00 OD2 B:ASP34 2.3 55.9 1.0 OD1 B:ASP84 2.4 67.1 1.0 OD2 B:ASP164 2.4 68.4 1.0 NE2 B:HIS105 2.6 53.1 1.0 CG B:ASP84 2.9 66.2 1.0 OD2 B:ASP84 3.1 67.4 1.0 CG B:ASP164 3.2 65.6 1.0 CG B:ASP34 3.3 54.1 1.0 OD1 B:ASP164 3.3 73.9 1.0 CE1 B:HIS105 3.3 53.2 1.0 MN B:MN502 3.4 54.2 0.5 CB B:ASP34 3.5 53.5 1.0 CD2 B:HIS105 3.7 52.2 1.0 NE2 B:HIS106 3.8 88.0 0.8 OD1 B:ASP32 3.8 64.5 1.0 CB B:ASP84 4.3 60.8 1.0 OD1 B:ASP34 4.4 55.1 1.0 ND1 B:HIS105 4.5 46.7 1.0 CE1 B:HIS106 4.6 91.5 0.8 CB B:ASP164 4.6 61.0 1.0 CD2 B:HIS106 4.7 86.1 0.8 CG B:HIS105 4.7 46.6 1.0 CG B:ASP32 4.8 59.2 1.0 N B:ALA137 4.8 54.5 1.0 CB B:ALA137 4.9 60.2 1.0 CA B:ASP34 5.0 52.0 1.0 OD2 B:ASP32 5.0 74.8 1.0

Manganese binding site 4 out of 4 in the Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn502 b:54.2 occ:0.50 OD2 B:ASP84 1.7 67.4 1.0 OD1 B:ASP32 1.9 64.5 1.0 ND1 B:HIS30 2.4 56.0 0.6 CG B:ASP32 2.7 59.2 1.0 CG B:ASP84 2.8 66.2 1.0 OD2 B:ASP32 2.9 74.8 1.0 CE1 B:HIS30 3.0 57.3 0.6 OD1 B:ASP84 3.4 67.1 1.0 MN B:MN501 3.4 59.0 1.0 CG B:HIS30 3.4 56.1 0.6 CB B:HIS30 4.0 57.1 1.0 CB B:ASP32 4.0 56.7 1.0 CB B:ASP84 4.0 60.8 1.0 NE2 B:HIS30 4.1 59.7 0.6 O B:ASP84 4.3 66.5 1.0 CE1 B:HIS106 4.3 91.5 0.8 CD2 B:HIS30 4.4 54.3 0.6 NE2 B:HIS106 4.5 88.0 0.8 CB B:ASP34 4.9 53.5 1.0 OD1 B:ASP164 4.9 73.9 1.0 OD2 B:ASP34 4.9 55.9 1.0

M.De March, B.Medagli, I.Krastanova, I.Saha, F.Pisani, S.Onesti. Crystal Structure of 3'-5' Recj Exonuclease From M. Jannaschii To Be Published.