Magnesium in PDB 1f1z: Tnsa, A Catalytic Component of the TN7 Transposition System

The structure of Tnsa, A Catalytic Component of the TN7 Transposition System, PDB code: 1f1z was solved by A.B.Hickman, Y.Li, S.V.Mathew, E.W.May, N.L.Craig, F.Dyda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	38.350, 83.680, 97.940, 90.00, 94.07, 90.00
R / Rfree (%)	20.2 / 25.4

The structure of Tnsa, A Catalytic Component of the TN7 Transposition System also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Magnesium atom in the Tnsa, A Catalytic Component of the TN7 Transposition System (pdb code 1f1z). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Tnsa, A Catalytic Component of the TN7 Transposition System, PDB code: 1f1z:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Tnsa, A Catalytic Component of the TN7 Transposition System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tnsa, A Catalytic Component of the TN7 Transposition System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2001 b:38.7 occ:1.00 O A:HOH1005 2.0 23.9 1.0 O A:HOH1010 2.0 51.0 1.0 O A:HOH1004 2.1 39.5 1.0 O A:HOH1006 2.1 33.6 1.0 OD1 A:ASP114 2.3 34.7 1.0 O A:HOH1007 2.6 13.8 1.0 CG A:ASP114 3.5 35.5 1.0 MG A:MG2002 3.9 35.5 1.0 O A:HOH1003 3.9 56.9 1.0 OE1 A:GLN82 4.0 35.4 1.0 OD2 A:ASP114 4.0 31.2 1.0 O A:SER112 4.1 34.4 1.0 OE1 A:GLN130 4.2 30.1 1.0 OG A:SER112 4.3 34.0 1.0 O A:HOH1009 4.3 44.2 1.0 NE2 A:GLN130 4.4 23.5 1.0 OE2 A:GLU63 4.6 41.6 1.0 CD1 A:LEU33 4.7 52.2 1.0 CB A:ASP114 4.7 33.8 1.0 CD A:GLN130 4.7 25.6 1.0 N A:ASP114 4.8 37.0 1.0 CA A:ASP114 4.8 35.3 1.0 C A:SER112 5.0 35.5 1.0

Magnesium binding site 2 out of 4 in the Tnsa, A Catalytic Component of the TN7 Transposition System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tnsa, A Catalytic Component of the TN7 Transposition System within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2002 b:35.5 occ:1.00 O A:HOH1009 2.0 44.2 1.0 O A:HOH1007 2.1 13.8 1.0 O A:HOH1008 2.1 37.5 1.0 O A:VAL131 2.1 35.4 1.0 OE1 A:GLN130 2.2 30.1 1.0 OD2 A:ASP114 2.7 31.2 1.0 C A:VAL131 3.4 34.3 1.0 CD A:GLN130 3.4 25.6 1.0 CG A:LYS132 3.5 40.1 1.0 CG A:ASP114 3.5 35.5 1.0 OD1 A:ASP114 3.6 34.7 1.0 NZ A:LYS132 3.9 56.0 1.0 MG A:MG2001 3.9 38.7 1.0 CE A:LYS132 4.1 54.6 1.0 O A:HOH1006 4.2 33.6 1.0 N A:VAL131 4.2 31.9 1.0 NE2 A:GLN130 4.2 23.5 1.0 O A:HOH1004 4.3 39.5 1.0 CA A:VAL131 4.3 33.8 1.0 N A:LYS132 4.3 31.7 1.0 CD A:LYS132 4.4 45.4 1.0 OE2 A:GLU63 4.4 41.6 1.0 CA A:LYS132 4.4 31.7 1.0 CG A:GLN130 4.4 27.6 1.0 CB A:LYS132 4.5 32.4 1.0 CL A:CL2003 4.6 50.4 1.0 CB A:VAL131 4.7 33.1 1.0 O A:HOH1003 4.8 56.9 1.0 O A:HOH1010 4.9 51.0 1.0 CB A:ASP114 5.0 33.8 1.0

Magnesium binding site 3 out of 4 in the Tnsa, A Catalytic Component of the TN7 Transposition System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Tnsa, A Catalytic Component of the TN7 Transposition System within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2004 b:36.3 occ:1.00 O B:HOH1176 2.0 65.8 1.0 O B:HOH1177 2.0 33.5 1.0 O B:HOH1181 2.0 51.4 1.0 O B:HOH1178 2.1 56.6 1.0 OD1 B:ASP114 2.3 40.0 1.0 O B:HOH1103 2.8 21.3 1.0 CG B:ASP114 3.5 40.1 1.0 MG B:MG2005 3.9 44.0 1.0 OD2 B:ASP114 4.0 37.0 1.0 OE1 B:GLN82 4.0 42.7 1.0 OE1 B:GLN130 4.1 28.2 1.0 O B:SER112 4.2 39.5 1.0 O B:HOH1175 4.3 44.0 1.0 OE2 B:GLU63 4.4 45.7 1.0 OG B:SER112 4.4 38.5 1.0 O B:HOH1180 4.4 39.9 1.0 NE2 B:GLN130 4.5 25.8 1.0 CB B:ASP114 4.7 35.8 1.0 CD B:GLN130 4.8 28.3 1.0 N B:ASP114 4.8 35.1 1.0 CD1 B:LEU33 4.8 47.8 1.0 CA B:ASP114 4.8 36.3 1.0 O B:HOH1179 4.9 45.5 1.0

Magnesium binding site 4 out of 4 in the Tnsa, A Catalytic Component of the TN7 Transposition System


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Tnsa, A Catalytic Component of the TN7 Transposition System within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2005 b:44.0 occ:1.00 O B:VAL131 2.1 31.9 1.0 O B:HOH1180 2.1 39.9 1.0 OE1 B:GLN130 2.3 28.2 1.0 O B:HOH1103 2.3 21.3 1.0 O B:HOH1104 2.4 44.7 1.0 OD2 B:ASP114 2.7 37.0 1.0 C B:VAL131 3.3 34.4 1.0 CG B:LYS132 3.4 46.8 1.0 CD B:GLN130 3.5 28.3 1.0 CG B:ASP114 3.6 40.1 1.0 OD1 B:ASP114 3.7 40.0 1.0 NZ B:LYS132 3.9 35.1 1.0 MG B:MG2004 3.9 36.3 1.0 CE B:LYS132 4.0 39.2 1.0 O B:HOH1181 4.1 51.4 1.0 N B:VAL131 4.2 36.0 1.0 N B:LYS132 4.2 36.8 1.0 CA B:VAL131 4.3 33.5 1.0 CD B:LYS132 4.3 42.9 1.0 OE2 B:GLU63 4.3 45.7 1.0 CA B:LYS132 4.4 40.1 1.0 NE2 B:GLN130 4.4 25.8 1.0 CB B:LYS132 4.5 39.2 1.0 CG B:GLN130 4.5 24.0 1.0 CL B:CL2006 4.6 52.2 1.0 O B:HOH1178 4.6 56.6 1.0 O B:HOH1105 4.6 58.0 1.0 CB B:VAL131 4.7 31.2 1.0 O B:HOH1179 4.8 45.5 1.0

A.B.Hickman, Y.Li, S.V.Mathew, E.W.May, N.L.Craig, F.Dyda. Unexpected Structural Diversity in Dna Recombination: the Restriction Endonuclease Connection. Mol.Cell V. 5 1025 2000.
ISSN: ISSN 1097-2765
PubMed: 10911996
DOI: 10.1016/S1097-2765(00)80267-1