Magnesium in PDB 2okv: C-Myc Dna Unwinding Element Binding Protein

The structure of C-Myc Dna Unwinding Element Binding Protein, PDB code: 2okv was solved by B.Bae, S.K.Nair, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.00
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	77.813, 77.813, 106.423, 90.00, 90.00, 120.00
R / Rfree (%)	20.5 / 23.7

The binding sites of Magnesium atom in the C-Myc Dna Unwinding Element Binding Protein (pdb code 2okv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the C-Myc Dna Unwinding Element Binding Protein, PDB code: 2okv:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the C-Myc Dna Unwinding Element Binding Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of C-Myc Dna Unwinding Element Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1201 b:36.2 occ:1.00 O A:CYS28 2.7 42.2 1.0 O A:VAL4 2.8 40.0 1.0 OE1 A:GLN6 2.8 43.1 1.0 CG A:GLN6 3.4 38.3 1.0 N A:GLN6 3.4 40.5 1.0 CD1 A:LEU30 3.5 41.1 1.0 CD A:GLN6 3.5 41.8 1.0 CG A:LEU30 3.6 41.5 1.0 C A:CYS28 3.6 42.0 1.0 C A:VAL4 3.6 39.8 1.0 CB A:GLN6 3.6 40.5 1.0 N A:LEU30 3.8 40.1 1.0 CG1 A:VAL4 3.9 37.2 1.0 C A:VAL5 4.0 40.3 1.0 CA A:VAL5 4.1 39.8 1.0 SG A:CYS28 4.1 44.2 1.0 CB A:LEU30 4.1 40.6 1.0 N A:VAL5 4.1 38.9 1.0 CA A:GLN6 4.2 39.7 1.0 N A:VAL29 4.2 41.4 1.0 CB A:CYS28 4.2 42.5 1.0 CA A:VAL29 4.3 41.0 1.0 C A:VAL29 4.3 41.1 1.0 CB A:VAL4 4.3 38.9 1.0 CA A:CYS28 4.5 42.2 1.0 CA A:LEU30 4.6 40.3 1.0 CA A:VAL4 4.6 38.6 1.0 CD1 A:ILE135 4.8 40.5 1.0 NE2 A:GLN6 4.8 36.7 1.0 O A:VAL5 4.9 40.7 1.0 CD2 A:LEU30 4.9 42.1 1.0

Magnesium binding site 2 out of 4 in the C-Myc Dna Unwinding Element Binding Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of C-Myc Dna Unwinding Element Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1203 b:36.2 occ:1.00 O B:CYS28 2.7 43.4 1.0 O B:VAL4 2.8 41.1 1.0 NE2 B:GLN6 3.0 37.2 1.0 CG B:GLN6 3.4 38.5 1.0 N B:GLN6 3.4 41.3 1.0 C B:CYS28 3.5 42.9 1.0 C B:VAL4 3.5 40.8 1.0 CG B:LEU30 3.5 42.6 1.0 CD1 B:LEU30 3.6 42.0 1.0 N B:LEU30 3.6 42.2 1.0 CD B:GLN6 3.7 41.7 1.0 CB B:GLN6 3.7 40.8 1.0 C B:VAL5 3.9 41.3 1.0 CA B:VAL5 4.0 41.4 1.0 CG1 B:VAL4 4.0 39.4 1.0 N B:VAL5 4.0 41.2 1.0 CA B:VAL29 4.1 42.5 1.0 N B:VAL29 4.1 42.8 1.0 CB B:LEU30 4.1 42.2 1.0 SG B:CYS28 4.1 44.5 1.0 C B:VAL29 4.2 42.9 1.0 CA B:GLN6 4.2 41.2 1.0 CB B:CYS28 4.2 42.8 1.0 CB B:VAL4 4.4 40.2 1.0 CA B:CYS28 4.5 43.2 1.0 CA B:LEU30 4.5 42.0 1.0 CA B:VAL4 4.6 40.2 1.0 O B:VAL5 4.8 40.9 1.0 CD2 B:LEU30 4.8 42.5 1.0 CD1 B:ILE135 4.8 41.1 1.0 OE1 B:GLN6 4.9 40.3 1.0

Magnesium binding site 3 out of 4 in the C-Myc Dna Unwinding Element Binding Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of C-Myc Dna Unwinding Element Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1202 b:35.1 occ:1.00 O C:VAL4 2.8 40.9 1.0 O C:CYS28 2.8 41.4 1.0 NE2 C:GLN6 2.9 39.4 1.0 CG C:GLN6 3.3 36.7 1.0 CD1 C:LEU30 3.4 40.4 1.0 N C:GLN6 3.4 40.2 1.0 C C:VAL4 3.5 41.4 1.0 CG C:LEU30 3.6 41.5 1.0 CD C:GLN6 3.6 39.7 1.0 CB C:GLN6 3.6 40.0 1.0 C C:CYS28 3.7 41.2 1.0 N C:LEU30 3.7 40.5 1.0 CG2 C:VAL4 3.9 39.9 1.0 C C:VAL5 4.0 40.5 1.0 CB C:LEU30 4.1 41.0 1.0 CA C:VAL5 4.1 40.4 1.0 CG1 C:VAL4 4.1 45.5 1.0 N C:VAL5 4.1 40.5 1.0 SG C:CYS28 4.2 43.9 1.0 CA C:GLN6 4.2 39.5 1.0 CA C:VAL29 4.3 40.9 1.0 C C:VAL29 4.3 41.3 1.0 N C:VAL29 4.3 40.9 1.0 CB C:CYS28 4.3 41.3 1.0 CB C:VAL4 4.4 41.8 1.0 CA C:LEU30 4.5 40.8 1.0 CA C:VAL4 4.5 41.0 1.0 CA C:CYS28 4.6 41.2 1.0 CD1 C:ILE135 4.8 41.9 1.0 OE1 C:GLN6 4.8 39.1 1.0 O C:VAL5 4.9 40.1 1.0 CD2 C:LEU30 4.9 42.6 1.0

Magnesium binding site 4 out of 4 in the C-Myc Dna Unwinding Element Binding Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of C-Myc Dna Unwinding Element Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1204 b:39.1 occ:1.00 O D:CYS28 2.6 43.3 1.0 O D:VAL4 2.7 40.5 1.0 NE2 D:GLN6 3.1 37.6 1.0 CG D:GLN6 3.3 37.7 1.0 N D:GLN6 3.4 40.5 1.0 C D:CYS28 3.5 43.3 1.0 C D:VAL4 3.5 40.1 1.0 CG D:LEU30 3.6 42.5 1.0 CD1 D:LEU30 3.6 40.9 1.0 N D:LEU30 3.6 42.3 1.0 CB D:GLN6 3.7 40.4 1.0 CD D:GLN6 3.7 41.0 1.0 C D:VAL5 3.9 40.7 1.0 CA D:VAL5 3.9 40.5 1.0 CG1 D:VAL4 3.9 37.8 1.0 N D:VAL5 4.0 40.2 1.0 CA D:VAL29 4.0 42.6 1.0 N D:VAL29 4.1 42.8 1.0 CB D:LEU30 4.1 42.0 1.0 C D:VAL29 4.1 42.8 1.0 CA D:GLN6 4.1 40.5 1.0 SG D:CYS28 4.2 45.7 1.0 CB D:CYS28 4.3 43.7 1.0 CB D:VAL4 4.4 38.8 1.0 CA D:CYS28 4.5 43.8 1.0 CA D:LEU30 4.5 41.8 1.0 CA D:VAL4 4.5 39.1 1.0 O D:VAL5 4.8 39.8 1.0 OE1 D:GLN6 4.9 38.8 1.0 CD2 D:LEU30 4.9 41.0 1.0 CD1 D:ILE135 4.9 40.8 1.0

M.Kemp, B.Bae, J.P.Yu, M.Ghosh, M.Leffak, S.K.Nair. Structure and Function of the C-Myc Dna-Unwinding Element-Binding Protein Due-B. J.Biol.Chem. V. 282 10441 2007.
ISSN: ISSN 0021-9258
PubMed: 17264083
DOI: 10.1074/JBC.M609632200