Magnesium in PDB 5a76: Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form

The structure of Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form, PDB code: 5a76 was solved by R.Ponnusamy, C.E.Mcvey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	141.58 / 3.80
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	200.224, 200.224, 83.620, 90.00, 90.00, 90.00
R / Rfree (%)	22.109 / 26.908

The binding sites of Magnesium atom in the Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form (pdb code 5a76). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form, PDB code: 5a76:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2146 b:19.1 occ:1.00 O A:GLU1123 3.5 58.3 1.0 OD1 A:ASN1131 3.6 83.9 1.0 O A:ALA1129 3.9 79.8 1.0 O A:PRO1127 4.1 73.9 1.0 C A:GLU1123 4.3 59.4 1.0 CA A:PRO1127 4.5 66.5 1.0 O A:HIS1126 4.7 59.4 1.0 CG A:ASN1131 4.7 88.0 1.0 C A:PRO1127 4.7 70.5 1.0 ND2 A:ASN1131 5.0 99.2 1.0

Magnesium binding site 2 out of 4 in the Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg2146 b:26.1 occ:1.00 O C:GLU1123 3.3 59.8 1.0 O C:ALA1129 4.1 82.6 1.0 ND2 C:ASN1131 4.3 81.6 1.0 O C:PRO1127 4.3 74.6 1.0 C C:GLU1123 4.3 61.5 1.0 OD1 C:ASN1131 4.4 85.8 1.0 CA C:PRO1127 4.4 67.8 1.0 C C:PRO1127 4.7 70.7 1.0 CG C:ASN1131 4.7 80.6 1.0 O C:HIS1126 4.7 64.2 1.0

Magnesium binding site 3 out of 4 in the Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg2146 b:12.6 occ:1.00 O E:GLU1123 3.3 61.2 1.0 OD1 E:ASN1131 3.4 71.5 1.0 ND2 E:ASN1131 3.8 74.5 1.0 CG E:ASN1131 4.0 70.5 1.0 C E:GLU1123 4.3 63.2 1.0 O E:ALA1129 4.4 69.5 1.0 O E:PRO1127 4.4 75.6 1.0 CA E:PRO1127 4.5 67.2 1.0 C E:PRO1127 4.9 71.5 1.0 O E:HIS1126 4.9 62.3 1.0

Magnesium binding site 4 out of 4 in the Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Kshv Lana (ORF73) C-Terminal Domain, Open Non-Ring Conformation: Orthorhombic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg2146 b:19.6 occ:1.00 OD1 G:ASN1131 3.2 76.6 1.0 O G:GLU1123 3.3 69.3 1.0 ND2 G:ASN1131 3.6 83.3 1.0 CG G:ASN1131 3.8 76.8 1.0 O G:ALA1129 4.1 79.6 1.0 O G:PRO1127 4.3 84.0 1.0 C G:GLU1123 4.3 69.2 1.0 CA G:PRO1127 4.7 75.5 1.0 C G:PRO1127 4.9 79.5 1.0

R.Ponnusamy, M.V.Petoukhov, B.Correia, T.F.Custodio, F.Juillard, M.Tan, M.Pires De Miranda, M.A.Carrondo, J.P.Simas, K.M.Kaye, D.I.Svergun, C.E.Mcvey. Kshv But Not Mhv-68 Lana Induces A Strong Bend Upon Binding to Terminal Repeat Viral Dna. Nucleic Acids Res. V. 43 10039 2015.
ISSN: ISSN 0305-1048
PubMed: 26424851
DOI: 10.1093/NAR/GKV987