Magnesium in PDB 1drz: U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex

The structure of U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex, PDB code: 1drz was solved by A.R.Ferre-D'amare, K.Zhou, J.A.Doudna, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.30
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	109.350, 109.350, 190.680, 90.00, 90.00, 120.00
R / Rfree (%)	28.1 / 28.4

The binding sites of Magnesium atom in the U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex (pdb code 1drz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex, PDB code: 1drz:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:71.6 occ:1.00 O6 B:G110 4.4 0.1 1.0 N4 B:C172 4.7 87.0 1.0

Magnesium binding site 2 out of 3 in the U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:76.0 occ:1.00 N7 B:G170 2.6 92.1 1.0 O6 B:G170 3.0 91.8 1.0 N7 B:G169 3.2 94.0 1.0 C5 B:G170 3.3 92.1 1.0 O6 B:G169 3.3 94.0 1.0 C6 B:G170 3.5 92.0 1.0 C5 B:G169 3.5 94.0 1.0 C6 B:G169 3.5 94.1 1.0 C8 B:G170 3.7 92.1 1.0 C8 B:G169 4.1 94.0 1.0 C4 B:G169 4.5 94.0 1.0 C4 B:G170 4.6 92.1 1.0 N1 B:G169 4.6 94.1 1.0 N9 B:G170 4.8 92.2 1.0 N9 B:G169 4.8 93.9 1.0 N1 B:G170 4.9 92.0 1.0

Magnesium binding site 3 out of 3 in the U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of U1A Spliceosomal Protein/Hepatitis Delta Virus Genomic Ribozyme Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg403 b:87.0 occ:1.00 OP2 B:G106 2.7 0.8 1.0 OP2 B:C107 2.9 0.0 1.0 O5' B:G106 2.9 0.5 1.0 P B:G106 3.2 0.7 1.0 OP1 B:G106 3.8 0.7 1.0 C3' B:G106 3.9 0.7 1.0 C8 B:G106 3.9 0.7 1.0 C5' B:G106 4.1 0.1 1.0 C5 B:C107 4.2 0.7 1.0 P B:C107 4.2 0.1 1.0 N7 B:G106 4.4 0.6 1.0 O3' B:G106 4.4 0.3 1.0 C4' B:G106 4.5 0.8 1.0 O3' B:G105 4.6 0.8 1.0 N9 B:G106 4.7 0.7 1.0 C6 B:C107 4.8 0.7 1.0 C2' B:G106 4.9 0.7 1.0 O4' B:G106 4.9 0.8 1.0 O5' B:C107 4.9 0.8 1.0

A.R.Ferre-D'amare, K.Zhou, J.A.Doudna. Crystal Structure of A Hepatitis Delta Virus Ribozyme. Nature V. 395 567 1998.
ISSN: ISSN 0028-0836
PubMed: 9783582
DOI: 10.1038/26912