Magnesium in PDB 1hr2: Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.

The structure of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron., PDB code: 1hr2 was solved by K.Juneau, E.R.Podell, D.J.Harrington, T.R.Cech, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.25
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	75.300, 125.400, 145.700, 90.00, 90.00, 90.00
R / Rfree (%)	24.4 / 26.4

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 42;

Binding sites:

The binding sites of Magnesium atom in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. (pdb code 1hr2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 42 binding sites of Magnesium where determined in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron., PDB code: 1hr2:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg51 b:0.1 occ:1.00 O6 A:G148 3.9 64.5 1.0 O6 A:G149 4.1 56.8 1.0 N7 A:G148 4.3 65.0 1.0 O6 A:G150 4.6 59.9 1.0 C6 A:G148 4.7 64.3 1.0 C5 A:G148 4.9 64.8 1.0 O4 A:U155 5.0 55.1 1.0 N7 A:G149 5.0 60.9 1.0

Magnesium binding site 2 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg53 b:75.2 occ:1.00 OP2 A:G245 2.8 75.7 1.0 O A:HOH312 3.3 69.8 1.0 P A:G245 3.9 76.8 1.0 O5' A:G245 4.0 75.4 1.0 OP2 A:A246 4.1 69.8 1.0 C8 A:G245 4.3 71.6 1.0 N7 A:G245 4.4 71.6 1.0 OP1 A:G245 4.7 77.0 1.0 N7 A:A246 5.0 63.9 1.0

Magnesium binding site 3 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg55 b:80.5 occ:1.00 OP1 A:C255 3.3 72.3 1.0 C5' A:C255 3.8 73.9 1.0 O2' A:C170 3.9 52.1 1.0 OP1 A:C213 4.1 61.6 1.0 OP2 A:A256 4.2 78.4 1.0 O5' A:C255 4.2 72.4 1.0 O3' A:C170 4.3 49.3 1.0 P A:C255 4.4 71.9 1.0 O3' A:C255 4.5 78.1 1.0 P A:A256 4.6 78.1 1.0 OP1 A:A256 4.7 77.7 1.0 C4' A:C255 4.7 75.6 1.0 OP1 A:A171 4.9 49.4 1.0 C4' A:C170 5.0 52.4 1.0

Magnesium binding site 4 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg57 b:58.3 occ:1.00 OP2 A:U249 2.1 69.5 1.0 OP2 A:G250 2.3 61.6 1.0 O2' A:A248 2.5 66.6 1.0 C2' A:A248 3.2 62.7 1.0 P A:U249 3.5 67.4 1.0 N7 A:G250 3.5 55.0 1.0 P A:G250 3.6 58.9 1.0 C3' A:A248 3.9 63.5 1.0 O5' A:U249 3.9 66.1 1.0 C8 A:G250 3.9 55.8 1.0 O5' A:G250 4.0 58.1 1.0 O3' A:A248 4.2 65.8 1.0 C3' A:U249 4.5 62.1 1.0 O3' A:U249 4.6 60.9 1.0 C1' A:A248 4.6 60.4 1.0 C5 A:G250 4.6 54.7 1.0 OP1 A:G250 4.7 61.5 1.0 N7 A:G251 4.7 55.0 1.0 OP1 A:U249 4.7 67.9 1.0

Magnesium binding site 5 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg58 b:67.7 occ:1.00 OP2 A:A256 2.5 78.4 1.0 N7 A:G257 3.1 0.4 1.0 O5' A:A256 3.2 79.8 1.0 P A:A256 3.3 78.1 1.0 O A:HOH301 3.4 59.6 1.0 OP2 A:G257 3.4 91.8 1.0 C8 A:G257 3.7 0.9 1.0 C8 A:A256 3.9 87.7 1.0 N7 A:A256 4.0 87.5 1.0 OP1 A:A256 4.0 77.7 1.0 C3' A:A256 4.3 87.5 1.0 C5 A:G257 4.3 0.1 1.0 C5' A:A256 4.4 83.1 1.0 P A:G257 4.6 92.4 1.0 O3' A:C255 4.7 78.1 1.0 N9 A:A256 4.7 87.7 1.0 O6 A:G257 4.7 0.8 1.0 C4' A:A256 4.9 85.9 1.0 O5' A:G257 4.9 94.8 1.0 O3' A:A256 4.9 90.1 1.0 C6 A:G257 4.9 0.8 1.0 C5 A:A256 5.0 87.7 1.0

Magnesium binding site 6 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg59 b:86.7 occ:1.00 O6 A:G160 3.2 66.5 1.0 N7 A:G160 3.4 68.8 1.0 N7 A:A159 3.9 74.8 1.0 C6 A:G160 4.0 67.1 1.0 C5 A:G160 4.0 68.0 1.0 C5 A:A159 4.4 75.2 1.0 N6 A:A159 4.4 74.7 1.0 N6 A:A161 4.5 58.6 1.0 C8 A:G160 4.5 69.4 1.0 C8 A:A159 4.6 75.3 1.0 C6 A:A159 4.7 75.3 1.0

Magnesium binding site 7 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg60 b:83.5 occ:1.00 O6 A:G201 3.0 75.4 1.0 O4 A:U202 3.0 70.8 1.0 O6 A:G119 3.5 86.9 1.0 O4 A:U120 3.6 85.3 1.0 C4 A:U202 3.9 70.2 1.0 C6 A:G201 4.0 75.8 1.0 N3 A:U202 4.2 70.0 1.0 N7 A:G201 4.3 76.4 1.0 O6 A:G200 4.3 89.3 1.0 N3 A:U120 4.3 85.7 1.0 C4 A:U120 4.4 86.0 1.0 C5 A:G201 4.5 76.3 1.0 C6 A:G119 4.7 85.2 1.0 C6 A:G200 4.8 89.9 1.0 O6 A:G118 4.9 78.9 1.0

Magnesium binding site 8 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg61 b:91.6 occ:1.00 O3' A:A252 3.9 57.7 1.0 O2' A:A252 3.9 55.6 1.0 OP1 A:U253 4.1 59.5 1.0 OP1 A:U155 4.3 54.6 1.0 C5' A:U253 4.3 59.4 1.0 P A:U253 4.7 59.7 1.0 OP1 A:U142 4.7 59.5 1.0 C3' A:A252 4.9 57.1 1.0 OP2 A:U155 5.0 54.7 1.0 O2' B:A173 5.0 61.4 1.0

Magnesium binding site 9 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg62 b:0.3 occ:1.00 OP2 A:U157 2.9 67.1 1.0 OP1 A:U157 3.4 67.6 1.0 P A:U157 3.6 68.0 1.0 O A:HOH306 3.7 64.0 1.0 O3' A:U156 4.6 67.0 1.0 OP1 A:U156 4.8 63.7 1.0 O A:HOH302 4.8 64.6 1.0 O5' A:U156 4.9 64.7 1.0 O A:HOH303 4.9 62.0 1.0 O5' A:U157 5.0 68.6 1.0

Magnesium binding site 10 out of 42 in the Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Crystal Structure Analysis of A Mutant P4-P6 Domain (DELC209) of Tetrahymena Themophila Group I Intron. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg64 b:74.9 occ:1.00 OP2 A:G174 3.8 50.5 1.0 O6 A:G176 4.0 55.0 1.0 N7 A:G175 4.1 50.8 1.0 N7 A:G176 4.3 57.6 1.0 OP2 A:G175 4.3 52.5 1.0 O A:HOH337 4.4 47.7 1.0 O A:HOH315 4.5 68.4 1.0 O4 A:U177 4.5 55.4 1.0 O A:HOH339 4.7 46.8 1.0 C6 A:G176 4.8 56.1 1.0 C8 A:G175 4.9 52.2 1.0 O6 A:G175 4.9 50.9 1.0 P A:G174 4.9 49.5 1.0 C5 A:G176 4.9 56.6 1.0

K.Juneau, E.Podell, D.J.Harrington, T.R.Cech. Structural Basis of the Enhanced Stability of A Mutant Ribozyme Domain and A Detailed View of Rna--Solvent Interactions. Structure V. 9 221 2001.
ISSN: ISSN 0969-2126
PubMed: 11286889
DOI: 10.1016/S0969-2126(01)00579-2