Magnesium in PDB 8w51: Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit

The structure of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

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 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 70; Page 8, Binding sites: 71 - 80; Page 9, Binding sites: 81 - 90; Page 10, Binding sites: 91 - 100; Page 11, Binding sites: 101 - 104;

Binding sites:

The binding sites of Magnesium atom in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit (pdb code 8w51). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 104 binding sites of Magnesium where determined in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit, PDB code: 8w51:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3001 b:15.8 occ:1.00 O6 A:G474 3.9 14.7 1.0 OP2 A:A28 4.1 14.7 1.0 O6 A:G30 4.1 14.7 1.0 O4 A:U29 4.2 14.7 1.0 OP2 A:A447 4.3 14.7 1.0 C5 A:U29 4.3 14.7 1.0 N4 A:C31 4.4 14.7 1.0 O6 A:G473 4.4 14.7 1.0 OP2 A:U29 4.5 14.7 1.0 C4 A:U29 4.6 14.7 1.0 N7 A:G30 5.0 14.7 1.0 O2' A:A447 5.0 14.7 1.0

Magnesium binding site 2 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3002 b:18.0 occ:1.00 OP1 A:U120 1.9 3.5 1.0 P A:U120 3.3 3.5 1.0 O5' A:U120 3.7 3.5 1.0 O6 A:G124 3.8 14.7 1.0 OP2 A:G123 3.9 14.7 1.0 C5' A:U120 4.1 3.5 1.0 OP2 A:U120 4.2 3.5 1.0 O3' A:A119 4.4 14.7 1.0 C3' A:A119 4.5 14.7 1.0 OP2 A:G122 4.6 14.7 1.0 N7 A:G123 4.7 14.7 1.0 C6 A:G124 4.8 14.7 1.0 C4' A:A119 4.8 14.7 1.0 C5' A:A119 4.9 14.7 1.0 N7 A:G124 4.9 14.7 1.0

Magnesium binding site 3 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3003 b:6.6 occ:1.00 OP2 A:G450 2.0 14.7 1.0 P A:G450 3.4 14.7 1.0 O E:GLY81 3.5 9.8 1.0 OP2 A:G452 3.8 14.7 1.0 O E:SER80 3.9 11.8 1.0 OP1 A:A449 4.0 14.7 1.0 CA E:SER80 4.1 11.8 1.0 C E:SER80 4.1 11.8 1.0 OP1 A:G450 4.1 14.7 1.0 O5' A:G450 4.2 14.7 1.0 OP2 A:U451 4.5 14.7 1.0 O3' A:A449 4.5 14.7 1.0 OP2 A:A449 4.5 14.7 1.0 P A:A449 4.5 14.7 1.0 O5' A:A449 4.6 14.7 1.0 C E:GLY81 4.7 9.8 1.0 CG2 E:VAL52 4.7 10.1 1.0 CB E:SER80 4.8 11.8 1.0 N E:GLY81 4.8 9.8 1.0 C3' A:A449 4.9 14.7 1.0

Magnesium binding site 4 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3004 b:9.1 occ:1.00 OP1 A:U567 2.1 14.7 1.0 P A:U567 3.3 14.7 1.0 O3' A:U566 3.5 14.7 1.0 O4 A:U810 3.6 14.7 1.0 O5' A:U567 4.1 14.7 1.0 C5' A:U567 4.1 14.7 1.0 OP2 A:G808 4.2 14.7 1.0 OP2 A:G809 4.2 14.7 1.0 N7 A:G809 4.3 14.7 1.0 OP2 A:U567 4.5 14.7 1.0 C4 A:U810 4.6 14.7 1.0 CD2 M:HIS35 4.7 16.2 1.0 C8 A:G809 4.8 14.7 1.0 C3' A:U566 4.8 14.7 1.0 C5 A:U810 5.0 14.7 1.0

Magnesium binding site 5 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3005 b:11.6 occ:1.00 OP2 A:A574 2.5 14.7 1.0 O4 A:U576 3.5 14.7 1.0 O6 A:G577 3.6 14.7 1.0 P A:A574 3.9 14.7 1.0 C5 A:U576 4.0 14.7 1.0 OP1 A:U573 4.0 14.7 1.0 C4 A:U576 4.0 14.7 1.0 N6 A:A563 4.3 14.7 1.0 N4 A:C564 4.3 14.7 1.0 OP1 A:A574 4.4 14.7 1.0 C4' A:U573 4.7 14.7 1.0 C5' A:U573 4.7 14.7 1.0 C3' A:U573 4.8 14.7 1.0 C6 A:G577 4.8 14.7 1.0 O3' A:U573 4.8 14.7 1.0 OP2 A:U576 4.9 14.7 1.0 O5' A:A574 4.9 14.7 1.0

Magnesium binding site 6 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3006 b:15.5 occ:1.00 N4 A:C584 3.7 14.7 1.0 N7 A:G583 3.8 14.7 1.0 OP2 A:A582 4.3 14.7 1.0 O6 A:G583 4.3 14.7 1.0 O2' A:C1251 4.3 14.7 1.0 N7 A:A582 4.5 14.7 1.0 OP2 A:G583 4.6 14.7 1.0 O6 A:G585 4.6 14.7 1.0 C5 A:G583 4.6 14.7 1.0 C5' A:G1252 4.7 14.7 1.0 C8 A:G583 4.7 14.7 1.0 C4 A:C584 4.7 14.7 1.0 OP2 A:A1253 4.8 14.7 1.0 C8 A:A582 4.8 14.7 1.0 C5 A:C584 4.8 14.7 1.0 C6 A:G583 4.8 14.7 1.0 OP1 A:A1253 4.9 14.7 1.0

Magnesium binding site 7 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3007 b:21.5 occ:1.00 O6 A:G619 3.8 14.7 1.0 OP2 A:A616 4.1 23.0 1.0 N7 A:G617 4.1 18.8 1.0 O6 A:G618 4.1 14.7 1.0 N7 A:G618 4.3 14.7 1.0 CE E:LYS98 4.3 14.2 1.0 OP1 A:A616 4.4 23.0 1.0 O6 A:G617 4.4 18.8 1.0 NZ E:LYS98 4.4 14.2 1.0 C6 A:G619 4.6 14.7 1.0 OP2 A:G617 4.6 18.8 1.0 P A:A616 4.7 23.0 1.0 OP2 A:A608 4.8 14.7 1.0 C5 A:G617 4.8 18.8 1.0 C6 A:G618 4.9 14.7 1.0 N1 A:G619 4.9 14.7 1.0 C6 A:G617 5.0 18.8 1.0 C5 A:G618 5.0 14.7 1.0 C8 A:G617 5.0 18.8 1.0

Magnesium binding site 8 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3008 b:10.4 occ:1.00 OP1 A:G760 1.9 14.7 1.0 P A:G760 3.2 14.7 1.0 OP2 A:C732 3.4 14.7 1.0 OP1 A:C732 3.6 14.7 1.0 OP2 A:G760 3.7 14.7 1.0 OP1 A:C731 3.9 14.7 1.0 P A:C732 3.9 14.7 1.0 O5' A:G760 4.0 14.7 1.0 OP2 A:A761 4.3 14.7 1.0 C5' A:G760 4.3 14.7 1.0 O3' A:G759 4.3 14.7 1.0 O3' A:C731 4.6 14.7 1.0

Magnesium binding site 9 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3009 b:15.9 occ:1.00 O2 A:PSU746 2.0 14.7 1.0 C2 A:PSU746 3.1 14.7 1.0 O6 A:1MG745 3.7 14.7 1.0 N7 A:1MG745 3.7 14.7 1.0 N1 A:PSU746 3.8 14.7 1.0 N3 A:PSU746 4.0 14.7 1.0 OP2 A:U744 4.2 14.7 1.0 C5 A:1MG745 4.4 14.7 1.0 OP1 A:C2610 4.4 18.8 1.0 OG D:SER137 4.4 14.7 1.0 C6 A:1MG745 4.4 14.7 1.0 OP1 A:C2611 4.6 14.7 1.0 C8 A:1MG745 4.8 14.7 1.0 C5 A:U744 5.0 14.7 1.0

Magnesium binding site 10 out of 104 in the Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Ychf(H114A) on E.Coli 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3010 b:17.3 occ:1.00 OP1 A:A751 2.0 12.1 1.0 OP1 A:A1614 2.1 14.7 1.0 P A:A751 3.4 12.1 1.0 P A:A1614 3.4 14.7 1.0 N7 A:A1614 3.8 14.7 1.0 O3' A:A750 3.8 14.7 1.0 OP2 A:A1614 4.0 14.7 1.0 O3' A:G1613 4.1 14.7 1.0 N3 A:C1617 4.1 14.7 1.0 C8 A:A1614 4.2 14.7 1.0 O2' A:G1613 4.2 14.7 1.0 C2' A:G1613 4.3 14.7 1.0 OP2 A:A751 4.3 12.1 1.0 O5' A:A751 4.3 12.1 1.0 N4 A:C1617 4.3 14.7 1.0 N7 A:A751 4.4 12.1 1.0 N4 A:C1615 4.4 14.7 1.0 N1 A:A789 4.6 14.7 1.0 O5' A:A1614 4.6 14.7 1.0 C3' A:G1613 4.6 14.7 1.0 C8 A:A751 4.7 12.1 1.0 C4 A:C1617 4.7 14.7 1.0 C5 A:C1615 4.8 14.7 1.0 N6 A:A789 4.8 14.7 1.0 C2 A:C1617 5.0 14.7 1.0

X.Li, T.Yu, Q.Li, F.Zeng. Structure Basis of Translation Regulation By Ychf Bound to Ribosome To Be Published.