Magnesium in PDB 6c4h: Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 34;

Binding sites:

The binding sites of Magnesium atom in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) (pdb code 6c4h). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 34 binding sites of Magnesium where determined in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region), PDB code: 6c4h:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3001 b:2.0 occ:1.00 OP1 A:A739 2.0 12.2 1.0 P A:A739 3.4 12.1 1.0 OP2 A:U1779 3.5 6.4 1.0 N1 A:A1784 3.5 5.9 1.0 OP2 A:U1778 3.5 5.9 1.0 N6 A:A1784 3.7 5.9 1.0 OP1 A:U1778 3.7 5.9 1.0 O3' A:G738 3.8 12.0 1.0 P A:U1778 3.9 5.9 1.0 C6 A:A1784 4.1 5.9 1.0 O5' A:U1778 4.2 5.9 1.0 OP2 A:A739 4.3 12.1 1.0 O5' A:A739 4.4 12.0 1.0 C2 A:A1784 4.5 5.9 1.0 C5' A:A739 4.7 11.9 1.0 P A:U1779 4.8 6.4 1.0

Magnesium binding site 2 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3002 b:10.6 occ:1.00 OP2 A:C740 1.9 12.1 1.0 OP2 A:A1784 2.1 6.6 1.0 OP1 A:A1783 2.1 8.6 1.0 P A:A1784 3.1 6.6 1.0 P A:C740 3.2 12.0 1.0 OP1 A:A1784 3.4 6.6 1.0 P A:A1783 3.5 8.6 1.0 O5' A:C740 3.7 12.0 1.0 C5' A:C740 4.1 12.1 1.0 OP1 A:C740 4.1 12.1 1.0 O5' A:A1784 4.1 6.4 1.0 O5' A:A1783 4.2 8.2 1.0 OP2 A:A1783 4.2 8.6 1.0 OP2 A:U741 4.3 12.3 1.0 C5' A:A1783 4.3 7.7 1.0 O3' A:A1783 4.3 6.8 1.0 O3' A:A739 4.4 12.0 1.0 O3' A:U1782 4.6 9.0 1.0 C3' A:A1783 4.6 7.1 1.0

Magnesium binding site 3 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3003 b:2.0 occ:1.00 OP2 A:A945 2.2 7.1 1.0 OP2 A:C946 2.4 7.6 1.0 O3' A:C944 3.0 7.0 1.0 P A:A945 3.2 7.1 1.0 P A:C946 3.8 7.6 1.0 O2' A:C944 3.8 7.1 1.0 O5' A:C946 4.2 7.7 1.0 OP1 A:A945 4.2 7.1 1.0 C3' A:C944 4.3 7.0 1.0 O5' A:A945 4.3 7.1 1.0 C4' A:A945 4.5 7.2 1.0 C5' A:A945 4.5 7.2 1.0 C2' A:C944 4.5 7.0 1.0 OP1 A:C946 4.7 7.6 1.0 O3' A:A945 4.7 7.5 1.0 C3' A:A945 4.9 7.3 1.0 C4' A:C944 5.0 6.9 1.0

Magnesium binding site 4 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3004 b:2.0 occ:1.00 OP1 A:A945 2.1 7.1 1.0 P A:A945 3.4 7.1 1.0 OP2 A:A945 4.0 7.1 1.0 C2' A:C944 4.0 7.0 1.0 O3' A:C944 4.2 7.0 1.0 C3' A:C944 4.3 7.0 1.0 O2' A:C944 4.5 7.1 1.0 O5' A:A945 4.5 7.1 1.0 C5' A:G830 4.6 8.3 1.0 C4' A:A829 4.7 8.4 1.0 O4' A:A829 4.9 8.4 1.0

Magnesium binding site 5 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3005 b:3.8 occ:1.00 OP2 A:U963 1.9 7.6 1.0 OP1 A:C948 2.1 10.1 1.0 OP1 A:G962 2.4 9.1 1.0 P A:C948 2.9 10.1 1.0 OP2 A:C948 3.0 10.1 1.0 P A:U963 3.3 7.6 1.0 O3' A:A947 3.8 9.7 1.0 P A:G962 3.9 9.1 1.0 OP1 A:U963 4.0 7.6 1.0 O3' A:G962 4.2 7.7 1.0 O5' A:C948 4.3 10.5 1.0 O5' A:U963 4.3 7.5 1.0 O3' A:C961 4.5 9.4 1.0 C3' A:G962 4.6 7.8 1.0 OP1 A:A947 4.6 8.4 1.0 OP2 A:G962 4.7 9.1 1.0 O5' A:G962 4.7 8.8 1.0 C3' A:A947 4.8 9.3 1.0 C5' A:G962 4.9 8.3 1.0

Magnesium binding site 6 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3006 b:2.0 occ:1.00 OP1 A:A1664 2.7 8.5 1.0 OP2 A:G1992 3.4 7.8 1.0 N7 A:G1992 3.5 7.5 1.0 N6 A:A1665 3.7 7.3 1.0 P A:A1664 3.8 8.5 1.0 O6 A:G1667 3.8 5.6 1.0 O6 A:G1666 3.9 6.3 1.0 OP2 A:A1664 4.0 8.5 1.0 N7 A:A1665 4.1 7.3 1.0 C8 A:G1992 4.2 7.5 1.0 N1 A:G1667 4.3 5.6 1.0 C6 A:G1667 4.4 5.6 1.0 C5 A:G1992 4.4 7.5 1.0 N7 A:G1666 4.5 6.3 1.0 O5' A:A1664 4.5 8.5 1.0 O6 A:G1992 4.5 7.5 1.0 C6 A:A1665 4.6 7.3 1.0 P A:G1992 4.6 7.8 1.0 C5 A:A1665 4.7 7.3 1.0 C6 A:G1666 4.7 6.3 1.0 N7 A:A1664 4.8 8.6 1.0 C6 A:G1992 4.8 7.5 1.0 OP1 A:G1992 4.9 7.8 1.0 C5 A:G1666 5.0 6.3 1.0

Magnesium binding site 7 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3007 b:2.9 occ:1.00 OP1 A:C1670 2.0 5.8 1.0 OP2 A:U1671 2.1 6.3 1.0 P A:C1670 3.4 5.8 1.0 P A:U1671 3.6 6.3 1.0 OP2 A:G2550 3.9 15.3 1.0 O5' A:C1670 4.1 5.8 1.0 OP2 A:G2549 4.2 17.8 1.0 OP1 A:U1671 4.3 6.3 1.0 C5' A:G2549 4.3 16.6 1.0 OP2 A:C1670 4.3 5.8 1.0 C5' A:C1670 4.3 5.9 1.0 O3' A:A1669 4.4 5.7 1.0 O5' A:U1671 4.4 6.4 1.0 C5 A:U1671 4.5 6.7 1.0 O3' A:C1670 4.6 6.2 1.0 C3' A:C1670 4.8 6.0 1.0 O5' A:G2549 4.8 17.3 1.0 P A:G2549 4.8 17.9 1.0 OP1 A:G2549 4.9 17.8 1.0 P A:G2550 4.9 15.3 1.0 C6 A:U1671 5.0 6.7 1.0

Magnesium binding site 8 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3008 b:28.7 occ:1.00 OP2 A:OMU2552 2.8 14.8 1.0 OP1 A:G1673 2.8 7.9 1.0 O3' A:A1672 3.1 7.8 1.0 O5' A:OMU2552 3.3 14.7 1.0 P A:OMU2552 3.4 14.7 1.0 P A:G1673 3.5 7.9 1.0 O2' A:A1672 3.9 7.7 1.0 OP1 A:OMU2552 4.0 14.8 1.0 C5' A:G1673 4.2 7.9 1.0 OP2 A:G2553 4.2 15.6 1.0 OP2 A:U2554 4.3 18.0 1.0 OP1 A:U2554 4.3 18.1 1.0 C3' A:A1672 4.3 7.7 1.0 C6 A:OMU2552 4.3 14.6 1.0 O5' A:G1673 4.4 7.9 1.0 C5 A:OMU2552 4.4 14.6 1.0 C5' A:OMU2552 4.5 14.6 1.0 C5' A:G2553 4.6 16.1 1.0 C4' A:A1672 4.6 7.6 1.0 C2' A:A1672 4.7 7.7 1.0 OP2 A:G1673 4.8 7.9 1.0 P A:U2554 4.8 18.1 1.0 O3' A:C2551 4.9 14.7 1.0 C3' A:OMU2552 4.9 14.8 1.0 O5' A:G2553 5.0 15.7 1.0

Magnesium binding site 9 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3009 b:2.0 occ:1.00 OP2 A:A1676 2.2 10.2 1.0 P A:A1676 3.5 10.1 1.0 O5' A:A1676 3.9 10.4 1.0 N7 A:A1677 4.0 12.9 1.0 N7 A:A1676 4.2 11.2 1.0 OP2 A:C1675 4.2 9.1 1.0 OP1 A:A1676 4.3 10.2 1.0 C8 A:A1676 4.3 11.2 1.0 O5' A:C1675 4.4 9.2 1.0 N6 A:A1677 4.5 12.8 1.0 O3' A:C1675 4.6 9.8 1.0 C3' A:C1675 4.8 9.5 1.0 C5 A:A1677 5.0 12.8 1.0 C8 A:A1677 5.0 13.0 1.0 P A:C1675 5.0 9.1 1.0

Magnesium binding site 10 out of 34 in the Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination (Ptc Region) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3010 b:6.7 occ:1.00 OP2 A:A1678 2.0 15.0 1.0 P A:A1678 3.4 14.9 1.0 O5' A:A1678 3.8 15.2 1.0 N7 A:A1679 4.0 17.2 1.0 N7 A:A1678 4.2 15.7 1.0 OP1 A:A1678 4.3 15.0 1.0 C8 A:A1678 4.3 15.7 1.0 N6 A:A1679 4.3 17.3 1.0 O3' A:A1677 4.5 14.2 1.0 C3' A:A1677 4.5 13.5 1.0 C5' A:A1677 4.7 12.9 1.0 C5 A:A1679 4.9 17.1 1.0 C8 A:A1679 4.9 17.3 1.0

F.Zeng, H.Jin. Conformation of Methylated Ggq in the Peptidyl Transferase Center During Translation Termination. Sci Rep V. 8 2349 2018.
ISSN: ESSN 2045-2322
PubMed: 29403017
DOI: 10.1038/S41598-018-20107-8