Magnesium in PDB 7mei: Composite Structure of Ec+Ec

All present enzymatic activity of Composite Structure of Ec+Ec:
2.7.7.6;

The structure of Composite Structure of Ec+Ec also contains other interesting chemical elements:

Zinc

(Zn)

16 atoms

The binding sites of Magnesium atom in the Composite Structure of Ec+Ec (pdb code 7mei). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Composite Structure of Ec+Ec, PDB code: 7mei:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Composite Structure of Ec+Ec within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1803 b:246.2 occ:1.00 OD2 a:ASP481 1.9 237.5 1.0 OP2 r:C48 2.0 261.5 1.0 OP1 r:C48 2.3 261.5 1.0 CG a:ASP481 2.3 237.5 1.0 CB a:ASP481 2.4 237.5 1.0 P r:C48 2.4 261.5 1.0 OD2 a:ASP483 2.4 233.5 1.0 OD1 a:ASP483 2.7 233.5 1.0 CG a:ASP483 2.8 233.5 1.0 OD2 a:ASP485 2.9 218.8 1.0 OD1 a:ASP485 3.0 218.8 1.0 O3' r:U47 3.1 251.9 1.0 CG a:ASP485 3.3 218.8 1.0 OD1 a:ASP481 3.4 237.5 1.0 CA a:ASP481 3.7 237.5 1.0 N a:ASP481 3.9 237.5 1.0 O5' r:C48 3.9 261.5 1.0 CB a:ASP483 4.2 233.5 1.0 C3' r:U47 4.4 251.9 1.0 C a:ASP481 4.5 237.5 1.0 N a:ASP483 4.7 233.5 1.0 C5' r:C48 4.7 261.5 1.0 CB a:ASP485 4.8 218.8 1.0 N a:PHE482 5.0 218.5 1.0 C4' r:U47 5.0 251.9 1.0

Magnesium binding site 2 out of 4 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Composite Structure of Ec+Ec within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1804 b:208.5 occ:1.00 N a:THR1394 2.0 207.4 1.0 O a:THR1394 2.2 207.4 1.0 C a:THR1394 2.2 207.4 1.0 CA a:THR1394 2.4 207.4 1.0 C a:ASN1393 2.9 217.1 1.0 OD1 a:ASN1393 2.9 217.1 1.0 N a:GLY1395 3.2 206.9 1.0 CA a:ASN1393 3.6 217.1 1.0 O a:ASN1393 3.6 217.1 1.0 CG a:ASN1393 3.7 217.1 1.0 CB a:THR1394 3.9 207.4 1.0 CA a:GLY1395 4.1 206.9 1.0 CB a:ASN1393 4.2 217.1 1.0 OG1 a:THR1394 4.6 207.4 1.0 O a:SER1392 4.6 212.9 1.0 ND2 a:ASN1393 4.7 217.1 1.0 NH2 a:ARG1399 4.7 200.6 1.0 C a:GLY1395 4.7 206.9 1.0 CD1 a:LEU860 4.8 187.1 1.0 CG2 a:THR1394 4.8 207.4 1.0 NE a:ARG1399 4.9 200.6 1.0 N a:ASN1393 4.9 217.1 1.0 O a:GLY1395 4.9 206.9 1.0 CZ a:ARG1399 4.9 200.6 1.0

Magnesium binding site 3 out of 4 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Composite Structure of Ec+Ec within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:188.5 occ:1.00 N A:GLY1395 2.0 188.9 1.0 CA A:THR1394 2.4 200.0 1.0 CG2 A:THR1394 2.5 200.0 1.0 C A:THR1394 2.5 200.0 1.0 CB A:THR1394 2.9 200.0 1.0 CA A:GLY1395 3.2 188.9 1.0 N A:THR1394 3.7 200.0 1.0 CG A:LEU860 3.7 181.9 1.0 O A:THR1394 3.7 200.0 1.0 OG1 A:THR1394 3.8 200.0 1.0 CD2 A:LEU860 3.9 181.9 1.0 CD1 A:LEU860 4.0 181.9 1.0 OG A:SER859 4.0 191.6 1.0 O A:ASN1393 4.2 217.2 1.0 C A:ASN1393 4.4 217.2 1.0 C A:GLY1395 4.5 188.9 1.0 O A:GLY1395 4.7 188.9 1.0

Magnesium binding site 4 out of 4 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Composite Structure of Ec+Ec within 5.0Å range: probe atom residue distance (Å) B Occ R:Mg101 b:247.0 occ:1.00 OP1 R:U13 1.2 78.6 1.0 OD1 A:ASP483 2.0 219.9 1.0 P R:U13 2.2 76.9 1.0 OD2 A:ASP483 2.2 219.9 1.0 OD1 A:ASP481 2.4 210.1 1.0 CG A:ASP483 2.4 219.9 1.0 OD1 A:ASP485 2.7 213.0 1.0 OP2 R:U13 2.7 75.2 1.0 O3' R:A12 2.9 235.4 1.0 OD2 A:ASP481 2.9 210.1 1.0 CG A:ASP481 3.0 210.1 1.0 O5' R:U13 3.6 78.8 1.0 CG A:ASP485 3.7 213.0 1.0 CB A:ASP483 3.8 219.9 1.0 OD2 A:ASP485 3.9 213.0 1.0 C3' R:A12 4.1 235.4 1.0 C5' R:U13 4.1 77.9 1.0 C5' R:A12 4.3 235.4 1.0 C4' R:A12 4.4 235.4 1.0 CB A:ASP481 4.5 210.1 1.0 OP1 R:A12 4.5 235.4 1.0 N A:ASP483 4.6 219.9 1.0 O5' R:A12 4.7 235.4 1.0 CA A:ASP483 4.7 219.9 1.0 N A:ASP481 4.9 210.1 1.0 C A:ASP483 4.9 219.9 1.0 CB A:ASP485 5.0 213.0 1.0

C.Yang, R.Fujiwara, H.J.Kim, P.Basnet, Y.Zhu, J.J.Gorbea Colon, S.Steimle, B.A.Garcia, C.D.Kaplan, K.Murakami. Structural Visualization of De Novo Transcription Initiation By Saccharomyces Cerevisiae Rna Polymerase II. Mol.Cell V. 82 660 2022.
ISSN: ISSN 1097-2765
PubMed: 35051353
DOI: 10.1016/J.MOLCEL.2021.12.020