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Magnesium in PDB 9oa1: Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.

Enzymatic activity of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.

All present enzymatic activity of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.:
3.6.4.12;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. (pdb code 9oa1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio., PDB code: 9oa1:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 9oa1

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Magnesium binding site 1 out of 6 in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:95.5
occ:1.00
 OG1 A:THR238 2.1 99.8 1.0
O3B A:ADP500 2.1 104.6 1.0
OE1 A:GLU262 2.8 118.6 1.0
NH2 F:ARG442 3.1 116.5 1.0
CB A:THR238 3.4 95.1 1.0
PB A:ADP500 3.5 99.3 1.0
OD1 A:ASP343 3.6 110.3 1.0
OD2 A:ASP343 3.7 112.8 1.0
CD A:GLU262 3.9 117.9 1.0
O2B A:ADP500 3.9 80.5 1.0
CZ F:ARG442 4.1 122.6 1.0
CG A:ASP343 4.1 110.7 1.0
O3A A:ADP500 4.2 103.6 1.0
CG2 A:THR238 4.3 96.4 1.0
OE2 A:GLU262 4.3 113.3 1.0
N A:THR238 4.3 88.5 1.0
NE F:ARG442 4.3 115.3 1.0
CA A:THR238 4.4 89.7 1.0
CD1 A:TYR344 4.6 100.9 1.0
O2A A:ADP500 4.6 96.7 1.0
O1A A:ADP500 4.6 105.0 1.0
O1B A:ADP500 4.6 90.6 1.0
PA A:ADP500 4.7 99.5 1.0
CE1 A:TYR344 4.8 97.2 1.0
CE A:LYS237 4.8 91.0 1.0

Magnesium binding site 2 out of 6 in 9oa1

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Magnesium binding site 2 out of 6 in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:190.2
occ:1.00
 OG1 B:THR238 2.2 190.5 1.0
O2B B:ADP500 3.1 202.2 1.0
CB B:THR238 3.5 189.6 1.0
O1B B:ADP500 3.5 201.8 1.0
OE1 B:GLU262 3.6 199.7 1.0
PB B:ADP500 3.8 209.5 1.0
OD2 B:ASP343 4.2 188.6 1.0
O3A B:ADP500 4.3 216.1 1.0
CG2 B:THR238 4.3 188.4 1.0
N B:THR238 4.4 188.2 1.0
CD B:GLU262 4.5 201.6 1.0
OD1 B:ASP343 4.5 184.3 1.0
CA B:THR238 4.5 188.6 1.0
CE B:LYS237 4.6 174.9 1.0
OE2 B:GLU262 4.6 199.8 1.0
CG B:ASP343 4.8 185.3 1.0
O2A B:ADP500 4.9 209.6 1.0
PA B:ADP500 5.0 221.8 1.0

Magnesium binding site 3 out of 6 in 9oa1

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Magnesium binding site 3 out of 6 in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg501

b:95.4
occ:1.00
 O1B C:ADP500 2.2 105.1 1.0
OG1 C:THR238 2.4 97.2 1.0
PB C:ADP500 3.1 102.4 1.0
O2B C:ADP500 3.2 95.5 1.0
NH2 B:ARG442 3.2 134.3 1.0
OE1 C:GLU262 3.3 127.5 1.0
CB C:THR238 3.6 93.6 1.0
O1A C:ADP500 3.8 107.4 1.0
O3A C:ADP500 3.9 105.5 1.0
CZ B:ARG442 4.0 135.1 1.0
CD C:GLU262 4.1 133.7 1.0
PA C:ADP500 4.2 100.3 1.0
OD2 C:ASP343 4.3 105.0 1.0
OE2 C:GLU262 4.3 139.1 1.0
N C:THR238 4.3 89.2 1.0
NE B:ARG442 4.4 132.9 1.0
O2A C:ADP500 4.4 98.0 1.0
O3B C:ADP500 4.4 93.4 1.0
OD1 C:ASP343 4.5 109.0 1.0
CG2 C:THR238 4.6 98.8 1.0
CA C:THR238 4.6 88.3 1.0
CG C:ASP343 4.9 103.8 1.0
NH1 B:ARG442 4.9 127.0 1.0

Magnesium binding site 4 out of 6 in 9oa1

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Magnesium binding site 4 out of 6 in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg501

b:80.9
occ:1.00
 O1B D:ADP500 2.1 93.3 1.0
OG1 D:THR238 2.3 84.7 1.0
OE1 D:GLU262 2.6 102.9 1.0
OE2 D:GLU262 2.6 102.0 1.0
CD D:GLU262 2.9 102.6 1.0
O3B D:ADP500 3.0 82.2 1.0
PB D:ADP500 3.1 98.4 1.0
CB D:THR238 3.6 80.8 1.0
O3A D:ADP500 4.1 93.0 1.0
O1A D:ADP500 4.1 92.4 1.0
N D:THR238 4.2 78.3 1.0
O2B D:ADP500 4.2 86.4 1.0
OD1 D:ASP343 4.3 92.8 1.0
NH1 C:ARG442 4.4 89.9 1.0
OD2 D:ASP343 4.4 88.9 1.0
CG D:GLU262 4.4 97.0 1.0
PA D:ADP500 4.4 91.3 1.0
CA D:THR238 4.5 77.0 1.0
O2A D:ADP500 4.5 88.4 1.0
CG2 D:THR238 4.6 82.5 1.0
CE1 D:TYR344 4.7 91.0 1.0
CG D:ASP343 4.8 89.1 1.0
CD1 D:TYR344 4.8 89.5 1.0
CE D:LYS237 4.8 78.6 1.0
NZ D:LYS237 4.8 90.8 1.0
CD C:ARG442 4.9 89.3 1.0
CB D:LYS237 4.9 78.9 1.0

Magnesium binding site 5 out of 6 in 9oa1

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Magnesium binding site 5 out of 6 in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg501

b:84.5
occ:1.00
 O3B E:ADP500 2.1 94.9 1.0
OG1 E:THR238 2.1 85.4 1.0
OE1 E:GLU262 2.5 105.2 1.0
OE2 E:GLU262 2.8 116.9 1.0
CD E:GLU262 3.0 111.3 1.0
PB E:ADP500 3.3 93.2 1.0
CB E:THR238 3.4 78.0 1.0
NH2 D:ARG442 3.7 104.2 1.0
O2B E:ADP500 3.7 77.6 1.0
O3A E:ADP500 3.8 89.4 1.0
OD2 E:ASP343 4.0 94.8 1.0
OD1 E:ASP343 4.1 95.0 1.0
CZ D:ARG442 4.2 113.0 1.0
NE D:ARG442 4.2 108.3 1.0
O1A E:ADP500 4.3 93.0 1.0
CG2 E:THR238 4.3 78.5 1.0
N E:THR238 4.3 77.3 1.0
PA E:ADP500 4.4 85.9 1.0
CA E:THR238 4.4 74.4 1.0
CG E:GLU262 4.5 101.8 1.0
O2A E:ADP500 4.5 83.7 1.0
CG E:ASP343 4.5 93.2 1.0
O1B E:ADP500 4.6 78.1 1.0
CD1 E:TYR344 5.0 88.5 1.0

Magnesium binding site 6 out of 6 in 9oa1

Go back to Magnesium Binding Sites List in 9oa1
Magnesium binding site 6 out of 6 in the Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Ecoli Dnab Helicase and Phage Lambda Loader P with Adp-Mg in A 6:5 Stoichiometry Ratio. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg501

b:83.7
occ:1.00
 O3B F:ADP500 2.1 99.0 1.0
OG1 F:THR238 2.1 89.5 1.0
OE1 F:GLU262 2.3 110.4 1.0
NH2 E:ARG442 2.9 107.8 1.0
OE2 F:GLU262 2.9 120.2 1.0
CD F:GLU262 3.0 114.0 1.0
PB F:ADP500 3.4 96.1 1.0
CB F:THR238 3.5 84.4 1.0
CZ E:ARG442 3.7 117.3 1.0
O2B F:ADP500 3.8 79.7 1.0
O3A F:ADP500 3.9 95.2 1.0
OD1 F:ASP343 4.1 93.2 1.0
OD2 F:ASP343 4.1 89.9 1.0
NE E:ARG442 4.1 114.5 1.0
N F:THR238 4.2 77.1 1.0
CG2 F:THR238 4.3 88.0 1.0
CA F:THR238 4.4 77.7 1.0
O1A F:ADP500 4.4 95.8 1.0
CG F:GLU262 4.4 105.1 1.0
O2A F:ADP500 4.5 89.9 1.0
PA F:ADP500 4.5 92.7 1.0
CG F:ASP343 4.5 91.6 1.0
NH1 E:ARG442 4.6 113.1 1.0
O1B F:ADP500 4.6 82.2 1.0
CD1 F:TYR344 4.9 88.5 1.0
CE1 F:TYR344 5.0 89.0 1.0

Reference:

A.Shatarupa, D.Brown, P.D.B.Olinares, J.Chase, E.Isiorho, B.T.Chait, D.Jeruzalmi. Distinct Quaternary States, Intermediates, and Autoinhibition During Loading of the Dnab-Replicative Helicase By the Phage Lambda P Helicase Loader. Biorxiv 2025.
ISSN: ISSN 2692-8205
PubMed: 40501539
DOI: 10.1101/2022.12.30.522210
Page generated: Sat Aug 16 06:57:49 2025

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