Atomistry » Magnesium » PDB 7dug-7e1h » 7dwr
Atomistry »
  Magnesium »
    PDB 7dug-7e1h »
      7dwr »

Magnesium in PDB 7dwr: Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna

Protein crystallography data

The structure of Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna, PDB code: 7dwr was solved by C.Y.Yen, M.G.Lin, C.D.Hsiao, Y.J.Sun, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.68 / 2.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 220, 60.541, 132.143, 90, 127.01, 90
R / Rfree (%) 23.9 / 29.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna (pdb code 7dwr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna, PDB code: 7dwr:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7dwr

Go back to Magnesium Binding Sites List in 7dwr
Magnesium binding site 1 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:40.1
occ:1.00
O A:HOH401 2.1 30.3 1.0
O A:HOH406 2.6 35.3 1.0
O A:HOH405 2.6 33.9 1.0
O A:HOH403 2.6 34.5 1.0
O1B A:ADP301 2.7 38.4 1.0
OG1 A:THR15 2.9 36.7 1.0
O1A A:ADP301 3.5 39.0 1.0
CB A:THR15 3.8 33.4 1.0
CA A:GLY41 3.9 30.0 1.0
PB A:ADP301 3.9 36.0 1.0
O3B A:ADP301 4.2 40.6 1.0
OD2 A:ASP37 4.4 34.7 1.0
N A:GLY41 4.5 28.9 1.0
O3A A:ADP301 4.5 41.8 1.0
CG2 A:THR15 4.6 31.2 1.0
PA A:ADP301 4.6 41.1 1.0
O A:HOH404 4.7 30.7 1.0
C A:GLY41 5.0 30.6 1.0

Magnesium binding site 2 out of 4 in 7dwr

Go back to Magnesium Binding Sites List in 7dwr
Magnesium binding site 2 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg302

b:28.3
occ:1.00
O B:HOH401 1.9 27.7 1.0
O2B B:ADP301 2.2 36.7 1.0
OG1 B:THR15 2.2 33.1 1.0
O B:HOH403 2.3 35.7 1.0
O B:HOH402 2.9 29.8 1.0
PB B:ADP301 3.3 40.3 1.0
CB B:THR15 3.5 30.8 1.0
O3B B:ADP301 3.6 45.0 1.0
O1A B:ADP301 3.9 32.6 1.0
N B:THR15 4.0 31.5 1.0
OD2 B:ASP37 4.1 37.5 1.0
O B:HOH405 4.1 32.5 1.0
O1B B:ADP301 4.1 35.4 1.0
CA B:THR15 4.3 29.9 1.0
O B:HOH404 4.3 30.2 1.0
OD2 B:ASP105 4.5 25.4 1.0
CG2 B:THR15 4.5 26.9 1.0
O3A B:ADP301 4.5 35.5 1.0
PA B:ADP301 4.7 34.4 1.0
CB B:LYS14 4.8 30.2 1.0
CG B:ASP37 4.9 33.6 1.0
OD1 B:ASP105 5.0 30.4 1.0

Magnesium binding site 3 out of 4 in 7dwr

Go back to Magnesium Binding Sites List in 7dwr
Magnesium binding site 3 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg302

b:26.9
occ:1.00
O C:HOH406 1.9 38.2 1.0
O C:HOH404 2.0 31.5 1.0
OG1 C:THR15 2.1 36.1 1.0
O C:HOH405 2.3 32.2 1.0
O2B C:ADP301 2.3 38.9 1.0
CB C:THR15 3.3 33.2 1.0
O C:HOH402 3.4 34.4 1.0
PB C:ADP301 3.5 40.2 1.0
O C:HOH403 3.5 34.1 1.0
OD2 C:ASP37 3.8 36.5 1.0
O3B C:ADP301 3.8 39.3 1.0
O2A C:ADP301 4.0 39.0 1.0
O C:HOH401 4.1 32.6 1.0
N C:THR15 4.2 37.0 1.0
CA C:THR15 4.3 35.9 1.0
CG2 C:THR15 4.3 27.9 1.0
OD2 C:ASP105 4.3 29.2 1.0
O1B C:ADP301 4.3 37.4 1.0
O3A C:ADP301 4.7 37.3 1.0
CG C:ASP37 4.8 34.1 1.0
PA C:ADP301 4.9 42.3 1.0
CA C:GLY41 4.9 30.0 1.0
CE C:LYS14 5.0 40.8 1.0

Magnesium binding site 4 out of 4 in 7dwr

Go back to Magnesium Binding Sites List in 7dwr
Magnesium binding site 4 out of 4 in the Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Sulfolobus Solfataricus Sega-Adp Complex Bound to Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg302

b:32.5
occ:1.00
O D:HOH402 1.9 28.6 1.0
O D:HOH401 1.9 40.4 1.0
O D:HOH403 2.0 35.2 1.0
O D:HOH406 2.6 31.6 1.0
O1B D:ADP301 2.8 36.9 1.0
OG1 D:THR15 3.0 31.3 1.0
OD2 D:ASP37 3.2 32.5 1.0
O3B D:ADP301 3.7 41.2 1.0
PB D:ADP301 3.7 35.5 1.0
CB D:THR15 4.2 32.8 1.0
CG D:ASP37 4.3 32.4 1.0
O2B D:ADP301 4.5 39.0 1.0
O1A D:ADP301 4.5 38.8 1.0
CE D:LYS14 4.5 38.5 1.0
O D:HOH404 4.7 27.6 1.0
O D:THR106 4.8 30.8 1.0
OD2 D:ASP105 4.8 26.9 1.0
N D:THR15 4.8 33.6 1.0
CA D:GLY41 4.8 24.2 1.0
OD1 D:ASP105 4.9 31.2 1.0
CB D:ASP37 5.0 30.7 1.0

Reference:

C.Y.Yen, M.G.Lin, B.W.Chen, I.W.Ng, N.Read, A.F.Kabli, C.T.Wu, Y.Y.Shen, C.H.Chen, D.Barilla, Y.J.Sun, C.D.Hsiao. Chromosome Segregation in Archaea: Sega- and Segb-Dna Complex Structures Provide Insights Into Segrosome Assembly. Nucleic Acids Res. 2021.
ISSN: ESSN 1362-4962
PubMed: 34850144
DOI: 10.1093/NAR/GKAB1155
Page generated: Wed Oct 2 16:32:29 2024

Last articles

Zn in 1ELX
Zn in 1EKM
Zn in 1EKB
Zn in 1EJ6
Zn in 1EH8
Zn in 1EFZ
Zn in 1ED8
Zn in 1EH7
Zn in 1EH6
Zn in 1EF4
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy