Atomistry » Magnesium » PDB 5d1f-5d9c » 5d6g
Atomistry »
  Magnesium »
    PDB 5d1f-5d9c »
      5d6g »

Magnesium in PDB 5d6g: Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii

Protein crystallography data

The structure of Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii, PDB code: 5d6g was solved by A.G.Gabdulkhakov, I.V.Mitroshin, M.B.Garber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.83 / 3.30
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 104.230, 108.310, 112.950, 90.00, 90.00, 90.00
R / Rfree (%) 24.5 / 29.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii (pdb code 5d6g). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii, PDB code: 5d6g:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5d6g

Go back to Magnesium Binding Sites List in 5d6g
Magnesium binding site 1 out of 2 in the Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Mg1301

b:0.5
occ:1.00
O 0:HOH1404 1.8 78.8 1.0
O4 0:U1191 2.2 0.3 1.0
O 0:HOH1402 2.5 37.4 1.0
O 0:HOH1403 2.7 60.9 1.0
O 0:HOH1405 2.9 63.5 1.0
O4 0:U1192 3.0 0.8 1.0
C4 0:U1191 3.0 0.9 1.0
C5 0:U1191 3.4 0.5 1.0
OP1 0:G1197 3.9 0.7 1.0
C4 0:U1192 4.0 0.9 1.0
N3 0:U1191 4.2 0.7 1.0
C5 0:U1192 4.5 0.8 1.0
N6 0:A1167 4.5 0.3 1.0
O 0:HOH1401 4.5 61.7 1.0
OP2 0:A1196 4.6 0.5 1.0
O4 0:U1193 4.6 0.8 1.0
C6 0:U1191 4.7 0.7 1.0
N3 0:U1193 4.7 0.1 1.0
C2 0:A1196 4.7 0.4 1.0
C4 0:U1193 4.8 0.9 1.0

Magnesium binding site 2 out of 2 in 5d6g

Go back to Magnesium Binding Sites List in 5d6g
Magnesium binding site 2 out of 2 in the Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Mg1302

b:98.3
occ:1.00
O4 0:U1204 1.8 0.1 1.0
OP2 0:A1183 2.4 0.4 1.0
O6 0:G1203 3.0 0.3 1.0
C4 0:U1204 3.0 0.2 1.0
OP2 0:C1207 3.7 0.1 1.0
P 0:A1183 3.7 0.7 1.0
C6 0:G1203 3.8 0.3 1.0
N3 0:U1204 3.9 0.8 1.0
N1 0:G1203 4.0 0.2 1.0
C5 0:U1204 4.0 0.2 1.0
C3' 0:C1182 4.1 0.9 1.0
C2' 0:C1182 4.2 0.4 1.0
O3' 0:C1182 4.3 0.1 1.0
OP1 0:A1183 4.4 0.9 1.0
N1 0:C1182 4.7 0.9 1.0
C6 0:C1182 4.7 0.2 1.0
P 0:C1207 4.7 0.9 1.0
OP1 0:C1207 4.8 0.7 1.0
O5' 0:A1183 5.0 0.7 1.0
C5 0:C1182 5.0 0.1 1.0
C2 0:C1182 5.0 0.9 1.0
C5 0:G1203 5.0 0.5 1.0

Reference:

A.G.Gabdulkhakov, I.V.Mitroshin, M.B.Garber. Crystal Structure of Fragment of Ribosomal Protein P0 in Complex with 74NT 23S Rna From Methanococcus Jannaschii To Be Published.
Page generated: Mon Dec 14 20:10:12 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy