Magnesium in PDB 5tky: Crystal Structure of the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation

Protein crystallography data

The structure of Crystal Structure of the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation, PDB code: 5tky was solved by A.Gumiero, G.V.Gese, F.A.Weyer, K.Lapouge, I.Sinning, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.43 / 2.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 66.930, 128.240, 79.680, 90.00, 93.22, 90.00
R / Rfree (%) 22.8 / 26.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation (pdb code 5tky). 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 the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation, PDB code: 5tky:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5tky

Go back to Magnesium Binding Sites List in 5tky
Magnesium binding site 1 out of 2 in the Crystal Structure of the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation


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 the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg701

b:28.5
occ:1.00
O A:HOH808 2.0 33.9 1.0
O A:HOH812 2.0 30.5 1.0
O2G A:ATP700 2.0 38.0 1.0
O2B A:ATP700 2.1 35.9 1.0
O A:HOH803 2.2 37.6 1.0
O A:HOH817 2.3 34.2 1.0
PG A:ATP700 3.2 40.6 1.0
OE1 A:GLU178 3.4 38.0 1.0
PB A:ATP700 3.4 38.2 1.0
O3B A:ATP700 3.6 45.3 1.0
O1G A:ATP700 3.6 43.6 1.0
O2A A:ATP700 3.9 39.5 1.0
O A:HOH810 3.9 39.5 1.0
OD1 A:ASP13 4.1 41.7 1.0
OD2 A:ASP13 4.1 36.9 1.0
CD A:GLU178 4.1 39.1 1.0
O3A A:ATP700 4.4 35.3 1.0
OE2 A:GLU178 4.4 36.8 1.0
O1B A:ATP700 4.4 37.9 1.0
O3G A:ATP700 4.5 38.3 1.0
CG A:ASP13 4.5 39.8 1.0
CA A:GLY15 4.6 45.4 1.0
OD1 A:ASP203 4.6 47.0 1.0
NZ A:LYS74 4.6 44.0 1.0
OD2 A:ASP203 4.7 49.2 1.0
PA A:ATP700 4.7 36.4 1.0

Magnesium binding site 2 out of 2 in 5tky

Go back to Magnesium Binding Sites List in 5tky
Magnesium binding site 2 out of 2 in the Crystal Structure of the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation


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 the Co-Translational HSP70 Chaperone Ssb in the Atp-Bound, Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg701

b:33.7
occ:1.00
O1B B:ATP700 2.0 39.7 1.0
O B:HOH810 2.0 35.3 1.0
O B:HOH814 2.0 31.9 1.0
O B:HOH804 2.1 44.8 1.0
O B:HOH809 2.3 44.2 1.0
O2G B:ATP700 2.4 42.5 1.0
PB B:ATP700 3.4 47.5 1.0
OE1 B:GLU178 3.4 51.2 1.0
PG B:ATP700 3.5 40.2 1.0
O1A B:ATP700 3.8 48.1 1.0
O3B B:ATP700 3.8 43.0 1.0
O3G B:ATP700 3.9 41.5 1.0
O B:HOH824 4.2 40.3 1.0
CD B:GLU178 4.2 47.2 1.0
OD1 B:ASP13 4.2 51.9 1.0
OD2 B:ASP13 4.2 42.2 1.0
O3A B:ATP700 4.3 35.4 1.0
OD1 B:ASP203 4.3 38.4 1.0
OD2 B:ASP203 4.4 49.0 1.0
O2B B:ATP700 4.5 40.2 1.0
PA B:ATP700 4.5 34.9 1.0
OE2 B:GLU178 4.6 46.5 1.0
CG2 B:VAL373 4.6 29.0 1.0
CG B:ASP13 4.6 41.9 1.0
CG B:ASP203 4.8 50.3 1.0
O1G B:ATP700 4.8 40.0 1.0
CA B:GLY15 4.9 32.8 1.0
CA B:GLY205 5.0 38.4 1.0

Reference:

A.Gumiero, C.Conz, G.V.Gese, Y.Zhang, F.A.Weyer, K.Lapouge, J.Kappes, U.Von Plehwe, G.Schermann, E.Fitzke, T.Wolfle, T.Fischer, S.Rospert, I.Sinning. Interaction of the Cotranslational HSP70 Ssb with Ribosomal Proteins and Rrna Depends on Its Lid Domain. Nat Commun V. 7 13563 2016.
ISSN: ESSN 2041-1723
PubMed: 27882919
DOI: 10.1038/NCOMMS13563
Page generated: Mon Dec 14 21:12:41 2020

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