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Sodium in PDB 6ta7: Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif

Enzymatic activity of Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif

All present enzymatic activity of Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif:
3.6.4.12; 3.6.4.13;

Protein crystallography data

The structure of Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif, PDB code: 6ta7 was solved by T.Schulte, A.Achour, M.D.Panas, G.M.Mcinerney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.54 / 1.93
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 81.558, 100.038, 113.345, 90, 90, 90
R / Rfree (%) 20.7 / 25.2

Other elements in 6ta7:

The structure of Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif (pdb code 6ta7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif, PDB code: 6ta7:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 6ta7

Go back to Sodium Binding Sites List in 6ta7
Sodium binding site 1 out of 2 in the Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:65.3
occ:1.00
O A:HOH359 2.3 72.7 1.0
H A:VAL80 2.5 44.6 1.0
O A:HOH326 2.5 54.7 1.0
O A:HOH303 2.7 59.3 1.0
HA A:HIS79 2.7 45.8 1.0
HH12 A:ARG13 3.2 169.5 1.0
N A:VAL80 3.3 36.9 1.0
CA A:HIS79 3.6 37.9 1.0
O A:VAL80 3.8 34.4 1.0
NH1 A:ARG13 3.9 140.9 1.0
C A:HIS79 3.9 38.3 1.0
HH11 A:ARG13 4.1 169.5 1.0
HB A:VAL80 4.1 51.1 1.0
O A:ARG78 4.1 44.1 1.0
CA A:VAL80 4.3 32.7 1.0
N A:HIS79 4.4 38.1 1.0
C A:VAL80 4.4 38.3 1.0
C A:ARG78 4.6 43.7 1.0
ND1 A:HIS79 4.6 48.5 1.0
HG23 A:VAL80 4.6 45.0 1.0
HB2 A:HIS79 4.6 63.1 1.0
CB A:HIS79 4.6 52.3 1.0
HH22 A:ARG13 4.6 250.4 1.0
CB A:VAL80 4.7 42.3 1.0
CZ A:ARG13 4.9 178.3 1.0
H A:HIS79 4.9 46.0 1.0
CG A:HIS79 5.0 51.0 1.0

Sodium binding site 2 out of 2 in 6ta7

Go back to Sodium Binding Sites List in 6ta7
Sodium binding site 2 out of 2 in the Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Human G3BP1-NTF2 in Complex with Human CAPRIN1- Derived Solomon Motif within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na202

b:52.0
occ:1.00
HE D:ARG13 2.0 61.6 1.0
HH21 D:ARG13 2.0 76.4 1.0
NE D:ARG13 2.7 51.0 1.0
O D:HOH341 2.8 44.1 1.0
NH2 D:ARG13 2.8 63.4 1.0
O D:HOH336 2.8 63.9 1.0
HB3 E:SER7 3.0 43.4 1.0
CL D:CL201 3.0 43.4 1.0
CZ D:ARG13 3.2 56.4 1.0
HB3 D:ARG13 3.4 43.2 1.0
HH22 D:ARG13 3.5 76.4 1.0
HB2 E:SER7 3.7 43.4 1.0
CB E:SER7 3.8 35.9 1.0
HG E:SER7 4.0 41.5 1.0
CD D:ARG13 4.0 47.0 1.0
O D:HOH309 4.0 59.8 1.0
O E:HOH242 4.0 54.7 1.0
HD3 D:ARG13 4.0 56.7 1.0
O D:HOH330 4.2 70.3 1.0
CB D:ARG13 4.3 35.7 1.0
OG E:SER7 4.3 34.3 1.0
NH1 D:ARG13 4.5 54.4 1.0
O D:HOH311 4.5 30.8 1.0
HB2 D:ARG13 4.5 43.2 1.0
CG D:ARG13 4.6 36.5 1.0
HD2 D:ARG13 4.7 56.7 1.0
O D:HOH322 4.7 31.6 1.0
O D:HOH337 4.7 50.9 1.0
HG2 D:ARG13 4.8 44.2 1.0
H E:SER7 4.9 47.0 1.0
HH11 D:ARG13 5.0 65.6 1.0
HH12 D:ARG13 5.0 65.6 1.0
CA E:SER7 5.0 32.9 1.0

Reference:

T.Schulte, M.D.Panas, L.Williams, N.Kedersha, J.S.Fleck, T.J.Tan, A.Olsson, A.M.Morro, L.Hanke, J.Nilvebrant, K.A.Giang, P.A.Nygren, P.Anderson, A.Achour, G.M.Mcinerney. Caprin-1 Binding to the Critical Stress Granule Protein G3BP1 Is Regulated By pH Biorxiv 2021.
DOI: 10.1101/2021.02.05.429362
Page generated: Mon Jul 12 15:46:37 2021

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