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Terbium in PDB 7nx1: Tg Domain of Ltk

Enzymatic activity of Tg Domain of Ltk

All present enzymatic activity of Tg Domain of Ltk:
2.7.10.1;

Protein crystallography data

The structure of Tg Domain of Ltk, PDB code: 7nx1 was solved by S.De Munck, S.N.Savvides, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.26 / 1.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 55.04, 54.46, 55.01, 90, 111.28, 90
R / Rfree (%) 15.9 / 18.1

Terbium Binding Sites:

The binding sites of Terbium atom in the Tg Domain of Ltk (pdb code 7nx1). This binding sites where shown within 5.0 Angstroms radius around Terbium atom.
In total 4 binding sites of Terbium where determined in the Tg Domain of Ltk, PDB code: 7nx1:
Jump to Terbium binding site number: 1; 2; 3; 4;

Terbium binding site 1 out of 4 in 7nx1

Go back to Terbium Binding Sites List in 7nx1
Terbium binding site 1 out of 4 in the Tg Domain of Ltk


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 1 of Tg Domain of Ltk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb401

b:15.2
occ:0.58
HO4 A:BTB405 1.8 27.6 1.0
O4 A:BTB405 2.2 23.0 1.0
O3 A:BTB406 2.3 19.9 1.0
OE2 A:GLU382 2.3 25.0 1.0
OD2 A:ASP381 2.3 21.6 1.0
O8 A:BTB406 2.3 19.6 1.0
O1 A:BTB406 2.4 20.4 1.0
O6 A:BTB406 2.4 21.2 1.0
HO3 A:BTB406 2.5 23.8 1.0
N A:BTB406 2.6 20.8 1.0
HO8 A:BTB406 3.0 23.5 1.0
HO1 A:BTB406 3.1 24.4 1.0
HO6 A:BTB406 3.1 25.4 1.0
C2 A:BTB406 3.2 22.1 1.0
C8 A:BTB406 3.2 21.6 1.0
C3 A:BTB406 3.2 21.6 1.0
C4 A:BTB405 3.3 24.1 1.0
C6 A:BTB406 3.3 21.7 1.0
H42 A:BTB405 3.3 29.0 1.0
C5 A:BTB406 3.3 21.7 1.0
C1 A:BTB406 3.3 22.0 1.0
CD A:GLU382 3.4 25.8 1.0
CG A:ASP381 3.4 21.9 1.0
C7 A:BTB406 3.4 21.4 1.0
H82 A:BTB406 3.5 26.0 1.0
H51 A:BTB406 3.6 26.1 1.0
H62 A:BTB406 3.6 26.1 1.0
H41 A:BTB405 3.6 29.0 1.0
HG2 A:GLU382 3.7 28.6 1.0
TB A:TB402 3.7 15.8 0.6
HO3 A:BTB405 3.8 27.5 1.0
OD1 A:ASP381 3.8 21.4 1.0
H31 A:BTB406 3.8 26.0 1.0
H62 A:BTB405 3.9 25.5 1.0
H12 A:BTB406 4.0 26.4 1.0
H32 A:BTB406 4.0 26.0 1.0
CG A:GLU382 4.0 23.8 1.0
H72 A:BTB406 4.1 25.7 1.0
H11 A:BTB406 4.1 26.4 1.0
H81 A:BTB406 4.2 26.0 1.0
H71 A:BTB406 4.2 25.7 1.0
H61 A:BTB406 4.3 26.1 1.0
HG3 A:GLU382 4.3 28.6 1.0
H52 A:BTB406 4.3 26.1 1.0
OE1 A:GLU382 4.3 27.8 1.0
O6 A:BTB405 4.4 20.0 1.0
O A:HOH508 4.5 21.9 1.0
O3 A:BTB405 4.5 22.9 1.0
H32 A:BTB405 4.5 29.4 1.0
C2 A:BTB405 4.5 25.1 1.0
O A:HOH505 4.6 29.5 1.0
HB2 A:ASP381 4.6 26.0 1.0
C6 A:BTB405 4.6 21.2 1.0
CB A:ASP381 4.7 21.6 1.0
C4 A:BTB406 4.7 25.6 1.0
C3 A:BTB405 4.8 24.5 1.0
HA A:HIS378 4.8 21.9 1.0
H A:GLY379 4.9 24.3 1.0
N A:BTB405 5.0 23.9 1.0

Terbium binding site 2 out of 4 in 7nx1

Go back to Terbium Binding Sites List in 7nx1
Terbium binding site 2 out of 4 in the Tg Domain of Ltk


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 2 of Tg Domain of Ltk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb402

b:15.8
occ:0.56
HO3 A:BTB406 2.0 23.8 1.0
HO3 A:BTB405 2.2 27.5 1.0
O3 A:BTB406 2.2 19.9 1.0
HO8 A:BTB405 2.3 35.7 1.0
O4 A:BTB405 2.3 23.0 1.0
O8 A:BTB405 2.3 29.7 1.0
O3 A:BTB405 2.3 22.9 1.0
O6 A:BTB405 2.3 20.0 1.0
N A:BTB405 2.6 23.9 1.0
HO4 A:BTB405 2.7 27.6 1.0
HO6 A:BTB405 3.1 24.0 1.0
C2 A:BTB405 3.2 25.1 1.0
C6 A:BTB405 3.2 21.2 1.0
C3 A:BTB405 3.2 24.5 1.0
C4 A:BTB405 3.2 24.1 1.0
C8 A:BTB405 3.2 29.2 1.0
C3 A:BTB406 3.3 21.6 1.0
C7 A:BTB405 3.4 27.2 1.0
H62 A:BTB405 3.4 25.5 1.0
H32 A:BTB406 3.4 26.0 1.0
C5 A:BTB405 3.4 22.5 1.0
H31 A:BTB406 3.6 26.0 1.0
H82 A:BTB405 3.6 35.0 1.0
TB A:TB401 3.7 15.2 0.6
H72 A:BTB405 3.7 32.7 1.0
H82 A:BTB406 3.8 26.0 1.0
H32 A:BTB405 3.9 29.4 1.0
H41 A:BTB405 3.9 29.0 1.0
H42 A:BTB405 4.0 29.0 1.0
H31 A:BTB405 4.0 29.4 1.0
H52 A:BTB405 4.0 27.1 1.0
H81 A:BTB405 4.1 35.0 1.0
H61 A:BTB405 4.2 25.5 1.0
H51 A:BTB405 4.2 27.1 1.0
O8 A:BTB406 4.3 19.6 1.0
H71 A:BTB405 4.3 32.7 1.0
OE2 A:GLU382 4.4 25.0 1.0
C8 A:BTB406 4.6 21.6 1.0
C2 A:BTB406 4.6 22.1 1.0
HO8 A:BTB406 4.7 23.5 1.0
C1 A:BTB405 4.7 29.0 1.0
O1 A:BTB406 4.7 20.4 1.0
H12 A:BTB406 4.8 26.4 1.0
N A:BTB406 4.9 20.8 1.0
C1 A:BTB406 5.0 22.0 1.0
OD2 A:ASP381 5.0 21.6 1.0

Terbium binding site 3 out of 4 in 7nx1

Go back to Terbium Binding Sites List in 7nx1
Terbium binding site 3 out of 4 in the Tg Domain of Ltk


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 3 of Tg Domain of Ltk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb403

b:30.2
occ:0.55
O A:HOH512 2.4 32.2 1.0
O A:HOH671 2.4 40.2 1.0
O A:HOH651 2.6 32.1 1.0
O A:HOH669 2.8 35.6 1.0
OE2 A:GLU372 4.2 31.1 1.0
OE1 A:GLU372 4.5 29.5 1.0
CD A:GLU372 4.6 29.3 1.0

Terbium binding site 4 out of 4 in 7nx1

Go back to Terbium Binding Sites List in 7nx1
Terbium binding site 4 out of 4 in the Tg Domain of Ltk


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 4 of Tg Domain of Ltk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb404

b:28.2
occ:0.43
O A:HOH628 2.2 57.1 1.0
OD2 A:ASP335 2.4 28.2 1.0
OE1 A:GLU347 2.4 29.5 1.0
O A:HOH621 2.5 46.5 1.0
OE2 A:GLU347 2.5 30.6 1.0
CD A:GLU347 2.8 28.4 1.0
CG A:ASP335 3.5 24.7 1.0
HB2 A:ASP335 3.7 26.2 1.0
H A:ASP335 4.0 21.4 1.0
CB A:ASP335 4.2 21.8 1.0
O A:HOH518 4.3 34.9 1.0
CG A:GLU347 4.3 25.5 1.0
OD1 A:ASP335 4.4 25.4 1.0
HG3 A:GLU347 4.7 30.7 1.0
HG2 A:GLU347 4.8 30.7 1.0
N A:ASP335 4.8 17.8 1.0
HB3 A:ASP335 4.8 26.2 1.0
HB3 A:GLU347 4.9 24.4 1.0

Reference:

S.De Munck, M.Provost, M.Kurikawa, I.Omori, J.Mukohyama, J.Felix, Y.Bloch, O.Abdel-Wahab, J.F.Bazan, A.Yoshimi, S.N.Savvides. Structural Basis of Cytokine-Mediated Activation of Alk Family Receptors. Nature 2021.
ISSN: ESSN 1476-4687
PubMed: 34646012
DOI: 10.1038/S41586-021-03959-5
Page generated: Fri Nov 5 16:15:25 2021

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