Atomistry » Terbium » PDB 1m9s-6xym » 2ojr
Atomistry »
  Terbium »
    PDB 1m9s-6xym »
      2ojr »

Terbium in PDB 2ojr: Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag

Protein crystallography data

The structure of Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag, PDB code: 2ojr was solved by N.R.Silvaggi, K.N.Allen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.49 / 2.60
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 57.870, 57.870, 115.260, 90.00, 90.00, 120.00
R / Rfree (%) 21.6 / 25.4

Terbium Binding Sites:

The binding sites of Terbium atom in the Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag (pdb code 2ojr). This binding sites where shown within 5.0 Angstroms radius around Terbium atom.
In total 2 binding sites of Terbium where determined in the Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag, PDB code: 2ojr:
Jump to Terbium binding site number: 1; 2;

Terbium binding site 1 out of 2 in 2ojr

Go back to Terbium Binding Sites List in 2ojr
Terbium binding site 1 out of 2 in the Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 1 of Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb500

b:57.7
occ:1.00
OD1 A:ASN73 2.2 59.1 1.0
OD1 A:ASP71 2.2 54.9 1.0
OE1 A:GLU79 2.2 63.3 1.0
O A:TRP77 2.3 59.8 1.0
OE2 A:GLU79 2.4 62.2 1.0
OE2 A:GLU82 2.5 55.7 1.0
CD A:GLU79 2.6 62.4 1.0
OD1 A:ASP75 2.7 58.0 1.0
OE1 A:GLU82 2.7 56.5 1.0
CD A:GLU82 2.9 57.6 1.0
CG A:ASN73 3.1 59.0 1.0
CG A:ASP75 3.1 59.7 1.0
OD2 A:ASP75 3.2 58.5 1.0
C A:TRP77 3.3 60.3 1.0
CG A:ASP71 3.3 58.4 1.0
ND2 A:ASN73 3.3 58.0 1.0
N A:TRP77 4.0 60.7 1.0
N A:ILE78 4.1 60.2 1.0
CB A:ASP71 4.1 59.0 1.0
N A:ASP75 4.1 61.5 1.0
CA A:ASP71 4.1 59.5 1.0
CG A:GLU79 4.1 61.4 1.0
CA A:TRP77 4.2 60.7 1.0
OD2 A:ASP71 4.2 55.0 1.0
CA A:ILE78 4.2 60.4 1.0
CB A:ASP75 4.3 60.8 1.0
CG A:GLU82 4.4 58.2 1.0
N A:GLU79 4.4 60.9 1.0
CB A:ASN73 4.4 59.8 1.0
N A:ASN73 4.5 60.1 1.0
N A:ASN74 4.5 61.1 1.0
C A:ASP71 4.5 59.3 1.0
CB A:TRP77 4.6 61.3 1.0
CA A:ASP75 4.6 61.0 1.0
C A:ILE78 4.7 60.5 1.0
N A:THR72 4.7 59.5 1.0
N A:GLY76 4.8 60.7 1.0
CA A:ASN73 4.8 60.2 1.0
CB A:GLU79 4.8 61.0 1.0
C A:ASN73 4.9 60.7 1.0
C A:ASP75 4.9 60.7 1.0

Terbium binding site 2 out of 2 in 2ojr

Go back to Terbium Binding Sites List in 2ojr
Terbium binding site 2 out of 2 in the Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 2 of Structure of Ubiquitin Solved By Sad Using the Lanthanide-Binding Tag within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb501

b:49.5
occ:1.00
OE2 A:GLU97 2.0 54.2 1.0
OE2 A:GLU94 2.0 30.9 1.0
OD2 A:ASP86 2.1 51.7 1.0
OE1 A:GLU94 2.1 36.7 1.0
OD1 A:ASP90 2.2 49.3 1.0
OD1 A:ASN88 2.3 56.0 1.0
CD A:GLU94 2.4 38.4 1.0
O A:TRP92 2.4 48.8 1.0
CD A:GLU97 2.7 51.3 1.0
OE1 A:GLU97 2.9 51.9 1.0
CG A:ASP90 3.0 51.0 1.0
OD2 A:ASP90 3.0 48.6 1.0
CG A:ASN88 3.1 52.8 1.0
CG A:ASP86 3.1 53.9 1.0
C A:TRP92 3.2 49.0 1.0
ND2 A:ASN88 3.4 51.4 1.0
OD1 A:ASP86 3.7 53.7 1.0
CG A:GLU94 3.9 43.0 1.0
N A:ILE93 4.0 47.9 1.0
CA A:ILE93 4.0 47.2 1.0
CA A:TRP92 4.1 50.0 1.0
O A:HOH17 4.1 55.6 1.0
CG A:GLU97 4.1 50.6 1.0
N A:GLU94 4.1 46.4 1.0
N A:TRP92 4.2 50.6 1.0
CB A:ASP86 4.3 53.9 1.0
CB A:ASP90 4.4 52.4 1.0
N A:ASP90 4.4 53.4 1.0
CB A:ASN88 4.4 52.9 1.0
CB A:TRP92 4.4 49.9 1.0
N A:ASN88 4.4 53.0 1.0
C A:ILE93 4.5 46.7 1.0
CA A:ASP86 4.5 53.8 1.0
O A:ASP90 4.5 53.2 1.0
CD1 A:ILE93 4.6 47.4 1.0
N A:ASN89 4.7 53.2 1.0
CB A:GLU94 4.7 45.4 1.0
C A:ASP90 4.7 52.8 1.0
CA A:ASP90 4.8 52.7 1.0
CA A:ASN88 4.8 52.9 1.0
C A:ASP86 4.8 53.4 1.0
C A:ASN88 4.9 52.9 1.0

Reference:

N.R.Silvaggi, L.J.Martin, H.Schwalbe, B.Imperiali, K.N.Allen. Double-Lanthanide-Binding Tags For Macromolecular Crystallographic Structure Determination. J.Am.Chem.Soc. V. 129 7114 2007.
ISSN: ISSN 0002-7863
PubMed: 17497863
DOI: 10.1021/JA070481N
Page generated: Wed Dec 16 02:26:37 2020

Last articles

Zn in 7RE3
Zn in 7RDX
Zn in 7RDZ
Zn in 7RWM
Zn in 7PGU
Zn in 7PGR
Zn in 7PGT
Zn in 7PGS
Zn in 7SQE
Zn in 7RWK
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy