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Uranium in PDB 1b4z: Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk

Protein crystallography data

The structure of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk, PDB code: 1b4z was solved by J.R.H.Tame, S.H.Sleigh, A.J.Wilkinson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 1.75
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 110.010, 75.550, 70.381, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 21.4

Uranium Binding Sites:

The binding sites of Uranium atom in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk (pdb code 1b4z). This binding sites where shown within 5.0 Angstroms radius around Uranium atom.
In total 8 binding sites of Uranium where determined in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk, PDB code: 1b4z:
Jump to Uranium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Uranium binding site 1 out of 8 in 1b4z

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Uranium binding site 1 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 1 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U518

b:15.4
occ:0.85
OD2 A:ASP323 2.3 14.6 1.0
O A:ACT527 2.4 13.3 1.0
O A:ACT526 2.4 24.2 1.0
CH3 A:ACT527 3.1 19.5 1.0
C A:ACT527 3.2 18.3 1.0
CG A:ASP323 3.2 17.1 1.0
C A:ACT526 3.3 21.3 1.0
OD1 A:ASP323 3.4 18.1 1.0
OXT A:ACT527 4.3 16.6 1.0
OXT A:ACT526 4.5 20.3 1.0
CB A:ASP323 4.6 17.1 1.0
O A:HOH743 4.7 30.6 1.0
NZ A:LYS157 4.8 16.7 1.0
O A:HOH831 4.8 35.0 1.0

Uranium binding site 2 out of 8 in 1b4z

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Uranium binding site 2 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 2 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U519

b:20.5
occ:0.88
O A:ACT528 2.4 15.8 1.0
O A:ACT529 2.4 22.6 1.0
C A:ACT528 3.3 20.5 1.0
C A:ACT529 3.4 23.0 1.0
CH3 A:ACT529 3.6 24.0 1.0
CH3 A:ACT528 3.6 19.8 1.0
U A:IUM520 4.2 22.7 0.8
O A:HOH831 4.3 35.0 1.0
OXT A:ACT528 4.5 16.8 1.0
OXT A:ACT529 4.6 26.3 1.0
O A:ACT530 4.7 19.0 1.0

Uranium binding site 3 out of 8 in 1b4z

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Uranium binding site 3 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 3 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U520

b:22.7
occ:0.85
O A:ACT531 2.4 20.9 1.0
O A:ACT530 2.4 19.0 1.0
C A:ACT531 3.3 25.4 1.0
CH3 A:ACT531 3.3 26.0 1.0
C A:ACT530 3.5 26.4 1.0
OD2 A:ASP459 3.9 38.4 1.0
CH3 A:ACT530 4.0 27.4 1.0
U A:IUM519 4.2 20.5 0.9
OXT A:ACT531 4.4 24.4 1.0
OXT A:ACT530 4.5 26.2 1.0
CG A:ASP459 4.6 38.2 1.0
O A:ACT528 4.7 15.8 1.0
CB A:PRO153 4.9 19.2 1.0
O A:HOH646 4.9 23.7 1.0
O A:HOH831 5.0 35.0 1.0
OD1 A:ASP459 5.0 39.3 1.0

Uranium binding site 4 out of 8 in 1b4z

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Uranium binding site 4 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 4 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U521

b:20.7
occ:0.45
OE2 A:GLU251 2.5 41.9 1.0
OD1 A:ASP369 3.6 28.5 1.0
CD A:GLU251 3.6 41.0 1.0
NZ A:LYS373 4.0 33.6 1.0
CG A:GLU251 4.3 40.7 1.0
CG A:ASP369 4.4 26.8 1.0
OE1 A:GLU251 4.5 41.6 1.0
CE A:LYS373 4.7 31.6 1.0
CG2 A:VAL230 4.7 20.6 1.0
CB A:ASP369 4.8 25.2 1.0

Uranium binding site 5 out of 8 in 1b4z

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Uranium binding site 5 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 5 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U522

b:19.3
occ:0.82
OD2 A:ASP362 2.3 14.0 1.0
OD2 A:ASP410 2.4 14.2 1.0
CG A:ASP362 3.2 15.0 1.0
CG A:ASP410 3.4 18.0 1.0
OD1 A:ASP410 3.6 18.9 1.0
OD1 A:ASP362 3.8 18.1 1.0
NZ A:LYS281 3.9 29.6 1.0
O A:HOH850 4.1 36.1 1.0
CB A:ASP362 4.3 16.1 1.0
N A:ASP362 4.3 17.4 1.0
O A:HOH862 4.5 37.3 1.0
O A:HOH661 4.6 24.6 1.0
CB A:ASP410 4.7 16.0 1.0
O A:HOH950 4.7 47.1 1.0
CA A:PHE361 4.9 18.4 1.0
CA A:ASP362 5.0 16.2 1.0

Uranium binding site 6 out of 8 in 1b4z

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Uranium binding site 6 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 6 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U523

b:33.7
occ:0.47
OXT A:HIS517 2.7 28.1 1.0
O A:HIS517 3.4 30.7 1.0
C A:HIS517 3.4 28.2 1.0
U A:IUM524 4.1 40.0 0.5
O A:HOH749 4.7 30.8 1.0
CA A:HIS517 4.9 27.9 1.0

Uranium binding site 7 out of 8 in 1b4z

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Uranium binding site 7 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 7 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U524

b:40.0
occ:0.45
U A:IUM523 4.1 33.7 0.5
O A:HOH731 4.6 29.9 1.0
O A:HOH835 4.8 35.0 1.0

Uranium binding site 8 out of 8 in 1b4z

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Uranium binding site 8 out of 8 in the Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 8 of Oligo-Peptide Binding Protein (Oppa) Complexed with Kdk within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U525

b:37.1
occ:0.55
OD2 A:ASP11 2.5 35.4 1.0
CG A:ASP11 3.4 32.1 1.0
CB A:ASP11 3.8 28.6 1.0
OD1 A:ASP11 4.5 31.1 1.0
O A:HOH787 4.8 33.0 1.0

Reference:

S.H.Sleigh, P.R.Seavers, A.J.Wilkinson, J.E.Ladbury, J.R.Tame. Crystallographic and Calorimetric Analysis of Peptide Binding to Oppa Protein. J.Mol.Biol. V. 291 393 1999.
ISSN: ISSN 0022-2836
PubMed: 10438628
DOI: 10.1006/JMBI.1999.2929
Page generated: Wed Dec 16 02:29:24 2020

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