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Uranium in PDB 1b5h: Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine

Protein crystallography data

The structure of Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine, PDB code: 1b5h was solved by T.G.Davies, J.R.H.Tame, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 109.450, 75.790, 70.190, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 23

Uranium Binding Sites:

The binding sites of Uranium atom in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine (pdb code 1b5h). 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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine, PDB code: 1b5h:
Jump to Uranium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Uranium binding site 1 out of 8 in 1b5h

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Uranium binding site 1 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U518

b:24.3
occ:0.88
OD2 A:ASP323 2.2 21.4 1.0
CG A:ASP323 3.2 26.4 1.0
OD1 A:ASP323 3.4 23.8 1.0
CB A:ASP323 4.6 24.7 1.0
NZ A:LYS157 4.8 21.9 1.0

Uranium binding site 2 out of 8 in 1b5h

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Uranium binding site 2 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U519

b:29.1
occ:0.85
U A:U1520 4.2 29.7 0.8

Uranium binding site 3 out of 8 in 1b5h

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Uranium binding site 3 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U520

b:29.7
occ:0.81
OD2 A:ASP459 4.2 51.8 1.0
U A:U1519 4.2 29.1 0.8
OD1 A:ASP459 4.3 51.8 1.0
CG A:ASP459 4.4 49.9 1.0
CB A:PRO153 4.9 29.4 1.0

Uranium binding site 4 out of 8 in 1b5h

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Uranium binding site 4 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U521

b:27.0
occ:0.60
OE1 A:GLU251 2.3 41.0 1.0
OD2 A:ASP369 2.8 42.8 0.0
CD A:GLU251 3.5 41.4 1.0
NZ A:LYS373 3.9 42.6 1.0
CG A:ASP369 4.0 40.3 0.0
OE2 A:GLU251 4.3 41.9 1.0
CG A:GLU251 4.4 39.6 1.0
CB A:ASP369 4.5 33.3 1.0
CG2 A:VAL230 4.6 28.8 1.0
OD1 A:ASP369 4.8 41.5 0.0
CE A:LYS373 4.9 41.1 1.0

Uranium binding site 5 out of 8 in 1b5h

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Uranium binding site 5 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U522

b:28.7
occ:0.86
OD1 A:ASP362 2.3 21.4 1.0
OD1 A:ASP410 2.4 27.0 1.0
CG A:ASP362 3.3 25.9 1.0
CG A:ASP410 3.4 26.6 1.0
OD2 A:ASP410 3.6 28.9 1.0
OD2 A:ASP362 3.8 27.1 1.0
NZ A:LYS281 3.9 40.0 1.0
N A:ASP362 4.3 25.7 1.0
CB A:ASP362 4.4 25.2 1.0
O A:HOH597 4.6 29.2 1.0
CB A:ASP410 4.7 25.8 1.0
CA A:PHE361 4.8 29.1 1.0
C A:PHE361 5.0 28.0 1.0

Uranium binding site 6 out of 8 in 1b5h

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Uranium binding site 6 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U523

b:23.4
occ:0.31
OXT A:HIS517 2.8 31.9 1.0
O A:HIS517 3.3 35.0 1.0
C A:HIS517 3.4 33.9 1.0
U A:U1524 4.1 20.6 0.2
CA A:HIS517 4.9 33.5 1.0
O A:HOH823 4.9 52.3 1.0

Uranium binding site 7 out of 8 in 1b5h

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Uranium binding site 7 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U524

b:20.6
occ:0.23
U A:U1523 4.1 23.4 0.3

Uranium binding site 8 out of 8 in 1b5h

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Uranium binding site 8 out of 8 in the Oligo-Peptide Binding Protein Complexed with Lysyl-Diaminopropanoic Acid-Lysine


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 Complexed with Lysyl-Diaminopropanoic Acid-Lysine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U525

b:35.4
occ:0.46
OD2 A:ASP11 2.5 37.4 1.0
CG A:ASP11 3.5 37.3 1.0
CB A:ASP11 3.9 35.2 1.0
OD1 A:ASP11 4.6 37.2 1.0

Reference:

T.G.Davies, R.E.Hubbard, J.R.Tame. Relating Structure to Thermodynamics: the Crystal Structures and Binding Affinity of Eight Oppa-Peptide Complexes. Protein Sci. V. 8 1432 1999.
ISSN: ISSN 0961-8368
PubMed: 10422831
Page generated: Wed Dec 16 02:29:25 2020

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