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Uranium in PDB 3dgc: Structure of Il-22/Il-22R1

Protein crystallography data

The structure of Structure of Il-22/Il-22R1, PDB code: 3dgc was solved by B.C.Jones, N.J.Logsdon, M.R.Walter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.509, 75.480, 101.140, 90.00, 100.89, 90.00
R / Rfree (%) 22.2 / 27

Other elements in 3dgc:

The structure of Structure of Il-22/Il-22R1 also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Uranium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Uranium atom in the Structure of Il-22/Il-22R1 (pdb code 3dgc). This binding sites where shown within 5.0 Angstroms radius around Uranium atom.
In total 12 binding sites of Uranium where determined in the Structure of Il-22/Il-22R1, PDB code: 3dgc:
Jump to Uranium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Uranium binding site 1 out of 12 in 3dgc

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Uranium binding site 1 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 1 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:U8

b:92.9
occ:0.29
OH L:TYR90 2.3 51.1 1.0
CZ L:TYR90 3.6 48.0 1.0
CB L:ASP138 3.8 76.3 1.0
OD2 L:ASP138 3.8 78.3 1.0
CG L:ASP138 3.9 78.6 1.0
CE2 L:TYR90 4.2 46.2 1.0
OD1 L:ASP138 4.7 79.1 1.0
NE2 L:GLN94 4.7 44.5 1.0
CE1 L:TYR90 4.7 46.3 1.0

Uranium binding site 2 out of 12 in 3dgc

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Uranium binding site 2 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 2 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:U11

b:74.2
occ:0.15
OE2 L:GLU101 2.8 47.1 1.0
OE1 L:GLU102 3.0 54.0 1.0
CD L:GLU102 3.9 50.7 1.0
OE2 L:GLU102 3.9 51.8 1.0
CD L:GLU101 4.0 46.0 1.0
CB L:GLU101 4.4 40.1 1.0
NZ L:LYS149 4.8 36.7 0.0
CG L:GLU101 4.8 43.1 1.0
OE1 L:GLU101 4.9 46.9 1.0
CA L:PHE98 4.9 32.5 1.0

Uranium binding site 3 out of 12 in 3dgc

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Uranium binding site 3 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 3 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
R:U2

b:58.4
occ:1.00
O R:HOH243 2.9 16.9 1.0
OD2 R:ASP80 3.0 28.9 1.0
O R:HOH242 3.1 22.5 1.0
O R:HOH256 3.3 28.7 1.0
CG R:ASP80 3.4 29.2 1.0
O R:HOH257 3.5 30.6 1.0
OD1 R:ASP80 3.6 28.9 1.0
CB R:ASP80 4.4 28.9 1.0
O R:HOH260 4.6 51.0 1.0
CB R:THR82 4.8 29.6 1.0
OG1 R:THR82 4.9 30.9 1.0

Uranium binding site 4 out of 12 in 3dgc

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Uranium binding site 4 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 4 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
R:U4

b:67.1
occ:0.47
OD1 R:ASP224 3.4 70.6 1.0
OD2 R:ASP224 3.6 70.5 1.0
NE R:ARG133 3.8 42.4 1.0
CG R:ASP224 3.9 70.1 1.0
NH2 R:ARG133 4.2 41.8 1.0
CZ R:ARG133 4.5 42.5 1.0
CG1 R:VAL132 4.7 38.7 0.0
CD R:ARG133 4.8 41.9 1.0
CG M:PRO120 4.9 37.2 1.0

Uranium binding site 5 out of 12 in 3dgc

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Uranium binding site 5 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 5 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
R:U6

b:66.2
occ:0.37
OD2 R:ASP87 2.6 36.4 1.0
OE2 R:GLU90 2.8 34.0 1.0
CG R:ASP87 3.3 33.0 1.0
OD1 R:ASP87 3.3 33.5 1.0
CD R:GLU90 3.4 34.9 1.0
OE2 L:GLU77 3.4 66.4 1.0
CG R:GLU90 3.6 32.8 1.0
NE2 R:GLN89 3.9 47.7 1.0
CB R:GLN89 4.3 38.1 1.0
OE1 R:GLU90 4.4 33.8 1.0
CB R:ASP87 4.6 32.3 1.0
CD L:GLU77 4.6 65.8 1.0
OE1 L:GLU77 5.0 67.4 1.0

Uranium binding site 6 out of 12 in 3dgc

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Uranium binding site 6 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 6 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
R:U7

b:87.5
occ:0.22
OD2 R:ASP23 2.9 61.5 1.0
OE2 R:GLU46 3.7 67.2 0.0
CG R:ASP23 3.8 60.4 1.0
OD1 R:ASP23 3.9 62.2 1.0
CD R:GLU46 4.8 67.2 0.0

Uranium binding site 7 out of 12 in 3dgc

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Uranium binding site 7 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 7 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
M:U1

b:41.9
occ:1.00
U M:IUM1 0.0 41.9 1.0
O1 M:IUM1 1.7 37.7 1.0
O2 M:IUM1 1.7 36.3 1.0
O M:ACT2 2.7 36.5 1.0
C M:ACT180 3.1 39.7 1.0
OXT M:ACT2 3.1 38.8 1.0
C M:ACT2 3.2 37.9 1.0
O M:ACT180 3.4 37.0 1.0
CH3 M:ACT180 3.4 39.7 1.0
OXT M:ACT180 3.4 40.7 1.0
CE1 M:HIS140 4.5 35.9 1.0
NE2 M:HIS140 4.5 36.8 1.0
CE1 M:HIS81 4.6 42.1 1.0
ND1 M:HIS81 4.6 43.0 1.0
CH3 M:ACT2 4.7 37.5 1.0
CA M:GLY82 4.9 41.8 1.0

Uranium binding site 8 out of 12 in 3dgc

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Uranium binding site 8 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 8 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
M:U9

b:58.4
occ:0.26
OH M:TYR90 2.1 44.2 1.0
OD2 M:ASP138 2.5 44.1 1.0
CG M:ASP138 3.1 45.4 1.0
CZ M:TYR90 3.4 43.5 1.0
OD1 M:ASP138 3.7 44.4 1.0
CB M:ASP138 3.9 45.4 1.0
CE1 M:TYR90 4.2 43.3 1.0
CE2 M:TYR90 4.3 43.2 1.0
NE2 M:GLN142 4.5 43.0 1.0

Uranium binding site 9 out of 12 in 3dgc

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Uranium binding site 9 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 9 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
M:U10

b:75.8
occ:0.23
O M:HOH223 2.4 62.0 1.0
OD2 M:ASP43 2.5 53.7 1.0
NH1 M:ARG128 2.9 56.6 1.0
O M:HOH187 3.1 34.9 1.0
CG M:ASP43 3.5 51.2 1.0
CZ M:ARG128 3.9 55.6 1.0
O M:HOH211 3.9 53.6 1.0
CB M:ASP43 4.3 47.6 1.0
OD1 M:ASP43 4.3 52.9 1.0
CG R:GLU185 4.4 48.6 1.0
N M:ASP43 4.4 44.7 1.0
NH2 M:ARG128 4.5 54.8 1.0
NE M:ARG128 4.6 54.6 1.0
ND2 M:ASN46 4.6 41.1 1.0
CD M:ARG128 4.6 52.1 1.0
O R:GLU185 4.7 36.6 1.0
CB R:GLU185 4.7 43.4 1.0
CA M:ASP43 5.0 44.3 1.0

Uranium binding site 10 out of 12 in 3dgc

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Uranium binding site 10 out of 12 in the Structure of Il-22/Il-22R1


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 10 of Structure of Il-22/Il-22R1 within 5.0Å range:
probe atom residue distance (Å) B Occ
M:U12

b:57.6
occ:0.12
O M:HOH190 2.5 32.1 1.0
OE1 M:GLU102 2.7 51.5 1.0
OE2 M:GLU101 2.8 44.0 1.0
CD M:GLU102 3.6 48.5 1.0
OE2 M:GLU102 3.8 49.4 1.0
CD M:GLU101 4.0 43.5 1.0
CB M:GLU101 4.2 38.8 1.0
CA M:PHE98 4.4 30.1 1.0
CD1 M:PHE98 4.7 30.6 1.0
CG M:GLU101 4.7 41.4 1.0
O M:HOH189 4.7 31.0 1.0
NZ M:LYS149 4.8 36.3 1.0
CB M:PHE98 4.9 30.3 1.0
CE M:LYS149 4.9 35.5 1.0
CG M:GLU102 5.0 45.0 1.0
OE1 M:GLU101 5.0 44.4 1.0

Reference:

B.C.Jones, N.J.Logsdon, M.R.Walter. Structure of Il-22 Bound to Its High-Affinity Il-22R1 Chain. Structure V. 16 1333 2008.
ISSN: ISSN 0969-2126
PubMed: 18599299
DOI: 10.1016/J.STR.2008.06.005
Page generated: Wed Dec 16 02:29:46 2020

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