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Uranium in PDB 1ct9: Crystal Structure of Asparagine Synthetase B From Escherichia Coli

Enzymatic activity of Crystal Structure of Asparagine Synthetase B From Escherichia Coli

All present enzymatic activity of Crystal Structure of Asparagine Synthetase B From Escherichia Coli:
6.3.5.4;

Protein crystallography data

The structure of Crystal Structure of Asparagine Synthetase B From Escherichia Coli, PDB code: 1ct9 was solved by T.M.Larsen, S.K.Boehlein, S.M.Schuster, N.G.J.Richards, J.B.Thoden, H.M.Holden, I.Rayment, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 99.930, 127.100, 204.510, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1ct9:

The structure of Crystal Structure of Asparagine Synthetase B From Escherichia Coli also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Uranium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Uranium atom in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli (pdb code 1ct9). This binding sites where shown within 5.0 Angstroms radius around Uranium atom.
In total 16 binding sites of Uranium where determined in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli, PDB code: 1ct9:
Jump to Uranium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Uranium binding site 1 out of 16 in 1ct9

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Uranium binding site 1 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 1 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U1101

b:32.9
occ:0.50
 OD1 A:ASP238 2.0 39.6 1.0
O A:HOH1312 2.4 36.6 1.0
OD1 A:ASP351 2.4 76.4 1.0
O3P A:AMP1100 2.7 54.7 1.0
CG A:ASP238 3.1 43.7 1.0
CG A:ASP351 3.4 35.4 1.0
U A:IUM1104 3.6 26.8 0.1
O3' A:AMP1100 3.7 40.0 1.0
OD2 A:ASP351 3.8 20.1 1.0
NZ A:LYS429 3.9 30.0 1.0
CB A:ASP238 3.9 13.3 1.0
P A:AMP1100 4.0 63.0 1.0
OD2 A:ASP238 4.2 14.1 1.0
NZ A:LYS449 4.2 0.0 1.0
O1 A:IUM1102 4.3 31.8 1.0
O5' A:AMP1100 4.5 60.0 1.0
C5' A:AMP1100 4.5 0.0 1.0
O A:GLY347 4.7 22.3 1.0
CB A:ASP351 4.8 18.0 1.0
C3' A:AMP1100 4.8 61.3 1.0
O2P A:AMP1100 4.8 0.0 1.0
CB A:SER350 4.9 25.8 1.0
O A:HOH1349 5.0 41.5 1.0
N A:ASP351 5.0 19.7 1.0

Uranium binding site 2 out of 16 in 1ct9

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Uranium binding site 2 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 2 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U1102

b:28.2
occ:0.30
 U A:IUM1102 0.0 28.2 0.3
O1 A:IUM1102 1.9 31.8 1.0
O2P A:AMP1100 2.5 0.0 1.0
OD1 A:ASP384 2.6 0.0 1.0
OH A:TYR357 2.7 71.5 1.0
OE1 A:GLU352 2.8 30.8 1.0
CG A:ASP384 3.5 0.0 1.0
CD A:GLU352 3.7 30.2 1.0
P A:AMP1100 3.7 63.0 1.0
OE2 A:GLU352 3.8 33.3 1.0
O3P A:AMP1100 3.9 54.7 1.0
O A:HOH1312 4.0 36.6 1.0
CZ A:TYR357 4.0 75.7 1.0
CB A:ASP384 4.1 0.0 1.0
CG A:GLU348 4.2 0.0 1.0
U A:IUM1103 4.3 27.6 0.2
N A:GLY349 4.3 18.4 1.0
OD1 A:ASP351 4.4 76.4 1.0
OD2 A:ASP384 4.4 42.5 1.0
C5' A:AMP1100 4.5 0.0 1.0
CE1 A:TYR357 4.6 49.2 1.0
O5' A:AMP1100 4.6 60.0 1.0
CA A:GLU348 4.7 11.0 1.0
O1P A:AMP1100 4.7 0.0 1.0
CB A:GLU348 4.8 15.8 1.0

Uranium binding site 3 out of 16 in 1ct9

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Uranium binding site 3 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 3 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U1103

b:27.6
occ:0.25
 OD2 A:ASP384 2.6 42.5 1.0
OE1 A:GLU352 3.0 30.8 1.0
CG A:ASP384 3.2 0.0 1.0
OD1 A:ASP384 3.3 0.0 1.0
NZ A:LYS376 3.4 69.6 1.0
O A:HOH1205 3.5 68.0 1.0
OH A:TYR357 3.5 71.5 1.0
CD A:GLU352 4.0 30.2 1.0
O A:HOH1204 4.0 42.2 1.0
CE2 A:TYR357 4.1 37.3 1.0
CZ A:TYR357 4.1 75.7 1.0
U A:IUM1102 4.3 28.2 0.3
CG A:GLU352 4.3 23.8 1.0
CD2 A:LEU380 4.3 20.0 1.0
CE A:LYS376 4.5 38.0 1.0
CB A:ASP384 4.5 0.0 1.0
CD A:LYS376 4.5 64.4 1.0
CB A:TYR383 4.8 0.0 1.0

Uranium binding site 4 out of 16 in 1ct9

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Uranium binding site 4 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 4 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:U1104

b:26.8
occ:0.10
 O3' A:AMP1100 2.6 40.0 1.0
OG A:SER234 3.0 59.2 1.0
C3' A:AMP1100 3.5 61.3 1.0
N A:SER239 3.6 23.6 1.0
OD1 A:ASP238 3.6 39.6 1.0
U A:IUM1101 3.6 32.9 0.5
CA A:GLY236 3.8 37.3 1.0
OG A:SER239 3.9 27.5 1.0
CB A:SER239 3.9 23.9 1.0
C A:GLY236 3.9 27.2 1.0
CB A:ASP238 3.9 13.3 1.0
N A:ASP238 4.0 35.5 1.0
CG A:ASP238 4.1 43.7 1.0
CB A:SER234 4.1 19.5 1.0
O A:GLY236 4.1 31.8 1.0
CA A:ASP238 4.2 69.2 1.0
CA A:SER239 4.3 22.1 1.0
N A:LEU237 4.4 24.4 1.0
N A:GLY236 4.4 41.4 1.0
C2' A:AMP1100 4.4 46.3 1.0
C A:ASP238 4.4 24.8 1.0
C A:LEU237 4.8 16.1 1.0
O3P A:AMP1100 4.8 54.7 1.0
C4' A:AMP1100 4.8 48.6 1.0
O A:HOH1312 5.0 36.6 1.0
NZ A:LYS449 5.0 0.0 1.0

Uranium binding site 5 out of 16 in 1ct9

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Uranium binding site 5 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 5 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U1108

b:31.1
occ:0.40
 OD1 B:ASP238 1.5 26.0 1.0
O2P B:AMP1107 1.6 89.0 1.0
OD1 B:ASP351 2.3 90.7 1.0
CG B:ASP238 2.6 60.4 1.0
P B:AMP1107 3.2 0.0 1.0
CG B:ASP351 3.3 67.2 1.0
U B:IUM1111 3.3 41.7 0.1
CB B:ASP238 3.4 38.8 1.0
OD2 B:ASP351 3.6 36.7 1.0
OD2 B:ASP238 3.8 24.3 1.0
O3' B:AMP1107 3.9 53.3 1.0
O3P B:AMP1107 4.0 0.0 1.0
O1P B:AMP1107 4.1 0.0 1.0
O5' B:AMP1107 4.1 55.3 1.0
C5' B:AMP1107 4.4 30.3 1.0
NZ B:LYS429 4.5 32.3 1.0
C3' B:AMP1107 4.6 49.3 1.0
CB B:ASP351 4.7 18.7 1.0
CA B:ASP238 4.7 69.2 1.0
O B:GLY347 4.9 25.9 1.0
CB B:SER350 4.9 33.0 1.0
N B:ASP238 4.9 58.1 1.0

Uranium binding site 6 out of 16 in 1ct9

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Uranium binding site 6 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 6 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U1109

b:27.1
occ:0.30
 OD1 B:ASP384 2.0 0.0 1.0
O1P B:AMP1107 2.3 0.0 1.0
OE2 B:GLU352 3.1 29.4 1.0
OE1 B:GLU352 3.1 35.6 1.0
CG B:ASP384 3.2 0.0 1.0
CD B:GLU352 3.4 35.5 1.0
CG B:GLU348 3.6 61.3 1.0
OH B:TYR357 3.6 92.0 1.0
P B:AMP1107 3.7 0.0 1.0
OD1 B:ASP351 4.1 90.7 1.0
N B:GLY349 4.1 32.7 1.0
CB B:ASP384 4.1 46.1 1.0
OE1 B:GLU348 4.1 83.6 1.0
OD2 B:ASP384 4.1 50.7 1.0
O2P B:AMP1107 4.2 89.0 1.0
CD B:GLU348 4.2 0.0 1.0
O5' B:AMP1107 4.3 55.3 1.0
U B:IUM1110 4.3 31.1 0.1
C5' B:AMP1107 4.4 30.3 1.0
CA B:GLU348 4.6 34.4 1.0
O3P B:AMP1107 4.7 0.0 1.0
CB B:ASP351 4.7 18.7 1.0
CB B:GLU348 4.7 29.2 1.0
CG B:ASP351 4.8 67.2 1.0
CZ B:TYR357 4.8 0.0 1.0
CA B:GLY349 4.9 17.5 1.0
C B:GLU348 4.9 41.1 1.0
CG B:GLU352 4.9 38.3 1.0

Uranium binding site 7 out of 16 in 1ct9

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Uranium binding site 7 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 7 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U1110

b:31.1
occ:0.15
 OE1 B:GLU352 2.4 35.6 1.0
OD2 B:ASP384 2.5 50.7 1.0
OH B:TYR357 2.9 92.0 1.0
NZ B:LYS376 3.1 42.0 1.0
CG B:ASP384 3.2 0.0 1.0
OD1 B:ASP384 3.4 0.0 1.0
CD B:GLU352 3.5 35.5 1.0
CZ B:TYR357 3.9 0.0 1.0
O B:HOH1288 4.0 41.1 1.0
CE B:LYS376 4.2 48.9 1.0
CG B:GLU352 4.2 38.3 1.0
CE2 B:TYR357 4.3 0.0 1.0
U B:IUM1109 4.3 27.1 0.3
CD B:LYS376 4.3 60.7 1.0
CB B:ASP384 4.4 46.1 1.0
CD2 B:LEU380 4.5 20.6 1.0
OE2 B:GLU352 4.6 29.4 1.0
CB B:TYR383 4.8 0.0 1.0
N B:ASP384 4.9 45.5 1.0
CE1 B:TYR357 5.0 0.0 1.0

Uranium binding site 8 out of 16 in 1ct9

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Uranium binding site 8 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 8 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:U1111

b:41.7
occ:0.10
 OG B:SER234 2.9 58.2 1.0
O3' B:AMP1107 3.3 53.3 1.0
CB B:ASP238 3.3 38.8 1.0
U B:IUM1108 3.3 31.1 0.4
C3' B:AMP1107 3.6 49.3 1.0
N B:SER239 3.6 43.2 1.0
OG B:SER239 3.6 35.5 1.0
OD1 B:ASP238 3.6 26.0 1.0
CA B:GLY236 3.7 0.0 1.0
CG B:ASP238 3.7 60.4 1.0
N B:ASP238 3.8 58.1 1.0
C B:GLY236 3.9 33.4 1.0
CA B:ASP238 3.9 69.2 1.0
O2P B:AMP1107 4.0 89.0 1.0
O B:GLY236 4.2 38.6 1.0
CB B:SER234 4.2 17.2 1.0
N B:GLY236 4.2 40.6 1.0
CB B:SER239 4.3 22.8 1.0
C B:ASP238 4.3 20.5 1.0
N B:LEU237 4.4 34.2 1.0
C2' B:AMP1107 4.4 32.7 1.0
CA B:SER239 4.6 41.2 1.0
C B:LEU237 4.8 27.6 1.0
OD2 B:ASP238 4.9 24.3 1.0
C4' B:AMP1107 4.9 34.2 1.0
O5' B:AMP1107 5.0 55.3 1.0

Uranium binding site 9 out of 16 in 1ct9

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Uranium binding site 9 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 9 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U1115

b:34.2
occ:0.25
 OD1 C:ASP238 1.6 81.0 1.0
OD1 C:ASP351 2.4 97.4 1.0
O3P C:AMP1114 2.7 0.0 1.0
CG C:ASP238 2.8 0.0 1.0
U C:IUM1118 3.2 37.2 0.1
CG C:ASP351 3.4 24.1 1.0
O3' C:AMP1114 3.7 0.0 1.0
OD2 C:ASP351 3.7 56.0 1.0
OD2 C:ASP238 3.8 34.9 1.0
CB C:ASP238 3.9 52.2 1.0
P C:AMP1114 3.9 0.0 1.0
O1P C:AMP1114 4.1 0.0 1.0
O5' C:AMP1114 4.2 0.0 1.0
C5' C:AMP1114 4.3 42.5 1.0
NZ C:LYS429 4.7 62.8 1.0
CB C:SER350 4.7 56.1 1.0
C3' C:AMP1114 4.8 0.0 1.0
CB C:ASP351 4.8 15.5 1.0
O C:GLY347 4.9 27.5 1.0
N C:ASP351 5.0 22.5 1.0

Uranium binding site 10 out of 16 in 1ct9

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Uranium binding site 10 out of 16 in the Crystal Structure of Asparagine Synthetase B From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Uranium with other atoms in the U binding site number 10 of Crystal Structure of Asparagine Synthetase B From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
C:U1116

b:30.9
occ:0.10
 OD1 C:ASP384 2.0 54.2 1.0
O2P C:AMP1114 2.4 75.5 1.0
OE1 C:GLU352 2.6 51.1 1.0
O3P C:AMP1114 2.7 0.0 1.0
OE2 C:GLU352 3.0 54.8 1.0
CG C:ASP384 3.1 73.8 1.0
P C:AMP1114 3.1 0.0 1.0
CD C:GLU352 3.2 19.9 1.0
N C:GLY349 3.7 26.6 1.0
CB C:ASP384 3.8 0.0 1.0
OE2 C:GLU348 3.9 0.0 1.0
CA C:GLU348 4.0 30.6 1.0
OD2 C:ASP384 4.0 0.0 1.0
CB C:GLU348 4.1 35.8 1.0
OH C:TYR357 4.1 0.0 1.0
O1P C:AMP1114 4.1 0.0 1.0
O5' C:AMP1114 4.4 0.0 1.0
C C:GLU348 4.4 81.1 1.0
U C:IUM1117 4.4 25.0 0.3
OD1 C:ASP351 4.4 97.4 1.0
C5' C:AMP1114 4.5 42.5 1.0
CG C:GLU352 4.7 18.7 1.0
CA C:GLY349 4.7 16.7 1.0
NH2 C:ARG387 4.9 0.0 1.0
CD C:GLU348 5.0 0.0 1.0

Reference:

T.M.Larsen, S.K.Boehlein, S.M.Schuster, N.G.Richards, J.B.Thoden, H.M.Holden, I.Rayment. Three-Dimensional Structure of Escherichia Coli Asparagine Synthetase B: A Short Journey From Substrate to Product. Biochemistry V. 38 16146 1999.
ISSN: ISSN 0006-2960
PubMed: 10587437
DOI: 10.1021/BI9915768
Page generated: Fri Oct 11 10:46:49 2024

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