Potassium in PDB 9ed0: Human LARP1 Bound to the 40S Small Ribosomal Subunit
Enzymatic activity of Human LARP1 Bound to the 40S Small Ribosomal Subunit
All present enzymatic activity of Human LARP1 Bound to the 40S Small Ribosomal Subunit:
4.2.99.18;
Other elements in 9ed0:
The structure of Human LARP1 Bound to the 40S Small Ribosomal Subunit also contains other interesting chemical elements:
Potassium Binding Sites:
Potassium binding site 1 out
of 71 in 9ed0
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Potassium Binding Sites List in 9ed0
Potassium binding site 1 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1901
b:46.1
occ:1.00
|
O
|
L:LYS98
|
2.7
|
23.5
|
1.0
|
OD1
|
L:ASN100
|
2.7
|
36.7
|
1.0
|
O2
|
2:C660
|
2.9
|
23.4
|
1.0
|
O3'
|
2:G420
|
3.0
|
27.9
|
1.0
|
O2'
|
2:G420
|
3.1
|
28.0
|
1.0
|
C2
|
2:C660
|
3.6
|
17.6
|
1.0
|
CG
|
L:ASN100
|
3.6
|
32.5
|
1.0
|
O
|
L:ARG97
|
3.6
|
27.1
|
1.0
|
C
|
L:LYS98
|
3.6
|
18.4
|
1.0
|
OP1
|
2:G421
|
3.7
|
30.0
|
1.0
|
N3
|
2:C660
|
3.8
|
13.9
|
1.0
|
P
|
2:G421
|
3.9
|
30.8
|
1.0
|
ND2
|
L:ASN100
|
3.9
|
32.4
|
1.0
|
C3'
|
2:G420
|
3.9
|
23.5
|
1.0
|
CA
|
L:LYS98
|
4.0
|
16.7
|
1.0
|
C2'
|
2:G420
|
4.0
|
22.0
|
1.0
|
O5'
|
2:G421
|
4.1
|
26.4
|
1.0
|
C4'
|
2:G420
|
4.4
|
26.8
|
1.0
|
C
|
L:ARG97
|
4.6
|
22.8
|
1.0
|
N
|
L:TYR99
|
4.6
|
19.3
|
1.0
|
N1
|
2:C660
|
4.7
|
14.6
|
1.0
|
N
|
L:ASN100
|
4.7
|
15.5
|
1.0
|
CB
|
L:ASN100
|
4.8
|
19.9
|
1.0
|
N
|
L:LYS98
|
4.8
|
19.2
|
1.0
|
C4
|
2:C660
|
4.9
|
12.8
|
1.0
|
CA
|
L:TYR99
|
5.0
|
14.8
|
1.0
|
|
Potassium binding site 2 out
of 71 in 9ed0
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Potassium Binding Sites List in 9ed0
Potassium binding site 2 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1902
b:75.1
occ:1.00
|
O5'
|
2:C17
|
2.8
|
21.0
|
1.0
|
OP1
|
2:C17
|
2.9
|
25.3
|
1.0
|
O2'
|
2:G1165
|
2.9
|
25.6
|
1.0
|
O3'
|
2:G1165
|
3.4
|
25.8
|
1.0
|
P
|
2:C17
|
3.5
|
27.1
|
1.0
|
O2'
|
2:U657
|
3.7
|
29.8
|
1.0
|
K
|
2:K2058
|
3.7
|
74.9
|
1.0
|
C5'
|
2:C17
|
3.7
|
16.8
|
1.0
|
C2'
|
2:G1165
|
4.0
|
17.9
|
1.0
|
OP2
|
2:G1166
|
4.0
|
39.7
|
1.0
|
P
|
2:G1166
|
4.2
|
32.3
|
1.0
|
C1'
|
2:G1165
|
4.2
|
16.9
|
1.0
|
O5'
|
2:G1166
|
4.2
|
27.0
|
1.0
|
C3'
|
2:G1165
|
4.3
|
23.5
|
1.0
|
C5'
|
2:G1166
|
4.4
|
19.1
|
1.0
|
O2
|
2:U657
|
4.5
|
29.2
|
1.0
|
OP2
|
2:C17
|
4.5
|
25.8
|
1.0
|
C1'
|
2:U657
|
4.6
|
21.3
|
1.0
|
O3'
|
2:G16
|
4.6
|
24.4
|
1.0
|
C2'
|
2:U657
|
4.7
|
23.2
|
1.0
|
C4'
|
2:C17
|
4.9
|
14.3
|
1.0
|
|
Potassium binding site 3 out
of 71 in 9ed0
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Potassium Binding Sites List in 9ed0
Potassium binding site 3 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1903
b:51.0
occ:1.00
|
O2'
|
2:G1102
|
2.9
|
30.4
|
1.0
|
OP1
|
2:C994
|
3.0
|
38.0
|
1.0
|
O3'
|
2:G993
|
3.1
|
29.2
|
1.0
|
O4'
|
2:C1103
|
3.3
|
27.8
|
1.0
|
P
|
2:C994
|
3.7
|
30.6
|
1.0
|
C2'
|
2:G1102
|
3.8
|
29.3
|
1.0
|
C1'
|
2:C1103
|
4.0
|
22.9
|
1.0
|
N3
|
2:G1102
|
4.0
|
26.6
|
1.0
|
C3'
|
2:G993
|
4.2
|
23.9
|
1.0
|
C1'
|
2:G1102
|
4.2
|
27.4
|
1.0
|
C4'
|
2:G993
|
4.2
|
20.4
|
1.0
|
C4'
|
2:C1103
|
4.2
|
23.7
|
1.0
|
C5'
|
2:G993
|
4.3
|
23.9
|
1.0
|
OP2
|
2:C994
|
4.5
|
35.0
|
1.0
|
N2
|
2:G1102
|
4.6
|
27.4
|
1.0
|
C5'
|
2:C1103
|
4.7
|
26.6
|
1.0
|
N1
|
2:C1103
|
4.8
|
19.8
|
1.0
|
C2
|
2:G1102
|
4.8
|
22.8
|
1.0
|
O5'
|
2:C994
|
4.9
|
23.6
|
1.0
|
C4
|
2:G1102
|
4.9
|
23.0
|
1.0
|
|
Potassium binding site 4 out
of 71 in 9ed0
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Potassium Binding Sites List in 9ed0
Potassium binding site 4 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1904
b:86.5
occ:1.00
|
O6
|
2:G613
|
2.9
|
71.9
|
1.0
|
O4
|
2:U612
|
3.1
|
48.8
|
1.0
|
C6
|
2:G613
|
3.7
|
59.7
|
1.0
|
C5'
|
2:A628
|
3.7
|
87.2
|
1.0
|
OP2
|
2:A628
|
3.8
|
98.5
|
1.0
|
N1
|
2:G613
|
3.9
|
57.9
|
1.0
|
C4
|
2:U612
|
4.0
|
41.2
|
1.0
|
C5
|
2:U612
|
4.2
|
40.0
|
1.0
|
OP2
|
2:G611
|
4.5
|
66.7
|
1.0
|
O5'
|
2:A628
|
4.6
|
109.0
|
1.0
|
MG
|
2:MG2011
|
4.7
|
55.6
|
1.0
|
P
|
2:A628
|
4.7
|
124.7
|
1.0
|
N7
|
2:G611
|
4.7
|
44.4
|
1.0
|
C4'
|
2:A628
|
4.8
|
97.3
|
1.0
|
|
Potassium binding site 5 out
of 71 in 9ed0
Go back to
Potassium Binding Sites List in 9ed0
Potassium binding site 5 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 5 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1905
b:52.9
occ:1.00
|
O6
|
2:G1334
|
2.7
|
36.4
|
1.0
|
O6
|
2:G1330
|
2.8
|
34.9
|
1.0
|
O4
|
2:U1496
|
3.4
|
41.9
|
1.0
|
N2
|
2:G1335
|
3.5
|
30.6
|
1.0
|
C6
|
2:G1334
|
3.7
|
31.1
|
1.0
|
O2
|
2:U1492
|
3.8
|
32.4
|
1.0
|
N1
|
2:G1334
|
3.8
|
27.4
|
1.0
|
C6
|
2:G1330
|
3.9
|
27.5
|
1.0
|
C2
|
2:G1335
|
3.9
|
26.3
|
1.0
|
N1
|
2:G1335
|
4.0
|
21.4
|
1.0
|
N6
|
2:A1498
|
4.0
|
35.2
|
1.0
|
C4
|
2:U1496
|
4.2
|
43.2
|
1.0
|
C5
|
2:U1496
|
4.3
|
43.2
|
1.0
|
N7
|
2:G1495
|
4.3
|
39.2
|
1.0
|
N1
|
2:G1330
|
4.3
|
26.6
|
1.0
|
N7
|
2:A1498
|
4.4
|
35.7
|
1.0
|
O2'
|
2:U1492
|
4.5
|
40.6
|
1.0
|
C6
|
2:A1498
|
4.6
|
32.3
|
1.0
|
C2'
|
2:U1492
|
4.6
|
32.3
|
1.0
|
C2
|
2:U1492
|
4.6
|
26.7
|
1.0
|
C5
|
2:A1498
|
4.7
|
28.8
|
1.0
|
N3
|
2:G1335
|
4.7
|
25.7
|
1.0
|
OP1
|
2:G1495
|
4.9
|
53.5
|
1.0
|
C6
|
2:G1335
|
4.9
|
24.8
|
1.0
|
O6
|
2:G1495
|
4.9
|
43.9
|
1.0
|
O4'
|
2:C1493
|
4.9
|
37.5
|
1.0
|
C5
|
2:G1495
|
5.0
|
33.8
|
1.0
|
|
Potassium binding site 6 out
of 71 in 9ed0
Go back to
Potassium Binding Sites List in 9ed0
Potassium binding site 6 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 6 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1906
b:55.8
occ:1.00
|
OP1
|
2:U97
|
2.8
|
38.6
|
1.0
|
OP1
|
2:A42
|
3.1
|
42.5
|
1.0
|
OP1
|
2:G41
|
3.2
|
45.9
|
1.0
|
O5'
|
2:A42
|
3.4
|
23.8
|
1.0
|
O5'
|
2:G41
|
3.9
|
44.9
|
1.0
|
P
|
2:A42
|
3.9
|
40.2
|
1.0
|
P
|
2:U97
|
4.1
|
22.9
|
1.0
|
P
|
2:G41
|
4.2
|
44.4
|
1.0
|
O5'
|
2:U97
|
4.4
|
23.2
|
1.0
|
K
|
2:K1915
|
4.6
|
75.7
|
1.0
|
O4'
|
2:A42
|
4.6
|
25.0
|
1.0
|
C5'
|
2:A42
|
4.7
|
22.6
|
1.0
|
C5'
|
2:U97
|
4.8
|
21.4
|
1.0
|
O3'
|
2:A40
|
4.8
|
32.8
|
1.0
|
OP2
|
2:U97
|
4.8
|
27.6
|
1.0
|
OP2
|
2:A42
|
4.9
|
43.2
|
1.0
|
|
Potassium binding site 7 out
of 71 in 9ed0
Go back to
Potassium Binding Sites List in 9ed0
Potassium binding site 7 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 7 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1907
b:42.0
occ:1.00
|
O6
|
2:G446
|
2.9
|
16.3
|
1.0
|
OP2
|
2:G90
|
3.0
|
24.1
|
1.0
|
OP2
|
2:A91
|
3.2
|
22.1
|
1.0
|
N7
|
2:A91
|
3.2
|
16.4
|
1.0
|
N1
|
2:A92
|
3.5
|
14.3
|
1.0
|
O5'
|
2:G90
|
3.5
|
31.2
|
1.0
|
P
|
2:G90
|
3.7
|
35.9
|
1.0
|
C2
|
2:A92
|
3.8
|
13.8
|
1.0
|
K
|
2:K1947
|
3.9
|
53.0
|
1.0
|
C8
|
2:A91
|
3.9
|
15.0
|
1.0
|
C6
|
2:G446
|
4.0
|
13.2
|
1.0
|
C8
|
2:G90
|
4.3
|
17.7
|
1.0
|
N1
|
2:G446
|
4.3
|
10.9
|
1.0
|
OP1
|
2:G90
|
4.3
|
29.0
|
1.0
|
C5
|
2:A91
|
4.4
|
14.0
|
1.0
|
N7
|
2:G90
|
4.5
|
17.4
|
1.0
|
C3'
|
2:G90
|
4.5
|
17.7
|
1.0
|
C6
|
2:A92
|
4.6
|
12.8
|
1.0
|
P
|
2:A91
|
4.6
|
24.8
|
1.0
|
C5'
|
2:G90
|
4.6
|
23.5
|
1.0
|
N6
|
2:A91
|
4.7
|
15.9
|
1.0
|
N6
|
2:A92
|
4.9
|
16.6
|
1.0
|
O2'
|
2:G444
|
4.9
|
22.6
|
1.0
|
O5'
|
2:A91
|
4.9
|
21.8
|
1.0
|
N3
|
2:A92
|
4.9
|
15.6
|
1.0
|
|
Potassium binding site 8 out
of 71 in 9ed0
Go back to
Potassium Binding Sites List in 9ed0
Potassium binding site 8 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 8 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1908
b:50.0
occ:1.00
|
O2
|
2:PSU105
|
2.7
|
28.8
|
1.0
|
N1
|
2:A103
|
2.9
|
26.3
|
1.0
|
O2
|
2:C356
|
2.9
|
36.3
|
1.0
|
C2
|
2:A103
|
3.1
|
24.9
|
1.0
|
N2
|
2:G355
|
3.4
|
19.0
|
1.0
|
C2
|
2:G355
|
3.5
|
19.4
|
1.0
|
C2
|
2:C356
|
3.5
|
27.2
|
1.0
|
N1
|
2:G355
|
3.6
|
17.8
|
1.0
|
C2
|
2:PSU105
|
3.7
|
25.7
|
1.0
|
O2
|
2:C106
|
3.8
|
24.7
|
1.0
|
N3
|
2:C356
|
3.9
|
21.9
|
1.0
|
N3
|
2:G355
|
4.0
|
20.6
|
1.0
|
N3
|
2:PSU105
|
4.1
|
21.1
|
1.0
|
C6
|
2:A103
|
4.1
|
25.1
|
1.0
|
N3
|
2:C106
|
4.2
|
17.4
|
1.0
|
C2
|
2:C106
|
4.2
|
18.4
|
1.0
|
N1
|
2:C356
|
4.3
|
21.5
|
1.0
|
N3
|
2:A103
|
4.3
|
26.6
|
1.0
|
C6
|
2:G355
|
4.3
|
18.3
|
1.0
|
O4'
|
2:C356
|
4.4
|
31.7
|
1.0
|
C1'
|
2:C356
|
4.5
|
28.4
|
1.0
|
N6
|
2:A103
|
4.6
|
27.2
|
1.0
|
C4
|
2:G355
|
4.6
|
16.8
|
1.0
|
C5
|
2:G355
|
4.8
|
15.8
|
1.0
|
N6
|
2:A104
|
4.8
|
23.5
|
1.0
|
N1
|
2:PSU105
|
4.9
|
23.3
|
1.0
|
C4
|
2:C356
|
4.9
|
27.4
|
1.0
|
O6
|
2:G355
|
5.0
|
25.2
|
1.0
|
|
Potassium binding site 9 out
of 71 in 9ed0
Go back to
Potassium Binding Sites List in 9ed0
Potassium binding site 9 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 9 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1909
b:55.3
occ:1.00
|
O6
|
2:G412
|
2.8
|
23.1
|
1.0
|
O2'
|
2:G425
|
3.2
|
28.1
|
1.0
|
N7
|
2:G412
|
3.4
|
10.3
|
1.0
|
N3
|
2:G425
|
3.4
|
13.9
|
1.0
|
O6
|
2:G411
|
3.5
|
18.1
|
1.0
|
C6
|
2:G412
|
3.6
|
12.5
|
1.0
|
N2
|
2:G425
|
3.7
|
10.0
|
1.0
|
C2'
|
2:G425
|
3.7
|
19.4
|
1.0
|
C5
|
2:G412
|
3.8
|
8.7
|
1.0
|
C2
|
2:G425
|
4.0
|
12.4
|
1.0
|
C6
|
2:G411
|
4.0
|
11.1
|
1.0
|
N7
|
2:G411
|
4.1
|
10.7
|
1.0
|
MG
|
2:MG2006
|
4.2
|
28.8
|
1.0
|
C5
|
2:G411
|
4.3
|
7.8
|
1.0
|
C1'
|
2:G425
|
4.4
|
14.1
|
1.0
|
C4
|
2:G425
|
4.5
|
13.0
|
1.0
|
C8
|
2:G412
|
4.6
|
12.3
|
1.0
|
N3
|
2:G413
|
4.9
|
16.4
|
1.0
|
N9
|
2:G425
|
4.9
|
11.6
|
1.0
|
N1
|
2:G412
|
4.9
|
7.4
|
1.0
|
|
Potassium binding site 10 out
of 71 in 9ed0
Go back to
Potassium Binding Sites List in 9ed0
Potassium binding site 10 out
of 71 in the Human LARP1 Bound to the 40S Small Ribosomal Subunit
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 10 of Human LARP1 Bound to the 40S Small Ribosomal Subunit within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:K1910
b:64.0
occ:1.00
|
O2
|
2:PSU109
|
2.8
|
30.6
|
1.0
|
O6
|
2:G108
|
3.1
|
21.6
|
1.0
|
N7
|
2:G108
|
3.3
|
23.8
|
1.0
|
C2
|
2:PSU109
|
3.6
|
24.5
|
1.0
|
C6
|
2:G108
|
3.8
|
19.5
|
1.0
|
N7
|
2:A107
|
3.8
|
19.8
|
1.0
|
C5
|
2:G108
|
3.9
|
20.4
|
1.0
|
N6
|
2:A107
|
4.2
|
14.0
|
1.0
|
C5
|
2:A107
|
4.2
|
16.7
|
1.0
|
N3
|
2:PSU109
|
4.3
|
22.5
|
1.0
|
N1
|
2:PSU109
|
4.3
|
25.1
|
1.0
|
C6
|
2:A107
|
4.4
|
16.6
|
1.0
|
C8
|
2:G108
|
4.4
|
23.1
|
1.0
|
C8
|
2:A107
|
4.5
|
21.1
|
1.0
|
O4
|
2:U352
|
4.6
|
23.7
|
1.0
|
|
Reference:
E.Wolin,
J.K.Guo,
M.R.Blanco,
I.N.Goronzy,
D.Gorhe,
W.Dong,
A.A.Perez,
A.Keskin,
E.Valenzuela,
A.A.Abdou,
C.R.Urbinati,
R.Kaufhold,
H.T.Rube,
J.Brito Querido,
M.Guttman,
M.Jovanovic.
Spidr Enables Multiplexed Mapping of Rna-Protein Interactions and Uncovers A Mechanism For Selective Translational Suppression Upon Cell Stress Cell(Cambridge,Mass.) 2025.
ISSN: ISSN 0092-8674
DOI: 10.1016/J.CELL.2025.06.042
Page generated: Sat Aug 9 18:50:37 2025
|