Phosphorus in PDB 1a9n: Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Protein crystallography data
The structure of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna, PDB code: 1a9n
was solved by
S.R.Price,
P.R.Evans,
K.Nagai,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
15.00 /
2.38
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
98.370,
128.240,
66.650,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
28.2 /
32.8
|
Phosphorus Binding Sites:
Phosphorus binding site 1 out
of 46 in 1a9n
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Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 1 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 1 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P1
b:73.8
occ:1.00
|
P
|
Q:C1
|
0.0
|
73.8
|
1.0
|
OP1
|
Q:C1
|
1.5
|
77.2
|
1.0
|
OP2
|
Q:C1
|
1.5
|
74.3
|
1.0
|
O5'
|
Q:C1
|
1.6
|
71.7
|
1.0
|
O3'
|
Q:C0
|
1.6
|
73.5
|
1.0
|
C3'
|
Q:C0
|
2.6
|
73.5
|
1.0
|
C5'
|
Q:C1
|
2.6
|
67.5
|
1.0
|
C2'
|
Q:C0
|
3.3
|
72.7
|
1.0
|
CE
|
B:LYS22
|
3.6
|
68.4
|
1.0
|
O2'
|
Q:C0
|
3.6
|
73.0
|
1.0
|
C4'
|
Q:C1
|
3.9
|
65.8
|
1.0
|
C4'
|
Q:C0
|
3.9
|
74.5
|
1.0
|
NZ
|
B:LYS22
|
4.1
|
71.7
|
1.0
|
C3'
|
Q:C1
|
4.2
|
64.6
|
1.0
|
C6
|
Q:C1
|
4.3
|
63.8
|
1.0
|
O4'
|
Q:C1
|
4.4
|
62.7
|
1.0
|
C5'
|
Q:C0
|
4.6
|
75.8
|
1.0
|
CD
|
B:LYS22
|
4.7
|
63.3
|
1.0
|
C1'
|
Q:C0
|
4.7
|
70.5
|
1.0
|
O3'
|
Q:C1
|
4.8
|
63.6
|
1.0
|
C5
|
Q:C1
|
4.8
|
63.1
|
1.0
|
O5'
|
Q:C0
|
4.9
|
77.2
|
1.0
|
O4'
|
Q:C0
|
4.9
|
74.4
|
1.0
|
|
Phosphorus binding site 2 out
of 46 in 1a9n
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Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 2 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 2 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P2
b:68.0
occ:1.00
|
P
|
Q:U2
|
0.0
|
68.0
|
1.0
|
OP2
|
Q:U2
|
1.5
|
62.5
|
1.0
|
OP1
|
Q:U2
|
1.5
|
71.3
|
1.0
|
O3'
|
Q:C1
|
1.6
|
63.6
|
1.0
|
O5'
|
Q:U2
|
1.6
|
67.9
|
1.0
|
C5'
|
Q:U2
|
2.6
|
67.6
|
1.0
|
C3'
|
Q:C1
|
2.7
|
64.6
|
1.0
|
C2'
|
Q:C1
|
3.4
|
64.5
|
1.0
|
O2'
|
Q:C1
|
3.5
|
68.5
|
1.0
|
C4'
|
Q:U2
|
3.9
|
68.4
|
1.0
|
C4'
|
Q:C1
|
3.9
|
65.8
|
1.0
|
NZ
|
A:LYS149
|
4.0
|
60.2
|
1.0
|
C5'
|
Q:C1
|
4.6
|
67.5
|
1.0
|
C6
|
Q:U2
|
4.6
|
62.2
|
1.0
|
CE
|
A:LYS149
|
4.7
|
58.3
|
1.0
|
C1'
|
Q:C1
|
4.8
|
64.2
|
1.0
|
O5'
|
Q:C1
|
4.8
|
71.7
|
1.0
|
O4'
|
Q:U2
|
4.8
|
68.9
|
1.0
|
C3'
|
Q:U2
|
4.9
|
70.0
|
1.0
|
|
Phosphorus binding site 3 out
of 46 in 1a9n
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Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 3 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 3 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P3
b:73.5
occ:1.00
|
P
|
Q:G3
|
0.0
|
73.5
|
1.0
|
OP2
|
Q:G3
|
1.4
|
64.6
|
1.0
|
OP1
|
Q:G3
|
1.5
|
78.0
|
1.0
|
O5'
|
Q:G3
|
1.6
|
73.3
|
1.0
|
O3'
|
Q:U2
|
1.6
|
71.2
|
1.0
|
C5'
|
Q:G3
|
2.5
|
72.7
|
1.0
|
C3'
|
Q:U2
|
2.5
|
70.0
|
1.0
|
C2'
|
Q:U2
|
3.6
|
68.5
|
1.0
|
C4'
|
Q:U2
|
3.7
|
68.4
|
1.0
|
C4'
|
Q:G3
|
3.8
|
69.9
|
1.0
|
O2'
|
Q:U2
|
4.0
|
72.2
|
1.0
|
C5'
|
Q:U2
|
4.1
|
67.6
|
1.0
|
O4'
|
Q:G3
|
4.4
|
68.8
|
1.0
|
O5'
|
Q:U2
|
4.7
|
67.9
|
1.0
|
C1'
|
Q:U2
|
4.8
|
67.3
|
1.0
|
O4'
|
Q:U2
|
4.8
|
68.9
|
1.0
|
C8
|
Q:G3
|
5.0
|
68.4
|
1.0
|
C3'
|
Q:G3
|
5.0
|
71.8
|
1.0
|
OP2
|
Q:G4
|
5.0
|
73.2
|
1.0
|
|
Phosphorus binding site 4 out
of 46 in 1a9n
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Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 4 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 4 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P4
b:71.8
occ:1.00
|
P
|
Q:G4
|
0.0
|
71.8
|
1.0
|
OP2
|
Q:G4
|
1.5
|
73.2
|
1.0
|
OP1
|
Q:G4
|
1.5
|
75.2
|
1.0
|
O5'
|
Q:G4
|
1.6
|
64.5
|
1.0
|
O3'
|
Q:G3
|
1.6
|
71.6
|
1.0
|
C5'
|
Q:G4
|
2.6
|
68.3
|
1.0
|
C3'
|
Q:G3
|
2.6
|
71.8
|
1.0
|
C4'
|
Q:G3
|
3.6
|
69.9
|
1.0
|
C2'
|
Q:G3
|
3.7
|
73.4
|
1.0
|
C4'
|
Q:G4
|
3.8
|
66.7
|
1.0
|
C5'
|
Q:G3
|
4.0
|
72.7
|
1.0
|
O4'
|
Q:G4
|
4.0
|
66.6
|
1.0
|
O2'
|
Q:G3
|
4.2
|
79.6
|
1.0
|
O5'
|
Q:G3
|
4.6
|
73.3
|
1.0
|
C3'
|
Q:G4
|
4.7
|
65.7
|
1.0
|
C8
|
Q:G4
|
4.7
|
67.7
|
1.0
|
C1'
|
Q:G3
|
4.9
|
71.7
|
1.0
|
O4'
|
Q:G3
|
4.9
|
68.8
|
1.0
|
|
Phosphorus binding site 5 out
of 46 in 1a9n
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Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 5 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 5 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P5
b:65.7
occ:1.00
|
P
|
Q:U5
|
0.0
|
65.7
|
1.0
|
OP2
|
Q:U5
|
1.5
|
62.0
|
1.0
|
OP1
|
Q:U5
|
1.5
|
68.2
|
1.0
|
O5'
|
Q:U5
|
1.6
|
66.3
|
1.0
|
O3'
|
Q:G4
|
1.6
|
64.5
|
1.0
|
C5'
|
Q:U5
|
2.6
|
67.0
|
1.0
|
C3'
|
Q:G4
|
2.7
|
65.7
|
1.0
|
C2'
|
Q:G4
|
3.6
|
68.6
|
1.0
|
C4'
|
Q:U5
|
3.9
|
68.3
|
1.0
|
C4'
|
Q:G4
|
3.9
|
66.7
|
1.0
|
O2'
|
Q:G4
|
4.0
|
74.0
|
1.0
|
C6
|
Q:U5
|
4.1
|
67.7
|
1.0
|
O4'
|
Q:U5
|
4.3
|
72.2
|
1.0
|
C5'
|
Q:G4
|
4.4
|
68.3
|
1.0
|
C3'
|
Q:U5
|
4.5
|
69.6
|
1.0
|
C5
|
Q:U5
|
4.6
|
69.1
|
1.0
|
C1'
|
Q:G4
|
4.9
|
67.6
|
1.0
|
O5'
|
Q:G4
|
4.9
|
64.5
|
1.0
|
|
Phosphorus binding site 6 out
of 46 in 1a9n
Go back to
Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 6 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 6 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P6
b:66.9
occ:1.00
|
P
|
Q:A6
|
0.0
|
66.9
|
1.0
|
OP2
|
Q:A6
|
1.5
|
71.2
|
1.0
|
OP1
|
Q:A6
|
1.5
|
72.5
|
1.0
|
O5'
|
Q:A6
|
1.6
|
68.3
|
1.0
|
O3'
|
Q:U5
|
1.6
|
68.7
|
1.0
|
C5'
|
Q:A6
|
2.5
|
65.7
|
1.0
|
C3'
|
Q:U5
|
2.6
|
69.6
|
1.0
|
C2'
|
Q:U5
|
3.5
|
70.8
|
1.0
|
C4'
|
Q:A6
|
3.8
|
63.4
|
1.0
|
O2'
|
Q:U5
|
3.8
|
73.0
|
1.0
|
C4'
|
Q:U5
|
3.9
|
68.3
|
1.0
|
O4'
|
Q:A6
|
4.1
|
64.3
|
1.0
|
C5'
|
Q:U5
|
4.5
|
67.0
|
1.0
|
C3'
|
Q:A6
|
4.5
|
62.9
|
1.0
|
O5'
|
Q:U5
|
4.7
|
66.3
|
1.0
|
C8
|
Q:A6
|
4.7
|
62.3
|
1.0
|
C1'
|
Q:U5
|
4.8
|
69.2
|
1.0
|
OP2
|
Q:U7
|
4.9
|
63.1
|
1.0
|
O4'
|
Q:U5
|
4.9
|
72.2
|
1.0
|
|
Phosphorus binding site 7 out
of 46 in 1a9n
Go back to
Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 7 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 7 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P7
b:60.7
occ:1.00
|
P
|
Q:U7
|
0.0
|
60.7
|
1.0
|
OP2
|
Q:U7
|
1.5
|
63.1
|
1.0
|
OP1
|
Q:U7
|
1.5
|
62.8
|
1.0
|
O3'
|
Q:A6
|
1.6
|
60.3
|
1.0
|
O5'
|
Q:U7
|
1.6
|
58.7
|
1.0
|
C5'
|
Q:U7
|
2.6
|
63.2
|
1.0
|
C3'
|
Q:A6
|
2.6
|
62.9
|
1.0
|
C2'
|
Q:A6
|
3.7
|
63.2
|
1.0
|
C4'
|
Q:A6
|
3.8
|
63.4
|
1.0
|
C4'
|
Q:U7
|
3.8
|
64.5
|
1.0
|
C5'
|
Q:A6
|
4.1
|
65.7
|
1.0
|
O4'
|
Q:U7
|
4.2
|
64.2
|
1.0
|
O2'
|
Q:A6
|
4.2
|
64.2
|
1.0
|
C3'
|
Q:U7
|
4.3
|
64.4
|
1.0
|
C6
|
Q:U7
|
4.4
|
58.1
|
1.0
|
O5'
|
Q:A6
|
4.5
|
68.3
|
1.0
|
OP2
|
Q:U8
|
4.7
|
62.2
|
1.0
|
C1'
|
Q:A6
|
4.9
|
62.0
|
1.0
|
O4'
|
Q:A6
|
4.9
|
64.3
|
1.0
|
|
Phosphorus binding site 8 out
of 46 in 1a9n
Go back to
Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 8 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 8 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P8
b:67.1
occ:1.00
|
P
|
Q:U8
|
0.0
|
67.1
|
1.0
|
OP2
|
Q:U8
|
1.5
|
62.2
|
1.0
|
OP1
|
Q:U8
|
1.5
|
67.1
|
1.0
|
O5'
|
Q:U8
|
1.6
|
68.8
|
1.0
|
O3'
|
Q:U7
|
1.6
|
66.5
|
1.0
|
C3'
|
Q:U7
|
2.7
|
64.4
|
1.0
|
C5'
|
Q:U8
|
2.7
|
67.2
|
1.0
|
C2'
|
Q:U7
|
3.6
|
63.3
|
1.0
|
C4'
|
Q:U7
|
3.9
|
64.5
|
1.0
|
C4'
|
Q:U8
|
3.9
|
63.0
|
1.0
|
O2'
|
Q:U7
|
3.9
|
62.1
|
1.0
|
O5'
|
Q:U7
|
4.0
|
58.7
|
1.0
|
C3'
|
Q:U8
|
4.2
|
60.4
|
1.0
|
C5'
|
Q:U7
|
4.3
|
63.2
|
1.0
|
C2'
|
Q:U8
|
4.3
|
59.3
|
1.0
|
O4'
|
Q:U8
|
4.5
|
63.4
|
1.0
|
C6
|
Q:U8
|
4.7
|
57.2
|
1.0
|
C1'
|
Q:U7
|
4.9
|
62.6
|
1.0
|
C1'
|
Q:U8
|
5.0
|
60.0
|
1.0
|
O4'
|
Q:U7
|
5.0
|
64.2
|
1.0
|
|
Phosphorus binding site 9 out
of 46 in 1a9n
Go back to
Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 9 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 9 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P9
b:58.2
occ:1.00
|
P
|
Q:G9
|
0.0
|
58.2
|
1.0
|
OP1
|
Q:G9
|
1.5
|
64.2
|
1.0
|
OP2
|
Q:G9
|
1.5
|
61.0
|
1.0
|
O5'
|
Q:G9
|
1.6
|
59.3
|
1.0
|
O3'
|
Q:U8
|
1.6
|
60.9
|
1.0
|
C5'
|
Q:G9
|
2.6
|
53.0
|
1.0
|
C3'
|
Q:U8
|
2.7
|
60.4
|
1.0
|
C4'
|
Q:U8
|
3.3
|
63.0
|
1.0
|
C4'
|
Q:G9
|
3.9
|
53.5
|
1.0
|
C2'
|
Q:U8
|
3.9
|
59.3
|
1.0
|
O2'
|
Q:U8
|
4.1
|
63.1
|
1.0
|
O4'
|
Q:G9
|
4.1
|
52.2
|
1.0
|
O4'
|
Q:U8
|
4.3
|
63.4
|
1.0
|
C5'
|
Q:U8
|
4.4
|
67.2
|
1.0
|
C1'
|
Q:U8
|
4.5
|
60.0
|
1.0
|
C3'
|
Q:G9
|
4.6
|
52.4
|
1.0
|
C8
|
Q:G9
|
4.9
|
49.3
|
1.0
|
|
Phosphorus binding site 10 out
of 46 in 1a9n
Go back to
Phosphorus Binding Sites List in 1a9n
Phosphorus binding site 10 out
of 46 in the Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna
Mono view
Stereo pair view
|
A full contact list of Phosphorus with other atoms in the P binding
site number 10 of Crystal Structure of the Spliceosomal U2B''-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:P10
b:47.7
occ:1.00
|
P
|
Q:C10
|
0.0
|
47.7
|
1.0
|
OP2
|
Q:C10
|
1.5
|
54.7
|
1.0
|
OP1
|
Q:C10
|
1.5
|
53.0
|
1.0
|
O5'
|
Q:C10
|
1.6
|
52.0
|
1.0
|
O3'
|
Q:G9
|
1.6
|
54.2
|
1.0
|
C5'
|
Q:C10
|
2.6
|
51.9
|
1.0
|
C3'
|
Q:G9
|
2.6
|
52.4
|
1.0
|
C2'
|
Q:G9
|
3.5
|
54.4
|
1.0
|
C4'
|
Q:C10
|
3.7
|
48.3
|
1.0
|
O2'
|
Q:G9
|
3.8
|
52.0
|
1.0
|
C4'
|
Q:G9
|
3.9
|
53.5
|
1.0
|
C3'
|
Q:C10
|
4.0
|
49.7
|
1.0
|
C2'
|
Q:C10
|
4.1
|
46.6
|
1.0
|
C5'
|
Q:G9
|
4.3
|
53.0
|
1.0
|
C6
|
Q:C10
|
4.5
|
41.4
|
1.0
|
O4'
|
Q:C10
|
4.7
|
49.9
|
1.0
|
C1'
|
Q:G9
|
4.9
|
53.0
|
1.0
|
O5'
|
Q:G9
|
4.9
|
59.3
|
1.0
|
C1'
|
Q:C10
|
4.9
|
45.5
|
1.0
|
O4'
|
Q:G9
|
5.0
|
52.2
|
1.0
|
|
Reference:
S.R.Price,
P.R.Evans,
K.Nagai.
Crystal Structure of the Spliceosomal U2B"-U2A' Protein Complex Bound to A Fragment of U2 Small Nuclear Rna. Nature V. 394 645 1998.
ISSN: ISSN 0028-0836
PubMed: 9716128
DOI: 10.1038/29234
Page generated: Fri Sep 25 12:38:45 2020
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