Phosphorus in PDB 1a1t: Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures

Phosphorus Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20;

Binding sites:

The binding sites of Phosphorus atom in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures (pdb code 1a1t). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 20 binding sites of Phosphorus where determined in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures, PDB code: 1a1t:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 20 in 1a1t

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Phosphorus binding site 1 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P201

b:0.0
occ:1.00
 P B:G201 0.0 0.0 1.0
OP1 B:G201 1.5 0.0 1.0
OP2 B:G201 1.5 0.0 1.0
O5' B:G201 1.6 0.0 1.0
C5' B:G201 2.6 0.0 1.0
H5' B:G201 2.7 0.0 1.0
H5'' B:G201 3.1 0.0 1.0
C4' B:G201 3.9 0.0 1.0
O4' B:G201 4.2 0.0 1.0
H8 B:G201 4.2 0.0 1.0
H4' B:G201 4.5 0.0 1.0
H3' B:G201 4.8 0.0 1.0
C8 B:G201 4.9 0.0 1.0
C3' B:G201 5.0 0.0 1.0

Phosphorus binding site 2 out of 20 in 1a1t

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Phosphorus binding site 2 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P202

b:0.0
occ:1.00
 P B:G202 0.0 0.0 1.0
OP2 B:G202 1.5 0.0 1.0
OP1 B:G202 1.5 0.0 1.0
O3' B:G201 1.6 0.0 1.0
O5' B:G202 1.6 0.0 1.0
H3' B:G201 2.6 0.0 1.0
C3' B:G201 2.6 0.0 1.0
C5' B:G202 2.6 0.0 1.0
H5' B:G202 2.7 0.0 1.0
H5'' B:G202 3.2 0.0 1.0
H5'' B:G201 3.3 0.0 1.0
C2' B:G201 3.6 0.0 1.0
H2' B:G201 3.7 0.0 1.0
C4' B:G201 3.7 0.0 1.0
H8 B:G202 3.8 0.0 1.0
C4' B:G202 3.8 0.0 1.0
O2' B:G201 3.8 0.0 1.0
H3' B:G202 3.9 0.0 1.0
H4' B:G201 4.0 0.0 1.0
C5' B:G201 4.0 0.0 1.0
HO2' B:G201 4.2 0.0 1.0
C3' B:G202 4.4 0.0 1.0
H5' B:G201 4.5 0.0 1.0
O4' B:G202 4.6 0.0 1.0
H8 B:G201 4.6 0.0 1.0
H4' B:G202 4.7 0.0 1.0
OP2 B:A203 4.8 0.0 1.0
C8 B:G202 4.8 0.0 1.0
O4' B:G201 4.8 0.0 1.0
O3' B:G202 4.9 0.0 1.0
C1' B:G201 4.9 0.0 1.0

Phosphorus binding site 3 out of 20 in 1a1t

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Phosphorus binding site 3 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P203

b:0.0
occ:1.00
 P B:A203 0.0 0.0 1.0
OP1 B:A203 1.5 0.0 1.0
OP2 B:A203 1.5 0.0 1.0
O5' B:A203 1.6 0.0 1.0
O3' B:G202 1.6 0.0 1.0
C5' B:A203 2.6 0.0 1.0
C3' B:G202 2.6 0.0 1.0
H3' B:G202 2.6 0.0 1.0
H5'' B:A203 2.9 0.0 1.0
H5' B:A203 2.9 0.0 1.0
HA3 A:GLY4 2.9 0.0 1.0
H A:GLY4 3.0 0.0 1.0
H8 B:A203 3.2 0.0 1.0
H2' B:G202 3.4 0.0 1.0
HG3 A:MET1 3.4 0.0 1.0
C2' B:G202 3.4 0.0 1.0
N A:GLY4 3.5 0.0 1.0
HA2 A:GLY4 3.5 0.0 1.0
CA A:GLY4 3.5 0.0 1.0
O2' B:G202 3.6 0.0 1.0
HG2 A:MET1 3.7 0.0 1.0
H3' B:A203 3.8 0.0 1.0
C4' B:G202 3.9 0.0 1.0
H A:GLN2 3.9 0.0 1.0
C4' B:A203 3.9 0.0 1.0
H5'' B:G202 4.0 0.0 1.0
O5' B:G202 4.1 0.0 1.0
CG A:MET1 4.1 0.0 1.0
H A:LYS3 4.1 0.0 1.0
O4' B:A203 4.2 0.0 1.0
H4' B:G202 4.2 0.0 1.0
C8 B:A203 4.2 0.0 1.0
C5' B:G202 4.2 0.0 1.0
C3' B:A203 4.4 0.0 1.0
C A:LYS3 4.5 0.0 1.0
HO2' B:G202 4.5 0.0 1.0
N A:LYS3 4.5 0.0 1.0
N A:GLN2 4.7 0.0 1.0
H8 B:G202 4.7 0.0 1.0
H4' B:A203 4.7 0.0 1.0
C1' B:G202 4.8 0.0 1.0
HA A:GLN2 4.8 0.0 1.0
O4' B:G202 4.9 0.0 1.0
HE3 A:MET1 4.9 0.0 1.0
C A:GLY4 5.0 0.0 1.0
OP2 B:C204 5.0 0.0 1.0

Phosphorus binding site 4 out of 20 in 1a1t

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Phosphorus binding site 4 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P204

b:0.0
occ:1.00
 P B:C204 0.0 0.0 1.0
OP1 B:C204 1.5 0.0 1.0
OP2 B:C204 1.5 0.0 1.0
O5' B:C204 1.6 0.0 1.0
O3' B:A203 1.6 0.0 1.0
C5' B:C204 2.6 0.0 1.0
C3' B:A203 2.6 0.0 1.0
H3' B:A203 2.6 0.0 1.0
H5' B:C204 2.7 0.0 1.0
HO2' B:A203 2.9 0.0 1.0
H5'' B:C204 3.1 0.0 1.0
HB3 A:ARG7 3.4 0.0 1.0
C2' B:A203 3.5 0.0 1.0
H2' B:A203 3.5 0.0 1.0
O2' B:A203 3.6 0.0 1.0
H6 B:C204 3.6 0.0 1.0
C4' B:C204 3.8 0.0 1.0
C4' B:A203 3.8 0.0 1.0
H4' B:A203 4.0 0.0 1.0
H5'' B:A203 4.0 0.0 1.0
HE3 A:MET1 4.1 0.0 1.0
HD3 A:ARG7 4.1 0.0 1.0
HA2 A:GLY4 4.3 0.0 1.0
O4' B:C204 4.4 0.0 1.0
CB A:ARG7 4.4 0.0 1.0
HB2 A:ARG7 4.4 0.0 1.0
H4' B:C204 4.4 0.0 1.0
C5' B:A203 4.4 0.0 1.0
C6 B:C204 4.6 0.0 1.0
O4' B:A203 4.8 0.0 1.0
O5' B:A203 4.8 0.0 1.0
O A:GLY4 4.8 0.0 1.0
C1' B:A203 4.8 0.0 1.0
H3' B:C204 4.8 0.0 1.0
H5 B:C204 5.0 0.0 1.0
HA3 A:GLY4 5.0 0.0 1.0
C3' B:C204 5.0 0.0 1.0

Phosphorus binding site 5 out of 20 in 1a1t

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Phosphorus binding site 5 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P205

b:0.0
occ:1.00
 P B:U205 0.0 0.0 1.0
OP2 B:U205 1.5 0.0 1.0
OP1 B:U205 1.5 0.0 1.0
O5' B:U205 1.6 0.0 1.0
O3' B:C204 1.6 0.0 1.0
H3' B:C204 2.6 0.0 1.0
C3' B:C204 2.6 0.0 1.0
C5' B:U205 2.6 0.0 1.0
H5' B:U205 2.6 0.0 1.0
HO2' B:C204 3.0 0.0 1.0
H5'' B:U205 3.3 0.0 1.0
H5'' B:C204 3.4 0.0 1.0
O2' B:C204 3.4 0.0 1.0
C2' B:C204 3.7 0.0 1.0
C4' B:U205 3.7 0.0 1.0
C4' B:C204 3.7 0.0 1.0
H4' B:C204 3.9 0.0 1.0
C5' B:C204 4.1 0.0 1.0
H2' B:C204 4.1 0.0 1.0
O4' B:U205 4.1 0.0 1.0
H4' B:U205 4.2 0.0 1.0
H6 B:U205 4.5 0.0 1.0
O4' B:C204 4.5 0.0 1.0
H5' B:C204 4.5 0.0 1.0
C1' B:C204 4.8 0.0 1.0
H3' B:U205 4.9 0.0 1.0
C3' B:U205 4.9 0.0 1.0

Phosphorus binding site 6 out of 20 in 1a1t

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Phosphorus binding site 6 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P206

b:0.0
occ:1.00
 P B:A206 0.0 0.0 1.0
OP2 B:A206 1.5 0.0 1.0
OP1 B:A206 1.5 0.0 1.0
O5' B:A206 1.6 0.0 1.0
O3' B:U205 1.6 0.0 1.0
H3' B:U205 2.6 0.0 1.0
C3' B:U205 2.6 0.0 1.0
C5' B:A206 2.6 0.0 1.0
HH11 A:ARG10 2.7 0.0 1.0
H5' B:A206 2.7 0.0 1.0
H5'' B:U205 2.9 0.0 1.0
NH1 A:ARG10 3.0 0.0 1.0
H5'' B:A206 3.1 0.0 1.0
HH12 A:ARG10 3.2 0.0 1.0
C4' B:U205 3.7 0.0 1.0
C2' B:U205 3.7 0.0 1.0
HD3 A:ARG10 3.7 0.0 1.0
C5' B:U205 3.7 0.0 1.0
H2' B:U205 3.8 0.0 1.0
O2' B:U205 3.9 0.0 1.0
C4' B:A206 3.9 0.0 1.0
CZ A:ARG10 3.9 0.0 1.0
HD2 A:ARG10 4.0 0.0 1.0
H3' B:A206 4.1 0.0 1.0
H4' B:U205 4.1 0.0 1.0
CD A:ARG10 4.2 0.0 1.0
HO2' B:U205 4.3 0.0 1.0
H8 B:A206 4.3 0.0 1.0
H5' B:U205 4.4 0.0 1.0
NE A:ARG10 4.4 0.0 1.0
C3' B:A206 4.5 0.0 1.0
O4' B:A206 4.6 0.0 1.0
OP2 B:G207 4.6 0.0 1.0
O5' B:U205 4.7 0.0 1.0
H4' B:A206 4.7 0.0 1.0
O4' B:U205 4.7 0.0 1.0
NH2 A:ARG10 4.8 0.0 1.0
H6 B:U205 4.9 0.0 1.0
HH21 A:ARG10 4.9 0.0 1.0
C1' B:U205 4.9 0.0 1.0
O3' B:A206 5.0 0.0 1.0

Phosphorus binding site 7 out of 20 in 1a1t

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Phosphorus binding site 7 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P207

b:0.0
occ:1.00
 P B:G207 0.0 0.0 1.0
OP1 B:G207 1.5 0.0 1.0
OP2 B:G207 1.5 0.0 1.0
O3' B:A206 1.6 0.0 1.0
O5' B:G207 1.6 0.0 1.0
H3' B:A206 2.6 0.0 1.0
C3' B:A206 2.6 0.0 1.0
C5' B:G207 2.6 0.0 1.0
H5' B:G207 2.7 0.0 1.0
H5'' B:G207 3.2 0.0 1.0
C2' B:A206 3.6 0.0 1.0
O2' B:A206 3.6 0.0 1.0
H5'' B:A206 3.7 0.0 1.0
H2' B:A206 3.7 0.0 1.0
C4' B:G207 3.8 0.0 1.0
C4' B:A206 3.8 0.0 1.0
C5' B:A206 4.0 0.0 1.0
O5' B:A206 4.0 0.0 1.0
H3' B:G207 4.0 0.0 1.0
OP2 B:C208 4.2 0.0 1.0
H4' B:A206 4.2 0.0 1.0
H8 B:G207 4.4 0.0 1.0
O4' B:G207 4.4 0.0 1.0
C3' B:G207 4.4 0.0 1.0
HO2' B:A206 4.5 0.0 1.0
H4' B:G207 4.7 0.0 1.0
O4' B:A206 4.7 0.0 1.0
HD3 A:LYS11 4.8 0.0 1.0
C1' B:A206 4.9 0.0 1.0
O3' B:G207 4.9 0.0 1.0

Phosphorus binding site 8 out of 20 in 1a1t

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Phosphorus binding site 8 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P208

b:0.0
occ:1.00
 P B:C208 0.0 0.0 1.0
OP1 B:C208 1.5 0.0 1.0
OP2 B:C208 1.5 0.0 1.0
O3' B:G207 1.6 0.0 1.0
O5' B:C208 1.6 0.0 1.0
H3' B:G207 2.6 0.0 1.0
C5' B:C208 2.6 0.0 1.0
C3' B:G207 2.6 0.0 1.0
H5' B:C208 2.6 0.0 1.0
H5'' B:C208 3.3 0.0 1.0
H6 B:C208 3.4 0.0 1.0
H5'' B:G207 3.4 0.0 1.0
HE2 A:LYS11 3.5 0.0 1.0
O5' B:G207 3.6 0.0 1.0
HZ1 A:LYS11 3.7 0.0 1.0
C4' B:G207 3.7 0.0 1.0
C2' B:G207 3.7 0.0 1.0
C4' B:C208 3.7 0.0 1.0
C5' B:G207 3.7 0.0 1.0
H2' B:G207 3.8 0.0 1.0
O2' B:G207 4.0 0.0 1.0
O4' B:C208 4.1 0.0 1.0
H4' B:G207 4.1 0.0 1.0
NZ A:LYS11 4.2 0.0 1.0
C6 B:C208 4.3 0.0 1.0
H4' B:C208 4.3 0.0 1.0
CE A:LYS11 4.3 0.0 1.0
H5 B:C208 4.6 0.0 1.0
O4' B:G207 4.7 0.0 1.0
HO2' B:G207 4.8 0.0 1.0
H3' B:C208 4.8 0.0 1.0
H5' B:G207 4.8 0.0 1.0
C5 B:C208 4.8 0.0 1.0
HD2 A:LYS11 4.9 0.0 1.0
H8 B:G207 4.9 0.0 1.0
C3' B:C208 4.9 0.0 1.0
C1' B:G207 4.9 0.0 1.0

Phosphorus binding site 9 out of 20 in 1a1t

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Phosphorus binding site 9 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P209

b:0.0
occ:1.00
 P B:G209 0.0 0.0 1.0
OP1 B:G209 1.5 0.0 1.0
OP2 B:G209 1.5 0.0 1.0
O3' B:C208 1.6 0.0 1.0
O5' B:G209 1.6 0.0 1.0
H3' B:C208 2.6 0.0 1.0
C3' B:C208 2.6 0.0 1.0
C5' B:G209 2.6 0.0 1.0
H5'' B:G209 2.6 0.0 1.0
H5'' B:C208 3.1 0.0 1.0
H5' B:G209 3.4 0.0 1.0
H4' B:G209 3.5 0.0 1.0
O2' B:C208 3.6 0.0 1.0
C4' B:G209 3.7 0.0 1.0
C4' B:C208 3.7 0.0 1.0
C2' B:C208 3.7 0.0 1.0
C5' B:C208 3.9 0.0 1.0
H4' B:C208 3.9 0.0 1.0
H2' B:C208 4.1 0.0 1.0
HO2' B:C208 4.3 0.0 1.0
O4' B:G209 4.3 0.0 1.0
H5' B:C208 4.5 0.0 1.0
O4' B:C208 4.5 0.0 1.0
H8 B:G209 4.6 0.0 1.0
C1' B:C208 4.9 0.0 1.0
C3' B:G209 4.9 0.0 1.0
O5' B:C208 4.9 0.0 1.0

Phosphorus binding site 10 out of 20 in 1a1t

Go back to Phosphorus Binding Sites List in 1a1t
Phosphorus binding site 10 out of 20 in the Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element, uc(Nmr), 25 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P210

b:0.0
occ:1.00
 P B:G210 0.0 0.0 1.0
OP1 B:G210 1.5 0.0 1.0
OP2 B:G210 1.5 0.0 1.0
O5' B:G210 1.6 0.0 1.0
O3' B:G209 1.6 0.0 1.0
HD3 A:LYS47 2.6 0.0 1.0
H3' B:G209 2.6 0.0 1.0
C5' B:G210 2.6 0.0 1.0
C3' B:G209 2.6 0.0 1.0
HO2' B:G209 2.6 0.0 1.0
H5' B:G210 2.8 0.0 1.0
H5'' B:G210 3.0 0.0 1.0
O2' B:G209 3.1 0.0 1.0
OP1 B:A211 3.2 0.0 1.0
C2' B:G209 3.5 0.0 1.0
CD A:LYS47 3.5 0.0 1.0
HD2 A:LYS47 3.5 0.0 1.0
H3' B:G210 3.5 0.0 1.0
C4' B:G209 3.8 0.0 1.0
HE2 A:LYS47 3.9 0.0 1.0
C4' B:G210 3.9 0.0 1.0
H4' B:G209 3.9 0.0 1.0
H2' B:G209 4.0 0.0 1.0
H5' B:G209 4.1 0.0 1.0
C3' B:G210 4.2 0.0 1.0
CE A:LYS47 4.3 0.0 1.0
HB2 A:LYS47 4.3 0.0 1.0
C5' B:G209 4.4 0.0 1.0
O4' B:G209 4.4 0.0 1.0
H4' B:G210 4.5 0.0 1.0
P B:A211 4.5 0.0 1.0
O5' B:G209 4.6 0.0 1.0
H8 B:G210 4.6 0.0 1.0
CG A:LYS47 4.6 0.0 1.0
C1' B:G209 4.7 0.0 1.0
HG3 A:LYS47 4.7 0.0 1.0
H5' B:A211 4.7 0.0 1.0
O3' B:G210 4.8 0.0 1.0
HZ A:PHE16 4.9 0.0 1.0
HE1 A:PHE16 4.9 0.0 1.0
HE3 A:LYS47 5.0 0.0 1.0
HE21 A:GLN45 5.0 0.0 1.0
CB A:LYS47 5.0 0.0 1.0

Reference:

R.N.De Guzman, Z.R.Wu, C.C.Stalling, L.Pappalardo, P.N.Borer, M.F.Summers. Structure of the Hiv-1 Nucleocapsid Protein Bound to the SL3 Psi-Rna Recognition Element. Science V. 279 384 1998.
ISSN: ISSN 0036-8075
PubMed: 9430589
DOI: 10.1126/SCIENCE.279.5349.384
Page generated: Fri Sep 25 12:01:51 2020

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