Phosphorus in PDB 1a6y: Reverba Orphan Nuclear Receptor/Dna Complex

Protein crystallography data

The structure of Reverba Orphan Nuclear Receptor/Dna Complex, PDB code: 1a6y was solved by Q.Zhao, S.Khorasanizadeh, F.Rastinejad, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.30
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 38.670, 45.690, 47.950, 75.16, 80.64, 85.58
R / Rfree (%) 19.2 / 28.8

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 38;

Binding sites:

The binding sites of Phosphorus atom in the Reverba Orphan Nuclear Receptor/Dna Complex (pdb code 1a6y). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 38 binding sites of Phosphorus where determined in the Reverba Orphan Nuclear Receptor/Dna Complex, PDB code: 1a6y:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 38 in 1a6y

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Phosphorus binding site 1 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P601

b:64.6
occ:1.00
P C:DA601 0.0 64.6 1.0
OP2 C:DA601 1.5 62.8 1.0
OP1 C:DA601 1.5 53.7 1.0
O5' C:DA601 1.6 61.9 1.0
O3' C:DC600 1.6 60.9 1.0
C5' C:DA601 2.6 57.1 1.0
C3' C:DC600 2.6 55.1 1.0
C2' C:DC600 3.2 49.4 1.0
O C:HOH742 3.6 37.6 1.0
C4' C:DA601 3.9 59.3 1.0
C4' C:DC600 3.9 53.0 1.0
O C:HOH929 4.0 48.5 1.0
C1' C:DC600 4.2 52.3 1.0
O C:HOH881 4.2 46.5 1.0
O4' C:DA601 4.2 61.8 1.0
C8 C:DA601 4.3 51.4 1.0
O4' C:DC600 4.6 54.0 1.0
C3' C:DA601 4.6 64.6 1.0
C2' C:DA601 4.7 60.0 1.0
O C:HOH805 4.7 38.6 1.0
C1' C:DA601 4.9 55.0 1.0
N9 C:DA601 4.9 49.0 1.0

Phosphorus binding site 2 out of 38 in 1a6y

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Phosphorus binding site 2 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P602

b:63.4
occ:1.00
P C:DA602 0.0 63.4 1.0
OP1 C:DA602 1.5 58.6 1.0
OP2 C:DA602 1.5 64.0 1.0
O5' C:DA602 1.6 60.6 1.0
O3' C:DA601 1.6 64.8 1.0
C3' C:DA601 2.6 64.6 1.0
C5' C:DA602 2.6 51.2 1.0
C2' C:DA601 3.3 60.0 1.0
O C:HOH875 3.6 43.4 1.0
C4' C:DA602 3.9 51.8 1.0
C4' C:DA601 3.9 59.3 1.0
C1' C:DA601 4.2 55.0 1.0
O4' C:DA602 4.2 46.1 1.0
C8 C:DA602 4.4 27.1 1.0
C3' C:DA602 4.5 56.2 1.0
C2' C:DA602 4.5 50.6 1.0
O4' C:DA601 4.6 61.8 1.0
C1' C:DA602 4.9 43.9 1.0

Phosphorus binding site 3 out of 38 in 1a6y

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Phosphorus binding site 3 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P603

b:55.1
occ:1.00
P C:DC603 0.0 55.1 1.0
OP1 C:DC603 1.5 54.1 1.0
OP2 C:DC603 1.5 46.1 1.0
O5' C:DC603 1.6 41.2 1.0
O3' C:DA602 1.6 57.1 1.0
C5' C:DC603 2.6 51.9 1.0
C3' C:DA602 2.6 56.2 1.0
C2' C:DA602 3.3 50.6 1.0
CD A:ARG175 3.7 60.6 1.0
CG A:ARG175 3.8 61.2 1.0
C4' C:DC603 3.9 44.6 1.0
C4' C:DA602 4.0 51.8 1.0
CB A:ARG175 4.0 59.8 1.0
C1' C:DA602 4.1 43.9 1.0
C3' C:DC603 4.2 40.9 1.0
O4' C:DA602 4.6 46.1 1.0
C2' C:DC603 4.7 47.6 1.0
NE A:ARG175 4.7 61.3 1.0
O4' C:DC603 4.7 46.1 1.0
CA A:ARG175 4.7 53.5 1.0
O C:HOH926 5.0 54.5 1.0

Phosphorus binding site 4 out of 38 in 1a6y

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Phosphorus binding site 4 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P604

b:28.6
occ:1.00
P C:DT604 0.0 28.6 1.0
OP1 C:DT604 1.5 30.0 1.0
OP2 C:DT604 1.5 8.8 1.0
O5' C:DT604 1.6 11.9 1.0
O3' C:DC603 1.6 38.9 1.0
C5' C:DT604 2.6 11.8 1.0
C3' C:DC603 2.6 40.9 1.0
C2' C:DC603 3.3 47.6 1.0
C4' C:DT604 3.8 14.1 1.0
C4' C:DC603 3.9 44.6 1.0
O4' C:DT604 3.9 17.7 1.0
O C:HOH872 4.0 49.2 1.0
N A:PHE111 4.0 19.9 1.0
C1' C:DC603 4.1 42.1 1.0
C6 C:DT604 4.2 18.3 1.0
O A:HOH883 4.3 42.9 1.0
O A:PHE111 4.5 31.5 1.0
CA A:GLY110 4.5 25.4 1.0
C3' C:DT604 4.6 12.2 1.0
CB A:PHE111 4.6 26.5 1.0
O4' C:DC603 4.6 46.1 1.0
C2' C:DT604 4.6 12.1 1.0
C1' C:DT604 4.8 14.5 1.0
C A:GLY110 4.8 25.8 1.0
CA A:PHE111 4.9 18.9 1.0
C7 C:DT604 4.9 12.4 1.0
N1 C:DT604 5.0 16.2 1.0

Phosphorus binding site 5 out of 38 in 1a6y

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Phosphorus binding site 5 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P605

b:23.7
occ:1.00
P C:DA605 0.0 23.7 1.0
OP2 C:DA605 1.5 37.5 1.0
OP1 C:DA605 1.5 28.5 1.0
O5' C:DA605 1.6 32.7 1.0
O3' C:DT604 1.6 14.3 1.0
C3' C:DT604 2.6 12.2 1.0
C5' C:DA605 2.6 23.4 1.0
C2' C:DT604 3.5 12.1 1.0
C8 C:DA605 3.5 24.0 1.0
C4' C:DT604 3.8 14.1 1.0
CD2 A:HIS112 3.9 26.8 1.0
C4' C:DA605 3.9 13.5 1.0
O A:HOH709 3.9 17.9 1.0
N A:TYR113 4.0 12.0 1.0
CG1 A:VAL171 4.1 18.0 1.0
CA A:HIS112 4.1 17.7 1.0
O A:PHE111 4.1 31.5 1.0
N7 C:DA605 4.2 28.8 1.0
O4' C:DA605 4.3 16.1 1.0
N9 C:DA605 4.4 16.7 1.0
C1' C:DT604 4.4 14.5 1.0
C2' C:DA605 4.5 16.1 1.0
C3' C:DA605 4.5 18.6 1.0
CG A:HIS112 4.5 23.0 1.0
CB A:HIS112 4.6 24.1 1.0
C1' C:DA605 4.6 21.7 1.0
C A:HIS112 4.6 20.5 1.0
O4' C:DT604 4.7 17.7 1.0
C5' C:DT604 4.8 11.8 1.0
CG2 A:VAL171 4.8 24.5 1.0
NE2 A:HIS112 4.9 15.2 1.0
CD2 A:TYR113 5.0 30.5 1.0

Phosphorus binding site 6 out of 38 in 1a6y

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Phosphorus binding site 6 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P606

b:41.0
occ:1.00
P C:DG606 0.0 41.0 1.0
OP1 C:DG606 1.5 30.9 1.0
OP2 C:DG606 1.5 36.8 1.0
O5' C:DG606 1.6 42.2 1.0
O3' C:DA605 1.6 18.0 1.0
C5' C:DG606 2.6 42.1 1.0
C3' C:DA605 2.6 18.6 1.0
C2' C:DA605 3.2 16.1 1.0
O C:HOH792 3.6 39.7 1.0
NH1 A:ARG168 3.7 29.3 1.0
C4' C:DA605 3.9 13.5 1.0
C4' C:DG606 3.9 27.1 1.0
NH2 A:ARG168 4.0 20.8 1.0
OH A:TYR113 4.1 30.2 1.0
C1' C:DA605 4.2 21.7 1.0
CZ A:ARG168 4.4 19.2 1.0
C3' C:DG606 4.4 31.4 1.0
O4' C:DA605 4.5 16.1 1.0
CE1 A:TYR113 4.9 30.5 1.0
CZ A:TYR113 4.9 29.7 1.0
O4' C:DG606 5.0 21.4 1.0

Phosphorus binding site 7 out of 38 in 1a6y

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Phosphorus binding site 7 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P607

b:35.3
occ:1.00
P C:DG607 0.0 35.3 1.0
OP1 C:DG607 1.5 33.5 1.0
OP2 C:DG607 1.5 42.3 1.0
O5' C:DG607 1.6 28.4 1.0
O3' C:DG606 1.6 41.0 1.0
C5' C:DG607 2.6 35.5 1.0
C3' C:DG606 2.6 31.4 1.0
C2' C:DG606 3.1 23.4 1.0
C4' C:DG607 3.9 33.2 1.0
C4' C:DG606 4.0 27.1 1.0
O C:HOH777 4.0 67.2 1.0
C1' C:DG606 4.1 28.4 1.0
C3' C:DG607 4.4 36.4 1.0
O4' C:DG607 4.5 40.0 1.0
O4' C:DG606 4.5 21.4 1.0
C8 C:DG607 4.7 20.2 1.0
C2' C:DG607 4.7 34.9 1.0
NE2 A:GLN130 4.9 66.5 1.0

Phosphorus binding site 8 out of 38 in 1a6y

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Phosphorus binding site 8 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P608

b:30.2
occ:1.00
P C:DT608 0.0 30.2 1.0
OP1 C:DT608 1.5 35.1 1.0
OP2 C:DT608 1.5 23.8 1.0
O5' C:DT608 1.6 19.9 1.0
O3' C:DG607 1.6 26.9 1.0
C5' C:DT608 2.6 28.5 1.0
C3' C:DG607 2.6 36.4 1.0
C2' C:DG607 3.2 34.9 1.0
O C:HOH868 3.3 50.2 1.0
O C:HOH818 3.8 26.4 1.0
C4' C:DT608 3.9 27.5 1.0
C4' C:DG607 3.9 33.2 1.0
C1' C:DG607 4.1 29.4 1.0
C3' C:DT608 4.2 27.4 1.0
O4' C:DG607 4.5 40.0 1.0
C2' C:DT608 4.5 34.7 1.0
O4' C:DT608 4.5 28.7 1.0
O C:HOH743 4.6 48.8 1.0

Phosphorus binding site 9 out of 38 in 1a6y

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Phosphorus binding site 9 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P609

b:28.2
occ:1.00
P C:DC609 0.0 28.2 1.0
OP2 C:DC609 1.5 14.2 1.0
OP1 C:DC609 1.5 33.9 1.0
O5' C:DC609 1.6 23.1 1.0
O3' C:DT608 1.6 31.1 1.0
C3' C:DT608 2.6 27.4 1.0
C5' C:DC609 2.6 30.2 1.0
C2' C:DT608 3.4 34.7 1.0
O C:HOH825 3.8 56.1 1.0
C4' C:DT608 3.9 27.5 1.0
C4' C:DC609 3.9 28.0 1.0
C1' C:DT608 4.2 34.9 1.0
C3' C:DC609 4.3 14.1 1.0
O4' C:DC609 4.4 27.4 1.0
C2' C:DC609 4.5 10.9 1.0
O4' C:DT608 4.6 28.7 1.0
O C:HOH917 4.9 40.4 1.0
C5' C:DT608 4.9 28.5 1.0

Phosphorus binding site 10 out of 38 in 1a6y

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Phosphorus binding site 10 out of 38 in the Reverba Orphan Nuclear Receptor/Dna Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Reverba Orphan Nuclear Receptor/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P610

b:34.0
occ:1.00
P C:DA610 0.0 34.0 1.0
OP2 C:DA610 1.5 17.7 1.0
OP1 C:DA610 1.5 25.3 1.0
O5' C:DA610 1.6 31.7 1.0
O3' C:DC609 1.6 20.2 1.0
C3' C:DC609 2.6 14.1 1.0
C5' C:DA610 2.6 32.3 1.0
C4' C:DC609 3.4 28.0 1.0
O C:HOH749 3.7 58.6 1.0
C8 C:DA610 3.8 6.8 1.0
C4' C:DA610 3.8 24.0 1.0
C2' C:DC609 3.8 10.9 1.0
O4' C:DA610 4.0 20.4 1.0
O C:HOH719 4.1 46.4 1.0
C2' C:DA610 4.3 9.2 1.0
C5' C:DC609 4.4 30.2 1.0
C1' C:DC609 4.4 18.3 1.0
N9 C:DA610 4.4 6.5 1.0
O4' C:DC609 4.4 27.4 1.0
C1' C:DA610 4.5 12.7 1.0
C3' C:DA610 4.5 15.9 1.0
N7 C:DA610 4.7 3.5 1.0
O5' C:DC609 4.9 23.1 1.0

Reference:

Q.Zhao, S.Khorasanizadeh, Y.Miyoshi, M.A.Lazar, F.Rastinejad. Structural Elements of An Orphan Nuclear Receptor-Dna Complex. Mol.Cell V. 1 849 1998.
ISSN: ISSN 1097-2765
PubMed: 9660968
DOI: 10.1016/S1097-2765(00)80084-2
Page generated: Fri Sep 25 12:20:01 2020

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