Phosphorus in PDB 1ais: Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei

The structure of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei, PDB code: 1ais was solved by P.F.Kosa, G.Ghosh, B.S.Dedecker, P.B.Sigler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	125.700, 91.200, 74.200, 90.00, 122.70, 90.00
R / Rfree (%)	21.2 / 26.8

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Phosphorus atom in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei (pdb code 1ais). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 32 binding sites of Phosphorus where determined in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei, PDB code: 1ais:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1402 b:43.2 occ:1.00 P C:DA1402 0.0 43.2 1.0 OP1 C:DA1402 1.5 48.1 1.0 OP2 C:DA1402 1.5 40.7 1.0 O5' C:DA1402 1.6 45.4 1.0 O3' C:DA1401 1.6 47.6 1.0 C3' C:DA1401 2.6 46.3 1.0 C5' C:DA1402 2.6 39.1 1.0 C2' C:DA1401 3.2 45.6 1.0 C4' C:DA1402 3.9 39.0 1.0 C4' C:DA1401 4.0 43.4 1.0 C8 C:DA1402 4.2 21.9 1.0 O4' C:DA1402 4.3 35.7 1.0 C3' C:DA1402 4.3 42.4 1.0 C2' C:DA1402 4.5 35.5 1.0 C1' C:DA1401 4.5 32.4 1.0 O4' C:DA1401 4.9 38.1 1.0 C5' C:DA1401 4.9 39.9 1.0 C1' C:DA1402 4.9 29.5 1.0 O B:HOH1691 4.9 59.5 1.0 O5' C:DA1401 5.0 38.3 1.0 N9 C:DA1402 5.0 26.7 1.0

Phosphorus binding site 2 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1403 b:57.7 occ:1.00 P C:DC1403 0.0 57.7 1.0 OP1 C:DC1403 1.5 60.2 1.0 OP2 C:DC1403 1.5 58.9 1.0 O5' C:DC1403 1.6 55.5 1.0 O3' C:DA1402 1.6 55.5 1.0 C5' C:DC1403 2.6 54.3 1.0 C3' C:DA1402 2.6 42.4 1.0 C2' C:DA1402 3.4 35.5 1.0 C4' C:DC1403 3.9 52.6 1.0 C4' C:DA1402 3.9 39.0 1.0 C1' C:DA1402 4.5 29.5 1.0 C3' C:DC1403 4.5 57.9 1.0 O4' C:DA1402 4.8 35.7 1.0 C5' C:DA1402 4.9 39.1 1.0 O4' C:DC1403 5.0 54.0 1.0

Phosphorus binding site 3 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1404 b:68.1 occ:1.00 P C:DT1404 0.0 68.1 1.0 OP1 C:DT1404 1.5 71.1 1.0 OP2 C:DT1404 1.5 57.7 1.0 O5' C:DT1404 1.6 63.9 1.0 O3' C:DC1403 1.6 63.0 1.0 C5' C:DT1404 2.6 59.1 1.0 C3' C:DC1403 2.6 57.9 1.0 C2' C:DC1403 3.2 53.1 1.0 C4' C:DT1404 3.9 51.4 1.0 C4' C:DC1403 4.0 52.6 1.0 C3' C:DT1404 4.2 48.4 1.0 C1' C:DC1403 4.3 48.2 1.0 O4' C:DC1403 4.6 54.0 1.0 C2' C:DT1404 4.9 48.5 1.0 O4' C:DT1404 4.9 48.3 1.0 O C:HOH1646 5.0 43.2 1.0

Phosphorus binding site 4 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1405 b:59.0 occ:1.00 P C:DT1405 0.0 59.0 1.0 OP1 C:DT1405 1.5 59.3 1.0 OP2 C:DT1405 1.5 54.1 1.0 O5' C:DT1405 1.6 59.3 1.0 O3' C:DT1404 1.6 52.5 1.0 C3' C:DT1404 2.6 48.4 1.0 C5' C:DT1405 2.6 53.2 1.0 C2' C:DT1404 3.1 48.5 1.0 C4' C:DT1405 3.9 49.0 1.0 C4' C:DT1404 3.9 51.4 1.0 C1' C:DT1404 4.1 41.5 1.0 C3' C:DT1405 4.4 45.5 1.0 O4' C:DT1405 4.5 48.5 1.0 O4' C:DT1404 4.5 48.3 1.0 C2' C:DT1405 4.7 44.2 1.0 C6 C:DT1405 5.0 24.9 1.0 O C:HOH1660 5.0 36.7 1.0

Phosphorus binding site 5 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1406 b:50.4 occ:1.00 P C:DA1406 0.0 50.4 1.0 OP1 C:DA1406 1.5 41.3 1.0 OP2 C:DA1406 1.5 45.6 1.0 O5' C:DA1406 1.6 48.8 1.0 O3' C:DT1405 1.6 44.0 1.0 C3' C:DT1405 2.6 45.5 1.0 C5' C:DA1406 2.6 42.2 1.0 C2' C:DT1405 3.1 44.2 1.0 O C:HOH1531 3.6 32.7 0.0 C4' C:DT1405 3.9 49.0 1.0 C4' C:DA1406 3.9 40.0 1.0 C1' C:DT1405 3.9 39.4 1.0 O C:HOH1660 4.1 36.7 1.0 C3' C:DA1406 4.3 43.5 1.0 O4' C:DT1405 4.5 48.5 1.0 O4' C:DA1406 4.6 39.2 1.0 O C:HOH1786 4.6 38.0 1.0 C2' C:DA1406 4.7 39.9 1.0

Phosphorus binding site 6 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1407 b:56.6 occ:1.00 P C:DC1407 0.0 56.6 1.0 OP1 C:DC1407 1.5 45.5 1.0 OP2 C:DC1407 1.5 49.7 1.0 O5' C:DC1407 1.6 51.4 1.0 O3' C:DA1406 1.6 51.4 1.0 C5' C:DC1407 2.6 42.3 1.0 C3' C:DA1406 2.6 43.5 1.0 C2' C:DA1406 3.5 39.9 1.0 C4' C:DC1407 3.8 32.3 1.0 C4' C:DA1406 3.8 40.0 1.0 O C:HOH1531 3.9 32.7 0.0 O4' C:DC1407 4.2 28.5 1.0 O C:HOH1728 4.3 45.6 1.0 C3' C:DC1407 4.3 32.2 1.0 C1' C:DA1406 4.4 34.0 1.0 O4' C:DA1406 4.7 39.2 1.0 C5' C:DA1406 4.8 42.2 1.0 C2' C:DC1407 4.9 36.0 1.0 C6 C:DC1407 4.9 19.9 1.0

Phosphorus binding site 7 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1408 b:28.1 occ:1.00 P C:DT1408 0.0 28.1 1.0 OP1 C:DT1408 1.5 34.5 1.0 OP2 C:DT1408 1.5 30.6 1.0 O5' C:DT1408 1.6 30.5 1.0 O3' C:DC1407 1.6 30.3 1.0 C3' C:DC1407 2.6 32.2 1.0 C5' C:DT1408 2.6 30.8 1.0 C2' C:DC1407 3.2 36.0 1.0 O C:HOH1532 3.9 42.0 1.0 C4' C:DT1408 3.9 26.5 1.0 C4' C:DC1407 3.9 32.3 1.0 C3' C:DT1408 4.2 20.7 1.0 C1' C:DC1407 4.3 29.5 1.0 C6 C:DT1408 4.5 11.1 1.0 O4' C:DT1408 4.5 25.6 1.0 OP2 C:DT1409 4.7 19.9 1.0 C7 C:DT1408 4.7 13.7 1.0 O4' C:DC1407 4.8 28.5 1.0 C5' C:DC1407 4.9 42.3 1.0 C7 C:DT1409 4.9 13.2 1.0

Phosphorus binding site 8 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1409 b:23.7 occ:1.00 P C:DT1409 0.0 23.7 1.0 OP2 C:DT1409 1.5 19.9 1.0 OP1 C:DT1409 1.5 32.5 1.0 O5' C:DT1409 1.6 27.1 1.0 O3' C:DT1408 1.6 21.0 1.0 C3' C:DT1408 2.6 20.7 1.0 C5' C:DT1409 2.6 20.7 1.0 C2' C:DT1408 3.3 28.7 1.0 O C:HOH1567 3.6 26.0 1.0 C4' C:DT1409 3.9 20.2 1.0 C4' C:DT1408 3.9 26.5 1.0 C3' C:DT1409 4.1 22.3 1.0 OE1 A:GLN133 4.5 63.7 1.0 O5' C:DT1408 4.5 30.5 1.0 O4' C:DT1409 4.6 21.8 1.0 C6 C:DT1409 4.6 12.8 1.0 C5' C:DT1408 4.6 30.8 1.0 C1' C:DT1408 4.7 21.4 1.0 CD A:GLN133 4.7 62.4 1.0 OP2 C:DT1410 4.8 14.2 1.0 C7 C:DT1409 4.8 13.2 1.0 O B:HOH1692 4.9 49.2 1.0 O4' C:DT1408 4.9 25.6 1.0 O3' C:DT1409 5.0 26.4 1.0 NE2 A:GLN133 5.0 63.5 1.0

Phosphorus binding site 9 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1410 b:21.5 occ:1.00 P C:DT1410 0.0 21.5 1.0 OP1 C:DT1410 1.5 25.1 1.0 OP2 C:DT1410 1.5 14.2 1.0 O5' C:DT1410 1.6 19.6 1.0 O3' C:DT1409 1.6 26.4 1.0 C3' C:DT1409 2.6 22.3 1.0 C5' C:DT1410 2.6 19.6 1.0 C2' C:DT1409 3.1 28.7 1.0 C4' C:DT1410 3.9 14.8 1.0 C4' C:DT1409 4.0 20.2 1.0 O C:HOH1567 4.1 26.0 1.0 C3' C:DT1410 4.2 21.6 1.0 O4' C:DT1410 4.5 17.4 1.0 O5' C:DT1409 4.5 27.1 1.0 NH1 B:ARG1191 4.6 72.3 1.0 C1' C:DT1409 4.6 23.3 1.0 C6 C:DT1410 4.6 15.9 1.0 C5' C:DT1409 4.7 20.7 1.0 O C:HOH1746 4.9 41.0 1.0 O4' C:DT1409 4.9 21.8 1.0 C7 C:DT1410 4.9 17.9 1.0

Phosphorus binding site 10 out of 32 in the Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Tata-Binding Protein/Transcription Factor (II)B/Tata-Box Complex From Pyrococcus Woesei within 5.0Å range: probe atom residue distance (Å) B Occ C:P1411 b:22.6 occ:1.00 P C:5IU1411 0.0 22.6 1.0 OP1 C:5IU1411 1.5 19.4 1.0 OP2 C:5IU1411 1.5 21.3 1.0 O5' C:5IU1411 1.6 20.3 1.0 O3' C:DT1410 1.6 27.2 1.0 C3' C:DT1410 2.6 21.6 1.0 C5' C:5IU1411 2.6 11.3 1.0 C2' C:DT1410 3.3 25.2 1.0 NH2 A:ARG140 3.5 33.3 1.0 O C:HOH1677 3.8 34.6 1.0 C4' C:5IU1411 3.9 16.3 1.0 C4' C:DT1410 3.9 14.8 1.0 CG2 A:VAL147 4.2 10.2 1.0 C3' C:5IU1411 4.2 17.6 1.0 O C:HOH1688 4.2 47.7 1.0 O C:HOH1746 4.3 41.0 1.0 O4' C:5IU1411 4.4 17.1 1.0 CZ A:ARG140 4.5 37.6 1.0 O A:HOH1528 4.6 30.6 1.0 C6 C:5IU1411 4.6 17.1 1.0 C1' C:DT1410 4.7 14.5 1.0 C5' C:DT1410 4.7 19.6 1.0 O5' C:DT1410 4.7 19.6 1.0 I5 C:5IU1411 4.8 42.7 0.6 NE A:ARG140 4.9 38.0 1.0 O4' C:DT1410 4.9 17.4 1.0 O C:HOH1667 4.9 42.3 1.0 C2' C:5IU1411 5.0 23.5 1.0

P.F.Kosa, G.Ghosh, B.S.Dedecker, P.B.Sigler. The 2.1-A Crystal Structure of An Archaeal Preinitiation Complex: Tata-Box-Binding Protein/Transcription Factor (II)B Core/Tata-Box. Proc.Natl.Acad.Sci.Usa V. 94 6042 1997.
ISSN: ISSN 0027-8424
PubMed: 9177165
DOI: 10.1073/PNAS.94.12.6042