Phosphorus in PDB 191d: Crystal Structure of Intercalated Four-Stranded D(C3T)

Protein crystallography data

The structure of Crystal Structure of Intercalated Four-Stranded D(C3T), PDB code: 191d was solved by C.Kang, I.Berger, C.Lockshin, R.Ratliff, R.Moyzis, A.Rich, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 1.40
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 28.281, 44.341, 50.472, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / 22.5

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Phosphorus atom in the Crystal Structure of Intercalated Four-Stranded D(C3T) (pdb code 191d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 12 binding sites of Phosphorus where determined in the Crystal Structure of Intercalated Four-Stranded D(C3T), PDB code: 191d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 12 in 191d

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Phosphorus binding site 1 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:11.4
occ:1.00
P A:DC2 0.0 11.4 1.0
OP2 A:DC2 1.4 8.8 1.0
OP1 A:DC2 1.5 11.2 1.0
O5' A:DC2 1.6 9.9 1.0
O3' A:DC1 1.6 11.2 1.0
C3' A:DC1 2.6 12.6 1.0
C5' A:DC2 2.7 10.4 1.0
C2' A:DC1 3.4 13.5 1.0
NA A:NA19 3.6 28.2 1.0
C4' A:DC1 3.9 13.6 1.0
C4' A:DC2 4.0 12.8 1.0
O A:HOH44 4.0 8.6 1.0
O A:HOH64 4.1 22.1 1.0
O4' A:DC2 4.3 12.2 1.0
C6 A:DC2 4.3 9.0 1.0
C5' A:DC1 4.4 13.2 1.0
C3' A:DC2 4.5 12.7 1.0
C1' A:DC1 4.8 13.3 1.0
C5 A:DC2 4.8 9.9 1.0
O4' A:DC1 4.9 14.8 1.0

Phosphorus binding site 2 out of 12 in 191d

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Phosphorus binding site 2 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:17.8
occ:1.00
P A:DC3 0.0 17.8 1.0
OP2 A:DC3 1.4 16.7 1.0
OP1 A:DC3 1.5 19.6 1.0
O3' A:DC2 1.6 15.8 1.0
O5' A:DC3 1.7 17.2 1.0
C5' A:DC3 2.7 14.8 1.0
C3' A:DC2 2.7 12.7 1.0
C2' A:DC2 3.6 10.9 1.0
C4' A:DC2 3.9 12.8 1.0
C4' A:DC3 4.0 14.3 1.0
O4' A:DC3 4.2 13.8 1.0
O A:HOH40 4.2 40.0 1.0
C5' A:DC2 4.4 10.4 1.0
C3' A:DC3 4.6 13.4 1.0
O A:HOH65 4.6 31.5 1.0
O5' A:DC2 4.8 9.9 1.0
C1' A:DC2 4.9 11.4 1.0
C6 A:DC3 5.0 8.9 1.0
O4' A:DC2 5.0 12.2 1.0

Phosphorus binding site 3 out of 12 in 191d

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Phosphorus binding site 3 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:17.4
occ:1.00
P A:DT4 0.0 17.4 1.0
OP2 A:DT4 1.5 15.9 1.0
OP1 A:DT4 1.5 18.1 1.0
O5' A:DT4 1.7 15.8 1.0
O3' A:DC3 1.7 14.8 1.0
C5' A:DT4 2.6 16.2 1.0
C3' A:DC3 2.7 13.4 1.0
C2' A:DC3 3.4 11.3 1.0
C4' A:DC3 3.9 14.3 1.0
C4' A:DT4 3.9 15.1 1.0
O A:HOH54 4.0 35.7 1.0
O A:HOH79 4.2 31.4 1.0
O4' A:DT4 4.2 15.0 1.0
C3' A:DT4 4.5 15.2 1.0
C5' A:DC3 4.6 14.8 1.0
HO3' A:DT4 4.8 0.0 0.0
C1' A:DC3 4.8 12.4 1.0
C6 A:DT4 4.8 12.4 1.0
O4' A:DC3 4.9 13.8 1.0
O5' A:DC3 5.0 17.2 1.0

Phosphorus binding site 4 out of 12 in 191d

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Phosphorus binding site 4 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P6

b:21.4
occ:1.00
P B:DC6 0.0 21.4 1.0
OP2 B:DC6 1.5 20.1 1.0
OP1 B:DC6 1.5 23.7 1.0
O3' B:DC5 1.6 20.5 1.0
O5' B:DC6 1.6 22.9 1.0
C3' B:DC5 2.7 19.1 1.0
C5' B:DC6 2.7 18.8 1.0
C2' B:DC5 3.6 17.6 1.0
C4' B:DC6 3.8 17.1 1.0
C4' B:DC5 3.9 20.2 1.0
O B:HOH53 4.1 39.9 1.0
O4' B:DC6 4.2 14.8 1.0
C1' B:DC5 4.4 16.9 1.0
C4' C:DC11 4.7 11.2 1.0
C1' C:DC11 4.7 10.3 1.0
O4' B:DC5 4.7 17.8 1.0
C2' C:DC11 4.8 10.0 1.0
O4' C:DC11 4.9 12.3 1.0
C5' B:DC5 4.9 20.0 1.0

Phosphorus binding site 5 out of 12 in 191d

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Phosphorus binding site 5 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P7

b:17.2
occ:1.00
P B:DC7 0.0 17.2 1.0
OP2 B:DC7 1.5 18.5 1.0
OP1 B:DC7 1.5 16.0 1.0
O5' B:DC7 1.6 17.6 1.0
O3' B:DC6 1.7 16.7 1.0
C5' B:DC7 2.7 15.7 1.0
C3' B:DC6 2.8 14.6 1.0
C2' B:DC6 3.6 14.5 1.0
C4' B:DC7 3.9 15.1 1.0
C4' B:DC6 3.9 17.1 1.0
O B:HOH24 4.0 31.1 1.0
O4' B:DC7 4.5 14.9 1.0
C2' C:DC10 4.5 12.2 1.0
C4' C:DC10 4.6 14.5 1.0
C1' B:DC6 4.7 14.2 1.0
C5' B:DC6 4.7 18.8 1.0
C1' C:DC10 4.8 12.1 1.0
O3' C:DC10 4.9 14.2 1.0

Phosphorus binding site 6 out of 12 in 191d

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Phosphorus binding site 6 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P8

b:12.7
occ:1.00
P B:DT8 0.0 12.7 1.0
OP2 B:DT8 1.4 14.1 1.0
OP1 B:DT8 1.5 13.6 1.0
O5' B:DT8 1.5 11.7 1.0
O3' B:DC7 1.7 13.0 1.0
C3' B:DC7 2.6 13.4 1.0
C5' B:DT8 2.7 12.5 1.0
C2' B:DC7 3.5 12.7 1.0
NA B:NA17 3.7 28.7 1.0
C4' B:DC7 3.8 15.1 1.0
C4' B:DT8 4.0 14.0 1.0
O B:HOH34 4.1 30.3 1.0
C6 B:DT8 4.2 13.9 1.0
C5' B:DC7 4.3 15.7 1.0
O4' B:DT8 4.4 13.3 1.0
C7 B:DT8 4.5 15.1 1.0
C3' B:DT8 4.5 13.0 1.0
C2' B:DT8 4.6 14.5 1.0
C1' B:DC7 4.8 13.7 1.0
C5 B:DT8 4.8 15.2 1.0
O4' B:DC7 4.9 14.9 1.0

Phosphorus binding site 7 out of 12 in 191d

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Phosphorus binding site 7 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P10

b:28.6
occ:1.00
P C:DC10 0.0 28.6 1.0
OP2 C:DC10 1.5 29.2 1.0
OP1 C:DC10 1.5 30.4 1.0
O5' C:DC10 1.6 26.0 1.0
O3' C:DC9 1.7 26.5 1.0
C3' C:DC9 2.8 22.3 1.0
C5' C:DC10 2.8 18.4 1.0
C2' C:DC9 3.8 20.0 1.0
C4' C:DC9 3.9 21.5 1.0
C4' C:DC10 4.0 14.5 1.0
O4' C:DC10 4.2 12.5 1.0
C5' C:DC9 4.2 21.3 1.0
O C:HOH29 4.3 26.0 1.0
O C:HOH42 4.3 34.6 1.0
C6 C:DC10 4.5 10.3 1.0
NA C:NA18 4.5 37.2 1.0
C3' C:DC10 4.5 13.0 1.0

Phosphorus binding site 8 out of 12 in 191d

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Phosphorus binding site 8 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P11

b:12.4
occ:1.00
P C:DC11 0.0 12.4 1.0
OP2 C:DC11 1.5 12.4 1.0
OP1 C:DC11 1.5 15.6 1.0
O3' C:DC10 1.6 14.2 1.0
O5' C:DC11 1.7 12.8 1.0
C3' C:DC10 2.7 13.0 1.0
C5' C:DC11 2.7 10.3 1.0
O C:HOH26 3.5 29.2 1.0
C2' C:DC10 3.6 12.2 1.0
HO3' C:DT12 3.8 0.0 0.0
O C:HOH35 3.8 44.2 1.0
O C:HOH23 3.9 15.3 1.0
C4' C:DC10 3.9 14.5 1.0
C4' C:DC11 4.1 11.2 1.0
C3' C:DT12 4.3 11.8 1.0
C5' C:DC10 4.3 18.4 1.0
O C:HOH63 4.4 39.6 1.0
O3' C:DT12 4.4 11.1 1.0
C5' C:DT12 4.5 11.9 1.0
O4' C:DC11 4.5 12.3 1.0
C3' C:DC11 4.6 10.0 1.0
O5' C:DC10 4.6 26.0 1.0
C4' C:DT12 4.6 11.5 1.0
O5' C:DT12 5.0 11.8 1.0
C1' C:DC10 5.0 12.1 1.0

Phosphorus binding site 9 out of 12 in 191d

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Phosphorus binding site 9 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P12

b:11.2
occ:1.00
P C:DT12 0.0 11.2 1.0
OP1 C:DT12 1.5 11.2 1.0
OP2 C:DT12 1.5 12.4 1.0
O5' C:DT12 1.6 11.8 1.0
O3' C:DC11 1.6 10.8 1.0
C5' C:DT12 2.7 11.9 1.0
C3' C:DC11 2.7 10.0 1.0
C2' C:DC11 3.5 10.0 1.0
O C:HOH56 3.8 10.4 1.0
C4' C:DC11 3.9 11.2 1.0
C4' C:DT12 3.9 11.5 1.0
C6 C:DT12 4.2 11.8 1.0
O4' C:DT12 4.2 12.8 1.0
C5' C:DC11 4.4 10.3 1.0
C3' C:DT12 4.5 11.8 1.0
C2' C:DT12 4.6 10.6 1.0
O5' C:DC11 4.7 12.8 1.0
C7 C:DT12 4.7 11.0 1.0
O C:HOH63 4.7 39.6 1.0
C1' C:DT12 4.8 11.7 1.0
C1' C:DC11 4.9 10.3 1.0
C5 C:DT12 5.0 11.5 1.0

Phosphorus binding site 10 out of 12 in 191d

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Phosphorus binding site 10 out of 12 in the Crystal Structure of Intercalated Four-Stranded D(C3T)


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 Intercalated Four-Stranded D(C3T) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:P14

b:15.3
occ:1.00
P D:DC14 0.0 15.3 1.0
OP2 D:DC14 1.5 14.2 1.0
OP1 D:DC14 1.5 16.8 1.0
O3' D:DC13 1.6 13.6 1.0
O5' D:DC14 1.6 16.6 1.0
C3' D:DC13 2.6 14.2 1.0
C5' D:DC14 2.6 14.4 1.0
C2' D:DC13 3.5 12.6 1.0
C4' D:DC14 3.8 15.7 1.0
C4' D:DC13 3.9 14.8 1.0
O D:HOH62 4.1 26.7 1.0
O D:HOH31 4.3 14.4 1.0
O4' D:DC14 4.3 14.0 1.0
C1' D:DC13 4.5 13.6 1.0
C2' A:DC3 4.5 11.3 1.0
O D:HOH82 4.6 44.8 1.0
C5' A:DT4 4.7 16.2 1.0
C4' A:DC3 4.7 14.3 1.0
O4' D:DC13 4.8 13.7 1.0
C1' A:DC3 4.8 12.4 1.0
C5' D:DC13 4.8 14.7 1.0
O3' A:DC3 4.9 14.8 1.0
O D:HOH59 4.9 33.1 1.0

Reference:

C.H.Kang, I.Berger, C.Lockshin, R.Ratliff, R.Moyzis, A.Rich. Crystal Structure of Intercalated Four-Stranded D(C3T) at 1.4 Angstroms Resolution. Proc.Natl.Acad.Sci.Usa V. 91 11636 1994.
ISSN: ISSN 0027-8424
PubMed: 7972115
DOI: 10.1073/PNAS.91.24.11636
Page generated: Fri Sep 25 11:49:35 2020

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