Atomistry » Bromine » PDB 1p2x-1to3 » 1sm5
Atomistry »
  Bromine »
    PDB 1p2x-1to3 »
      1sm5 »

Bromine in PDB 1sm5: Crystal Structure of A Dna Decamer Containing A Thymine- Dimer

Protein crystallography data

The structure of Crystal Structure of A Dna Decamer Containing A Thymine- Dimer, PDB code: 1sm5 was solved by H.Park, K.Zhang, Y.Ren, S.Nadji, N.Sinha, J.-S.Taylor, C.Kang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 24.500, 53.850, 75.330, 90.00, 90.00, 90.00
R / Rfree (%) 19.8 / 25.4

Bromine Binding Sites:

The binding sites of Bromine atom in the Crystal Structure of A Dna Decamer Containing A Thymine- Dimer (pdb code 1sm5). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 4 binding sites of Bromine where determined in the Crystal Structure of A Dna Decamer Containing A Thymine- Dimer, PDB code: 1sm5:
Jump to Bromine binding site number: 1; 2; 3; 4;

Bromine binding site 1 out of 4 in 1sm5

Go back to Bromine Binding Sites List in 1sm5
Bromine binding site 1 out of 4 in the Crystal Structure of A Dna Decamer Containing A Thymine- Dimer


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of A Dna Decamer Containing A Thymine- Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br3

b:50.0
occ:1.00
BR A:BRU3 0.0 50.0 1.0
C5 A:BRU3 1.9 40.2 1.0
C6 A:BRU3 2.8 39.7 1.0
C4 A:BRU3 3.0 39.2 1.0
O4 A:BRU3 3.4 36.4 1.0
C2' A:DC2 3.5 36.0 1.0
C6 A:DC2 3.7 29.6 1.0
O A:HOH206 3.7 17.0 1.0
N1 A:DC2 3.9 31.0 1.0
C5 A:DC2 4.0 27.5 1.0
N1 A:BRU3 4.2 38.0 1.0
O4 A:DT4 4.3 29.0 1.0
N3 A:BRU3 4.3 38.2 1.0
C1' A:DC2 4.3 33.4 1.0
C2 A:DC2 4.3 29.8 1.0
C4 A:DC2 4.5 26.0 1.0
C3' A:DC2 4.5 38.0 1.0
OP2 A:BRU3 4.5 39.2 1.0
N3 A:DC2 4.6 26.8 1.0
C7 A:DT4 4.8 29.1 1.0
C2 A:BRU3 4.8 37.8 1.0
C4 A:DT4 4.9 30.3 1.0

Bromine binding site 2 out of 4 in 1sm5

Go back to Bromine Binding Sites List in 1sm5
Bromine binding site 2 out of 4 in the Crystal Structure of A Dna Decamer Containing A Thymine- Dimer


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Crystal Structure of A Dna Decamer Containing A Thymine- Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br8

b:46.4
occ:1.00
BR A:BRU8 0.0 46.4 1.0
C5 A:BRU8 1.9 38.5 1.0
C6 A:BRU8 2.9 39.1 1.0
C4 A:BRU8 2.9 37.0 1.0
O4 A:BRU8 3.2 35.0 1.0
C6 A:DT7 3.8 26.6 1.0
C5 A:DT7 4.0 27.0 1.0
C7 A:DT7 4.1 28.1 1.0
N1 A:BRU8 4.2 36.9 1.0
N3 A:BRU8 4.2 35.2 1.0
C2' A:DT7 4.2 31.9 1.0
N1 A:DT7 4.4 29.3 1.0
N4 A:DC9 4.4 20.5 1.0
C4 A:DT7 4.7 28.4 1.0
C2 A:BRU8 4.8 36.4 1.0
C1' A:DT7 4.9 32.1 1.0

Bromine binding site 3 out of 4 in 1sm5

Go back to Bromine Binding Sites List in 1sm5
Bromine binding site 3 out of 4 in the Crystal Structure of A Dna Decamer Containing A Thymine- Dimer


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Crystal Structure of A Dna Decamer Containing A Thymine- Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Br3

b:46.6
occ:1.00
BR C:BRU3 0.0 46.6 1.0
C5 C:BRU3 1.8 38.5 1.0
C6 C:BRU3 2.7 36.9 1.0
C4 C:BRU3 2.8 37.0 1.0
O4 C:BRU3 3.1 35.8 1.0
C6 C:DC2 3.8 34.9 1.0
N1 C:BRU3 3.9 36.4 1.0
N1 C:DC2 4.0 36.1 1.0
N3 C:BRU3 4.0 33.5 1.0
C5 C:DC2 4.0 34.2 1.0
C3' C:DC2 4.2 37.0 1.0
O4 C:DT4 4.3 34.8 1.0
C7 C:DT4 4.3 35.2 1.0
OP2 C:BRU3 4.3 40.8 1.0
C2 C:DC2 4.3 34.8 1.0
C2' C:DC2 4.3 35.5 1.0
C4 C:DC2 4.4 33.4 1.0
N3 C:DC2 4.5 33.5 1.0
C2 C:BRU3 4.5 33.9 1.0
C1' C:DC2 4.7 35.6 1.0
C4 C:DT4 4.8 33.7 1.0
C5 C:DT4 4.9 35.5 1.0
O2 C:DC2 4.9 33.8 1.0
O5' C:BRU3 4.9 38.6 1.0
O3' C:DC2 5.0 37.5 1.0

Bromine binding site 4 out of 4 in 1sm5

Go back to Bromine Binding Sites List in 1sm5
Bromine binding site 4 out of 4 in the Crystal Structure of A Dna Decamer Containing A Thymine- Dimer


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Crystal Structure of A Dna Decamer Containing A Thymine- Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Br8

b:43.1
occ:1.00
BR C:BRU8 0.0 43.1 1.0
C5 C:BRU8 1.9 33.5 1.0
C6 C:BRU8 2.8 32.6 1.0
C4 C:BRU8 2.9 31.8 1.0
O4 C:BRU8 3.2 30.8 1.0
O C:HOH207 3.8 33.7 1.0
C2' C:DT7 3.9 37.0 1.0
N4 C:DC9 3.9 31.6 1.0
C6 C:DT7 4.0 32.3 1.0
N1 C:BRU8 4.1 32.8 1.0
N3 C:BRU8 4.2 29.6 1.0
C5 C:DT7 4.2 31.0 1.0
OP2 C:BRU8 4.3 35.7 1.0
N1 C:DT7 4.4 33.6 1.0
C7 C:DT7 4.5 30.4 1.0
C4 C:DC9 4.6 28.1 1.0
C2 C:BRU8 4.7 31.2 1.0
C4 C:DT7 4.7 30.6 1.0
C5 C:DC9 4.8 26.9 1.0
C1' C:DT7 4.8 35.0 1.0
C2 C:DT7 5.0 31.2 1.0

Reference:

H.Park, K.Zhang, Y.Ren, S.Nadji, N.Sinha, J.-S.Taylor, C.Kang. Crystal Structure of A Dna Decamer Containing A Thymine-Dimer Proc.Natl.Acad.Sci.Usa V. 99 15965 2002.
ISSN: ISSN 0027-8424
PubMed: 12456887
DOI: 10.1073/PNAS.242422699
Page generated: Sat Dec 12 02:04:00 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy