Atomistry » Chlorine » PDB 3nb5-3nnu » 3ndh
Atomistry »
  Chlorine »
    PDB 3nb5-3nnu »
      3ndh »

Chlorine in PDB 3ndh: Restriction Endonuclease in Complex with Substrate Dna

Protein crystallography data

The structure of Restriction Endonuclease in Complex with Substrate Dna, PDB code: 3ndh was solved by M.Firczuk, M.Wojciechowski, H.Czapinska, M.Bochtler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.51 / 1.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 39.310, 72.910, 88.760, 90.00, 101.99, 90.00
R / Rfree (%) 17.2 / 18.3

Other elements in 3ndh:

The structure of Restriction Endonuclease in Complex with Substrate Dna also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Restriction Endonuclease in Complex with Substrate Dna (pdb code 3ndh). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Restriction Endonuclease in Complex with Substrate Dna, PDB code: 3ndh:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 3ndh

Go back to Chlorine Binding Sites List in 3ndh
Chlorine binding site 1 out of 2 in the Restriction Endonuclease in Complex with Substrate Dna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Restriction Endonuclease in Complex with Substrate Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl218

b:45.9
occ:1.00
O A:HOH248 3.1 19.0 1.0
O A:HOH338 3.2 22.4 1.0
CD2 A:LEU105 3.4 18.3 1.0
CD2 A:LEU127 3.7 16.2 1.0
CD A:LYS93 4.3 20.6 1.0
CE A:LYS93 4.3 19.1 1.0
OE1 A:GLN148 4.3 16.7 1.0
O A:HOH293 4.4 18.1 1.0
CD1 A:ILE175 4.5 17.7 1.0
CD1 A:LEU127 4.6 15.9 1.0
O A:HOH335 4.7 25.8 1.0
CG A:LEU127 4.7 14.4 1.0
CD1 A:ILE183 4.8 17.3 1.0
CG A:LEU105 4.9 15.7 1.0

Chlorine binding site 2 out of 2 in 3ndh

Go back to Chlorine Binding Sites List in 3ndh
Chlorine binding site 2 out of 2 in the Restriction Endonuclease in Complex with Substrate Dna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Restriction Endonuclease in Complex with Substrate Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl218

b:46.0
occ:1.00
O B:HOH282 3.1 21.9 1.0
CD2 B:LEU105 3.3 18.8 1.0
O B:HOH357 3.3 29.2 1.0
CD2 B:LEU127 3.7 17.6 1.0
O B:HOH344 4.3 23.9 1.0
OE1 B:GLN148 4.4 18.5 1.0
CE B:LYS93 4.4 19.5 1.0
CD1 B:ILE175 4.4 21.2 1.0
CD B:LYS93 4.5 19.2 1.0
O B:HOH360 4.6 32.5 1.0
CD1 B:LEU127 4.7 16.2 1.0
CG B:LEU105 4.7 15.2 1.0
CD1 B:ILE183 4.7 19.7 1.0
CG B:LEU127 4.8 16.1 1.0
CB B:ILE175 5.0 19.5 1.0

Reference:

M.Firczuk, M.Wojciechowski, H.Czapinska, M.Bochtler. Dna Intercalation Without Flipping in the Specific Thai-Dna Complex Nucleic Acids Res. V. 39 744 2011.
ISSN: ISSN 0305-1048
PubMed: 20861000
DOI: 10.1093/NAR/GKQ834
Page generated: Sat Dec 12 09:57:27 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