Atomistry » Chlorine » PDB 6nkr-6nv6 » 6nku
Atomistry »
  Chlorine »
    PDB 6nkr-6nv6 »
      6nku »

Chlorine in PDB 6nku: Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp

Enzymatic activity of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp

All present enzymatic activity of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp:
2.7.7.7;

Protein crystallography data

The structure of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp, PDB code: 6nku was solved by V.K.Batra, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.29 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 50.630, 79.764, 55.378, 90.00, 107.69, 90.00
R / Rfree (%) 17.4 / 21.1

Other elements in 6nku:

The structure of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Sodium (Na) 3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp (pdb code 6nku). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp, PDB code: 6nku:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 6nku

Go back to Chlorine Binding Sites List in 6nku
Chlorine binding site 1 out of 4 in the Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl403

b:34.6
occ:1.00
 O A:HOH568 3.0 28.1 1.0
N A:CYS267 3.2 21.2 1.0
N A:TYR266 3.5 22.3 1.0
CG1 A:VAL313 3.5 26.0 1.0
CA A:GLN264 3.6 22.6 1.0
C A:GLN264 3.6 25.2 1.0
CB A:TYR266 3.7 23.6 1.0
O A:GLN264 3.8 24.9 1.0
CB A:VAL313 3.8 27.4 1.0
SG A:CYS267 3.8 25.4 1.0
CA A:TYR266 3.9 23.8 1.0
O A:HOH646 3.9 38.3 1.0
O A:ASP263 3.9 29.4 1.0
CB A:CYS267 3.9 22.6 1.0
C A:TYR266 4.0 22.5 1.0
N A:TYR265 4.1 24.4 1.0
CA A:CYS267 4.1 21.6 1.0
CD2 A:TYR266 4.4 33.0 1.0
C A:TYR265 4.4 25.5 1.0
CB A:GLN264 4.4 26.8 1.0
O A:VAL313 4.5 37.3 1.0
O A:TYR296 4.5 24.7 1.0
CG A:TYR266 4.5 29.4 1.0
N A:GLN264 4.6 23.1 1.0
CG2 A:VAL313 4.6 25.6 1.0
C A:ASP263 4.7 29.3 1.0
CA A:TYR265 4.9 28.1 1.0
CG A:GLN264 4.9 26.3 1.0
C A:VAL313 4.9 35.3 1.0
CA A:VAL313 5.0 31.7 1.0

Chlorine binding site 2 out of 4 in 6nku

Go back to Chlorine Binding Sites List in 6nku
Chlorine binding site 2 out of 4 in the Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl404

b:37.5
occ:1.00
 N A:HIS34 3.3 28.9 1.0
O A:HOH791 3.3 46.0 1.0
C A:ALA32 3.5 25.4 1.0
CB A:HIS34 3.5 32.4 1.0
CA A:ALA32 3.6 30.0 1.0
N A:LYS35 3.6 26.2 1.0
N A:ILE33 3.6 26.4 1.0
CB A:ALA32 3.7 27.0 1.0
CD2 A:HIS34 3.8 32.5 1.0
CA A:HIS34 3.8 32.4 1.0
O A:ALA32 3.9 27.6 1.0
CG A:HIS34 4.0 33.9 1.0
CG A:LYS35 4.2 28.3 1.0
C A:HIS34 4.2 28.6 1.0
C A:ILE33 4.3 27.9 1.0
CA A:ILE33 4.6 31.8 1.0
CB A:LYS35 4.6 25.2 1.0
O A:HOH630 4.6 34.3 1.0
O4 D:DT1 4.6 32.3 1.0
CA A:LYS35 4.7 26.5 1.0
O A:HOH780 4.9 55.5 1.0
C7 D:DT1 4.9 27.4 1.0
C4 D:DT1 5.0 31.3 1.0
CD A:LYS35 5.0 26.5 1.0

Chlorine binding site 3 out of 4 in 6nku

Go back to Chlorine Binding Sites List in 6nku
Chlorine binding site 3 out of 4 in the Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl405

b:54.1
occ:1.00
 NH1 A:ARG89 3.1 50.8 1.0
N A:LEU82 3.3 28.6 1.0
NH2 A:ARG89 3.6 52.4 1.0
O A:HOH766 3.7 38.4 1.0
CZ A:ARG89 3.8 49.2 1.0
CA A:LYS81 3.8 32.9 1.0
C A:LYS81 4.0 35.6 1.0
O A:LEU82 4.0 29.6 1.0
CB A:LEU85 4.0 32.9 1.0
CA A:LEU82 4.2 31.6 1.0
CB A:LEU82 4.3 31.2 1.0
CD1 A:LEU85 4.3 30.6 1.0
CB A:LYS81 4.3 41.1 1.0
CG A:LYS81 4.5 40.4 1.0
C A:LEU82 4.5 36.0 1.0
CG A:GLU86 4.6 47.3 1.0
CG A:LEU85 4.8 31.3 1.0
N A:GLU86 4.9 33.3 1.0
O A:GLY80 4.9 33.9 1.0

Chlorine binding site 4 out of 4 in 6nku

Go back to Chlorine Binding Sites List in 6nku
Chlorine binding site 4 out of 4 in the Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot- Spot Sequence" with Dgtp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl406

b:35.1
occ:1.00
 NH2 A:ARG299 2.9 24.0 0.5
O A:HOH724 3.1 35.8 1.0
OG1 A:THR297 3.2 27.7 1.0
NE A:ARG299 3.3 31.4 0.5
ND2 A:ASN294 3.3 24.9 1.0
O A:HOH812 3.5 41.6 1.0
CZ A:ARG299 3.5 30.1 0.5
CG2 A:THR297 3.8 24.2 1.0
CB A:TYR296 3.9 25.8 1.0
OD1 A:ASN294 4.0 24.5 1.0
CB A:THR297 4.1 27.2 1.0
CG A:ASN294 4.1 24.7 1.0
CD2 A:TYR296 4.2 23.5 1.0
CZ A:ARG299 4.2 30.3 0.5
NE A:ARG299 4.2 29.2 0.5
NH2 A:ARG299 4.4 25.4 0.5
CG A:TYR296 4.5 25.4 1.0
NH1 A:ARG299 4.5 29.2 0.5
CD A:ARG299 4.6 29.3 0.5
N A:THR297 4.7 27.1 1.0
CD A:ARG299 4.7 29.6 0.5
NH1 A:ARG299 4.8 30.6 0.5
O T:HOH232 4.8 36.9 1.0
O A:HOH628 4.8 24.7 1.0

Reference:

V.K.Batra, S.H.Wilson. Ternary Complex Crystal Structure of Dna Polymerase Beta with "Hot-Spot Sequence" with Dgtp To Be Published.
Page generated: Mon Jul 29 12:06:20 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy