Atomistry » Chlorine » PDB 6dov-6dy0 » 6dow
Atomistry »
  Chlorine »
    PDB 6dov-6dy0 »
      6dow »

Chlorine in PDB 6dow: Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C

Enzymatic activity of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C

All present enzymatic activity of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C:
3.1.26.4;

Protein crystallography data

The structure of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C, PDB code: 6dow was solved by N.L.Samara, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.40 / 1.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 82.035, 37.485, 62.504, 90.00, 96.84, 90.00
R / Rfree (%) 16.4 / 19.8

Other elements in 6dow:

The structure of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C also contains other interesting chemical elements:

Rubidium (Rb) 5 atoms
Magnesium (Mg) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C (pdb code 6dow). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C, PDB code: 6dow:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 6dow

Go back to Chlorine Binding Sites List in 6dow
Chlorine binding site 1 out of 3 in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl206

b:32.4
occ:0.75
 HH A:TYR83 2.3 34.2 1.0
HD22 A:LEU111 2.9 31.1 1.0
HB3 A:LEU111 3.1 25.3 1.0
OH A:TYR83 3.1 28.5 1.0
HD22 A:LEU161 3.2 34.1 1.0
O A:HOH371 3.2 31.6 1.0
HD13 A:LEU111 3.2 28.6 1.0
HB3 A:LEU161 3.2 27.7 1.0
HE2 A:TYR83 3.3 32.7 1.0
O A:HOH363 3.3 27.2 1.0
O A:HOH348 3.3 40.2 1.0
C3 A:GOL211 3.4 54.3 1.0
HD13 A:LEU161 3.4 33.1 1.0
CD2 A:LEU111 3.8 25.9 1.0
HD3 A:ARG97 3.9 38.0 1.0
CE2 A:TYR83 4.0 27.3 1.0
CB A:LEU111 4.0 21.1 1.0
CZ A:TYR83 4.0 24.5 1.0
CD1 A:LEU111 4.0 23.8 1.0
CD2 A:LEU161 4.1 28.4 1.0
CG A:LEU111 4.1 23.4 1.0
CB A:LEU161 4.2 23.1 1.0
O3 A:GOL211 4.2 39.4 1.0
CD1 A:LEU161 4.3 27.6 1.0
HD21 A:LEU111 4.3 31.1 1.0
HD23 A:LEU111 4.3 31.1 1.0
CG A:LEU161 4.4 27.1 1.0
HH11 A:ARG97 4.4 48.8 1.0
HB2 A:HIS115 4.5 23.7 1.0
O A:HOH387 4.5 28.4 1.0
HD11 A:LEU111 4.5 28.6 1.0
C2 A:GOL211 4.5 74.1 1.0
HB2 A:LEU111 4.6 25.3 1.0
HD23 A:LEU161 4.6 34.1 1.0
HD21 A:LEU161 4.6 34.1 1.0
HD12 A:LEU111 4.6 28.6 1.0
HB2 A:LEU161 4.6 27.7 1.0
HA A:LEU111 4.7 26.0 1.0
O A:HOH411 4.7 44.6 1.0
HG2 A:ARG97 4.8 30.5 1.0
HD11 A:LEU161 4.8 33.1 1.0
CD A:ARG97 4.8 31.6 1.0
O A:LEU111 4.9 20.2 1.0
HD12 A:LEU161 4.9 33.1 1.0
O A:HOH343 4.9 30.6 1.0
CA A:LEU111 4.9 21.7 1.0
HB2 A:ALA165 4.9 28.1 1.0
NH1 A:ARG97 4.9 40.7 1.0
O2 A:GOL211 4.9 77.5 1.0
HA A:LEU161 5.0 32.3 1.0

Chlorine binding site 2 out of 3 in 6dow

Go back to Chlorine Binding Sites List in 6dow
Chlorine binding site 2 out of 3 in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl207

b:41.3
occ:0.50
 O A:HOH436 2.6 44.3 1.0
O A:HOH354 2.6 32.1 1.0
HG21 A:ILE137 3.3 32.3 1.0
HA A:GLN134 3.3 29.2 1.0
HD12 A:ILE137 3.3 30.3 1.0
HG3 A:GLN134 3.3 47.7 1.0
HB2 A:LYS180 3.4 35.7 1.0
HD3 A:LYS180 3.5 42.6 1.0
HD13 A:ILE137 3.5 30.3 1.0
HB A:ILE137 3.5 25.9 1.0
O A:HOH427 3.7 67.3 1.0
CD1 A:ILE137 3.9 25.3 1.0
CG2 A:ILE137 3.9 26.9 1.0
HG22 A:ILE137 4.0 32.3 1.0
CB A:ILE137 4.2 21.6 1.0
CG A:GLN134 4.2 39.8 1.0
CA A:GLN134 4.2 24.3 1.0
CB A:LYS180 4.3 29.8 1.0
HG2 A:GLN134 4.3 47.7 1.0
CD A:LYS180 4.4 35.5 1.0
O A:HOH315 4.4 37.3 1.0
O A:HOH429 4.4 50.8 1.0
O A:GLN134 4.5 26.6 1.0
HG2 A:LYS180 4.5 40.9 1.0
O A:HOH412 4.6 37.6 1.0
CG1 A:ILE137 4.6 23.8 1.0
CB A:GLN134 4.6 26.4 1.0
CG A:LYS180 4.7 34.0 1.0
HD11 A:ILE137 4.7 30.3 1.0
HB3 A:LYS180 4.7 35.7 1.0
HB2 A:GLN134 4.8 31.7 1.0
HG23 A:ILE137 4.8 32.3 1.0
O A:HOH433 4.8 45.0 1.0
C A:GLN134 4.9 28.6 1.0
HD2 A:LYS180 4.9 42.6 1.0

Chlorine binding site 3 out of 3 in 6dow

Go back to Chlorine Binding Sites List in 6dow
Chlorine binding site 3 out of 3 in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 5 Mm MG2+ and 200 Mm Rb+ For 160 S at 21 C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl208

b:43.3
occ:0.70
 O A:HOH444 2.7 37.9 1.0
HD11 A:LEU179 3.1 30.1 1.0
HG3 A:PRO128 3.2 33.6 1.0
HB3 A:PRO128 3.2 28.1 1.0
HD21 A:LEU179 3.6 33.6 1.0
CG A:PRO177 3.7 29.4 1.0
CD1 A:ILE64 3.8 44.6 1.0
CB A:PRO177 3.8 25.9 1.0
CB A:PRO128 3.9 23.4 1.0
CG A:PRO128 3.9 28.0 1.0
CD1 A:LEU179 4.1 25.1 1.0
HB2 A:PRO128 4.3 28.1 1.0
O A:HOH445 4.3 55.3 0.8
HD3 A:PRO128 4.3 27.8 1.0
HD13 A:LEU179 4.4 30.1 1.0
CD2 A:LEU179 4.5 28.0 1.0
HD12 A:LEU179 4.6 30.1 1.0
HG2 A:PRO128 4.7 33.6 1.0
CG A:LEU179 4.7 24.7 1.0
HG A:LEU179 4.7 29.6 1.0
CD A:PRO128 4.7 23.1 1.0
HD22 A:LEU179 4.7 33.6 1.0
CD A:PRO177 4.8 25.5 1.0
O A:HOH437 5.0 42.5 1.0

Reference:

N.L.Samara, W.Yang. Cation Trafficking Propels Rna Hydrolysis. Nat. Struct. Mol. Biol. V. 25 715 2018.
ISSN: ESSN 1545-9985
PubMed: 30076410
DOI: 10.1038/S41594-018-0099-4
Page generated: Sat Jul 27 21:45:42 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy