Atomistry » Potassium » PDB 1m5h-1o07 » 1n7b
Atomistry »
  Potassium »
    PDB 1m5h-1o07 »
      1n7b »

Potassium in PDB 1n7b: Rip-Radiation-Damage Induced Phasing

Protein crystallography data

The structure of Rip-Radiation-Damage Induced Phasing, PDB code: 1n7b was solved by R.B.G.Ravelli, H.-K.S.Leiros, B.Pan, M.Caffrey, S.Mcsweeney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 31.247, 51.154, 70.834, 90.00, 90.00, 90.00
R / Rfree (%) 15.2 / 19.9

Other elements in 1n7b:

The structure of Rip-Radiation-Damage Induced Phasing also contains other interesting chemical elements:

Bromine (Br) 8 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Rip-Radiation-Damage Induced Phasing (pdb code 1n7b). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 9 binding sites of Potassium where determined in the Rip-Radiation-Damage Induced Phasing, PDB code: 1n7b:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Potassium binding site 1 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 1 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K103

b:4.0
occ:0.80
 O4 H:U6 2.7 8.1 1.0
O4 D:U6 2.7 8.6 1.0
O4 C:U6 2.8 6.3 1.0
O4 A:U6 2.8 5.2 1.0
O6 H:G5 2.8 4.8 1.0
O6 A:G5 2.8 4.1 1.0
O6 D:G5 2.9 4.4 1.0
O6 C:G5 2.9 4.6 1.0
K A:K104 3.5 5.1 0.8
C6 D:G5 3.6 5.2 1.0
C6 H:G5 3.6 5.5 1.0
C6 A:G5 3.7 3.4 1.0
C4 D:U6 3.7 9.8 1.0
C4 H:U6 3.7 8.7 1.0
C6 C:G5 3.7 4.8 1.0
C4 A:U6 3.7 5.8 1.0
C4 C:U6 3.7 5.5 1.0
N1 H:G5 3.9 5.8 1.0
N3 A:U6 3.9 6.3 1.0
N3 D:U6 3.9 10.2 1.0
N1 A:G5 3.9 3.4 1.0
N3 H:U6 3.9 8.0 1.0
N1 C:G5 3.9 4.8 1.0
N3 C:U6 3.9 5.7 1.0
N1 D:G5 4.0 4.8 1.0
C5 D:G5 4.8 5.5 1.0
C5 A:G5 4.8 3.6 1.0
C5 H:G5 4.8 6.0 1.0
C5 C:G5 4.8 4.9 1.0
C5 D:U6 5.0 10.5 1.0

Potassium binding site 2 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 2 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K104

b:5.1
occ:0.80
 O6 D:G4 2.7 4.8 1.0
O6 A:G4 2.7 3.7 1.0
O6 H:G4 2.7 4.0 1.0
O6 C:G4 2.8 3.7 1.0
O6 C:G5 2.8 4.6 1.0
O6 A:G5 2.8 4.1 1.0
O6 H:G5 2.9 4.8 1.0
O6 D:G5 2.9 4.4 1.0
K A:K109 3.4 13.2 0.8
K A:K103 3.5 4.0 0.8
C6 D:G4 3.6 4.5 1.0
C6 C:G4 3.6 3.4 1.0
C6 H:G4 3.6 4.1 1.0
C6 A:G4 3.6 4.1 1.0
C6 C:G5 3.8 4.8 1.0
C6 A:G5 3.8 3.4 1.0
C6 H:G5 3.8 5.5 1.0
N1 D:G4 3.8 4.0 1.0
N1 A:G4 3.8 4.0 1.0
C6 D:G5 3.8 5.2 1.0
N1 C:G4 3.8 3.3 1.0
N1 H:G4 3.9 4.6 1.0
N1 C:G5 4.0 4.8 1.0
N1 A:G5 4.1 3.4 1.0
N1 H:G5 4.1 5.8 1.0
N1 D:G5 4.1 4.8 1.0
C5 C:G4 4.9 4.2 1.0
C5 D:G4 4.9 4.0 1.0
C5 H:G4 4.9 4.3 1.0
C5 A:G4 4.9 3.3 1.0

Potassium binding site 3 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 3 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K105

b:8.2
occ:0.80
 O6 C:BGM2 2.8 3.4 1.0
O6 G:BGM2 2.8 4.0 1.0
O6 F:BGM2 2.9 3.2 1.0
O6 H:BGM2 2.9 3.1 1.0
O6 A:BGM2 2.9 4.6 1.0
O6 B:BGM2 2.9 3.5 1.0
O6 E:BGM2 2.9 3.7 1.0
O6 D:BGM2 2.9 3.3 1.0
K A:K108 3.6 10.2 0.8
K E:K106 3.6 11.4 0.8
C6 C:BGM2 3.7 3.9 1.0
C6 G:BGM2 3.7 3.9 1.0
C6 H:BGM2 3.7 3.4 1.0
C6 F:BGM2 3.7 3.3 1.0
C6 B:BGM2 3.7 3.4 1.0
C6 A:BGM2 3.8 4.4 1.0
C6 E:BGM2 3.8 3.8 1.0
C6 D:BGM2 3.8 3.7 1.0
N1 C:BGM2 4.0 4.0 1.0
N1 F:BGM2 4.0 3.4 1.0
N1 H:BGM2 4.0 3.8 1.0
N1 G:BGM2 4.0 3.8 1.0
N1 A:BGM2 4.0 3.0 1.0
N1 B:BGM2 4.0 3.5 1.0
N1 D:BGM2 4.1 4.0 1.0
N1 E:BGM2 4.1 3.0 1.0
C5 C:BGM2 4.9 3.1 1.0
C5 B:BGM2 4.9 3.3 1.0
C5 G:BGM2 4.9 3.3 1.0
C5 H:BGM2 4.9 4.0 1.0
C5 A:BGM2 4.9 4.3 1.0
C5 F:BGM2 4.9 4.2 1.0
C5 D:BGM2 5.0 3.5 1.0

Potassium binding site 4 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 4 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K108

b:10.2
occ:0.80
 K A:K109 2.8 13.2 0.8
O6 A:BGM2 2.9 4.6 1.0
O6 D:BGM2 2.9 3.3 1.0
O6 C:BGM2 2.9 3.4 1.0
O6 H:BGM2 3.0 3.1 1.0
N1 C:A3 3.4 3.6 1.0
N1 A:A3 3.4 3.9 1.0
N1 H:A3 3.4 3.3 1.0
N1 D:A3 3.5 3.2 1.0
C2 A:A3 3.5 4.5 1.0
C2 C:A3 3.5 3.7 1.0
C2 D:A3 3.5 2.7 1.0
C2 H:A3 3.5 4.1 1.0
K A:K105 3.6 8.2 0.8
C6 D:BGM2 3.8 3.7 1.0
C6 A:BGM2 3.8 4.4 1.0
C6 H:BGM2 3.8 3.4 1.0
C6 C:BGM2 3.8 3.9 1.0
N1 H:BGM2 4.0 3.8 1.0
N1 A:BGM2 4.1 3.0 1.0
N1 C:BGM2 4.1 4.0 1.0
N1 D:BGM2 4.1 4.0 1.0
C6 C:A3 4.6 4.4 1.0
C6 A:A3 4.7 4.0 1.0
C6 H:A3 4.7 4.1 1.0
N3 A:A3 4.7 3.7 1.0
N3 C:A3 4.7 4.4 1.0
C6 D:A3 4.7 3.9 1.0
N3 H:A3 4.7 4.3 1.0
N3 D:A3 4.7 3.5 1.0
C5 D:BGM2 5.0 3.5 1.0
C5 C:BGM2 5.0 3.1 1.0
C5 H:BGM2 5.0 4.0 1.0
C5 A:BGM2 5.0 4.3 1.0

Potassium binding site 5 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 5 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K109

b:13.2
occ:0.80
 K A:K108 2.8 10.2 0.8
O6 H:G4 3.1 4.0 1.0
O6 D:G4 3.1 4.8 1.0
O6 C:G4 3.1 3.7 1.0
O6 A:G4 3.1 3.7 1.0
C2 A:A3 3.4 4.5 1.0
C2 C:A3 3.4 3.7 1.0
C2 D:A3 3.4 2.7 1.0
N1 A:A3 3.4 3.9 1.0
C2 H:A3 3.4 4.1 1.0
N1 C:A3 3.4 3.6 1.0
N1 D:A3 3.4 3.2 1.0
N1 H:A3 3.4 3.3 1.0
K A:K104 3.4 5.1 0.8
C6 C:G4 3.9 3.4 1.0
C6 D:G4 3.9 4.5 1.0
C6 H:G4 3.9 4.1 1.0
C6 A:G4 4.0 4.1 1.0
N1 C:G4 4.2 3.3 1.0
N1 H:G4 4.2 4.6 1.0
N1 D:G4 4.2 4.0 1.0
N1 A:G4 4.2 4.0 1.0
N3 A:A3 4.5 3.7 1.0
N3 C:A3 4.5 4.4 1.0
N3 D:A3 4.5 3.5 1.0
N3 H:A3 4.5 4.3 1.0
C6 C:A3 4.6 4.4 1.0
C6 A:A3 4.6 4.0 1.0
C6 D:A3 4.7 3.9 1.0
C6 H:A3 4.7 4.1 1.0

Potassium binding site 6 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 6 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K101

b:2.5
occ:0.80
 O4 F:U6 2.7 3.2 1.0
O4 B:U6 2.7 4.1 1.0
O4 G:U6 2.7 3.8 1.0
O4 E:U6 2.7 3.3 1.0
O6 E:G5 2.8 3.2 1.0
O6 B:G5 2.8 3.0 1.0
O6 G:G5 2.9 3.2 1.0
O6 F:G5 2.9 3.0 1.0
K B:K102 3.4 3.3 0.8
C6 E:G5 3.6 2.5 1.0
C6 F:G5 3.6 2.4 1.0
C6 G:G5 3.7 2.9 1.0
C4 F:U6 3.7 3.4 1.0
C4 G:U6 3.7 4.1 1.0
C6 B:G5 3.7 2.5 1.0
C4 B:U6 3.7 3.7 1.0
C4 E:U6 3.7 3.3 1.0
N3 G:U6 3.9 4.3 1.0
N1 E:G5 3.9 3.1 1.0
N3 E:U6 3.9 4.3 1.0
N3 F:U6 3.9 3.2 1.0
N1 F:G5 3.9 3.8 1.0
N1 B:G5 4.0 2.9 1.0
N3 B:U6 4.0 5.1 1.0
N1 G:G5 4.0 3.1 1.0
C5 E:G5 4.8 2.6 1.0
C5 F:G5 4.8 3.3 1.0
C5 G:G5 4.8 3.0 1.0
C5 B:G5 4.9 3.4 1.0

Potassium binding site 7 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 7 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K102

b:3.3
occ:0.80
 O6 G:G4 2.8 3.1 1.0
O6 B:G4 2.8 3.6 1.0
O6 F:G4 2.8 2.7 1.0
O6 E:G4 2.8 2.8 1.0
O6 G:G5 2.8 3.2 1.0
O6 F:G5 2.8 3.0 1.0
O6 B:G5 2.8 3.0 1.0
O6 E:G5 2.9 3.2 1.0
K B:K101 3.4 2.5 0.8
K B:K107 3.4 11.0 0.8
C6 B:G4 3.6 3.1 1.0
C6 F:G4 3.6 2.7 1.0
C6 G:G4 3.6 3.1 1.0
C6 E:G4 3.6 2.7 1.0
C6 G:G5 3.7 2.9 1.0
C6 F:G5 3.8 2.4 1.0
N1 E:G4 3.8 2.4 1.0
N1 F:G4 3.8 3.1 1.0
C6 B:G5 3.8 2.5 1.0
N1 G:G4 3.8 3.4 1.0
N1 B:G4 3.8 3.4 1.0
C6 E:G5 3.8 2.5 1.0
N1 F:G5 4.0 3.8 1.0
N1 G:G5 4.1 3.1 1.0
N1 B:G5 4.1 2.9 1.0
N1 E:G5 4.1 3.1 1.0
C5 F:G4 4.9 2.8 1.0
C5 B:G4 4.9 2.8 1.0
C5 E:G4 4.9 3.1 1.0
C5 G:G4 4.9 2.2 1.0
C5 G:G5 5.0 3.0 1.0

Potassium binding site 8 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 8 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K107

b:11.0
occ:0.80
 K E:K106 2.8 11.4 0.8
O6 F:G4 3.0 2.7 1.0
O6 G:G4 3.1 3.1 1.0
O6 E:G4 3.1 2.8 1.0
O6 B:G4 3.1 3.6 1.0
C2 F:A3 3.4 3.3 1.0
C2 G:A3 3.4 2.3 1.0
N1 G:A3 3.4 3.3 1.0
C2 B:A3 3.4 3.0 1.0
C2 E:A3 3.4 3.0 1.0
N1 B:A3 3.4 2.7 1.0
N1 F:A3 3.4 2.6 1.0
K B:K102 3.4 3.3 0.8
N1 E:A3 3.5 2.9 1.0
C6 G:G4 3.9 3.1 1.0
C6 F:G4 3.9 2.7 1.0
C6 B:G4 3.9 3.1 1.0
C6 E:G4 3.9 2.7 1.0
N1 F:G4 4.1 3.1 1.0
N1 G:G4 4.1 3.4 1.0
N1 E:G4 4.2 2.4 1.0
N1 B:G4 4.2 3.4 1.0
N3 G:A3 4.5 3.5 1.0
N3 F:A3 4.5 2.9 1.0
N3 B:A3 4.5 4.3 1.0
N3 E:A3 4.6 3.1 1.0
C6 G:A3 4.6 2.9 1.0
C6 B:A3 4.6 2.6 1.0
C6 F:A3 4.7 2.8 1.0
C6 E:A3 4.7 3.5 1.0

Potassium binding site 9 out of 9 in 1n7b

Go back to Potassium Binding Sites List in 1n7b
Potassium binding site 9 out of 9 in the Rip-Radiation-Damage Induced Phasing


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Rip-Radiation-Damage Induced Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K106

b:11.4
occ:0.80
 K B:K107 2.8 11.0 0.8
O6 G:BGM2 2.9 4.0 1.0
O6 F:BGM2 2.9 3.2 1.0
O6 E:BGM2 3.0 3.7 1.0
O6 B:BGM2 3.0 3.5 1.0
N1 F:A3 3.4 2.6 1.0
N1 E:A3 3.4 2.9 1.0
N1 G:A3 3.5 3.3 1.0
C2 E:A3 3.5 3.0 1.0
N1 B:A3 3.5 2.7 1.0
C2 F:A3 3.5 3.3 1.0
C2 B:A3 3.5 3.0 1.0
C2 G:A3 3.6 2.3 1.0
K A:K105 3.6 8.2 0.8
C6 F:BGM2 3.8 3.3 1.0
C6 G:BGM2 3.8 3.9 1.0
C6 B:BGM2 3.8 3.4 1.0
C6 E:BGM2 3.8 3.8 1.0
N1 F:BGM2 4.0 3.4 1.0
N1 G:BGM2 4.1 3.8 1.0
N1 B:BGM2 4.1 3.5 1.0
N1 E:BGM2 4.1 3.0 1.0
C6 E:A3 4.6 3.5 1.0
C6 F:A3 4.7 2.8 1.0
N3 E:A3 4.7 3.1 1.0
C6 G:A3 4.7 2.9 1.0
N3 B:A3 4.7 4.3 1.0
C6 B:A3 4.7 2.6 1.0
N3 F:A3 4.7 2.9 1.0
N3 G:A3 4.7 3.5 1.0
C5 F:BGM2 5.0 4.2 1.0
C5 G:BGM2 5.0 3.3 1.0

Reference:

R.B.G.Ravelli, H.-K.S.Leiros, B.Pan, M.Caffrey, S.Mcsweeney. Specific Radiation-Damage Can Be Used to Solve Macromolecular Crystal Structures Structure V. 11 217 2003.
ISSN: ISSN 0969-2126
PubMed: 12575941
DOI: 10.1016/S0969-2126(03)00006-6
Page generated: Mon Aug 12 05:00:29 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