Atomistry » Chlorine » PDB 5oeh-5on5 » 5ohf
Atomistry »
  Chlorine »
    PDB 5oeh-5on5 »
      5ohf »

Chlorine in PDB 5ohf: Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced

Enzymatic activity of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced

All present enzymatic activity of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced:
2.7.13.3;

Protein crystallography data

The structure of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced, PDB code: 5ohf was solved by T.Skalova, P.Kolenko, J.Dohnalek, M.Stranava, M.Martinkova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.17 / 1.80
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.685, 77.685, 441.238, 90.00, 90.00, 90.00
R / Rfree (%) 19 / 23.9

Other elements in 5ohf:

The structure of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced also contains other interesting chemical elements:

Iron (Fe) 9 atoms
Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced (pdb code 5ohf). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced, PDB code: 5ohf:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 5ohf

Go back to Chlorine Binding Sites List in 5ohf
Chlorine binding site 1 out of 5 in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:27.4
occ:1.00
 O B:HOH377 3.3 27.3 1.0
O A:HOH364 3.5 23.1 1.0
NH1 A:ARG139 3.5 29.2 1.0
NH1 B:ARG139 3.5 26.1 1.0
CD A:ARG139 3.6 26.5 1.0
CD B:ARG139 3.7 26.0 1.0
CD2 A:LEU135 4.0 25.8 1.0
CD2 B:LEU135 4.0 23.2 1.0
CD2 B:TYR125 4.2 26.7 1.0
CD2 A:TYR125 4.3 24.0 1.0
CZ A:ARG139 4.3 27.4 1.0
NE A:ARG139 4.3 26.8 1.0
CZ B:ARG139 4.4 25.9 1.0
NE B:ARG139 4.4 25.3 1.0
CD1 B:LEU135 4.5 22.5 1.0
CG A:LEU135 4.5 24.6 1.0
CG B:LEU135 4.5 22.5 1.0
CD1 A:LEU135 4.6 25.2 1.0
CG A:ARG139 4.7 25.1 1.0
CB A:TYR125 4.8 23.7 1.0
CB B:TYR125 4.8 26.2 1.0
CG B:ARG139 4.8 26.0 1.0
CG B:TYR125 5.0 26.5 1.0
CG A:TYR125 5.0 23.7 1.0

Chlorine binding site 2 out of 5 in 5ohf

Go back to Chlorine Binding Sites List in 5ohf
Chlorine binding site 2 out of 5 in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl202

b:32.2
occ:1.00
 O C:HOH363 3.3 30.0 1.0
NH1 C:ARG139 3.3 26.4 1.0
O D:HOH375 3.4 24.4 1.0
NH1 D:ARG139 3.4 28.0 1.0
CD D:ARG139 3.7 26.4 1.0
CD C:ARG139 3.8 26.5 1.0
CD2 D:LEU135 4.0 23.9 1.0
CD2 C:LEU135 4.2 24.1 1.0
CD1 D:TYR125 4.2 24.6 1.0
CD1 C:TYR125 4.3 26.7 1.0
CZ C:ARG139 4.3 27.7 1.0
CZ D:ARG139 4.3 28.4 1.0
NE D:ARG139 4.4 26.6 1.0
NE C:ARG139 4.4 25.1 1.0
CD1 C:LEU135 4.5 24.5 1.0
CG C:LEU135 4.5 23.9 1.0
CG D:LEU135 4.5 24.4 1.0
CD1 D:LEU135 4.6 24.4 1.0
CG D:ARG139 4.7 26.8 1.0
CB D:TYR125 4.8 23.2 1.0
CB C:TYR125 4.8 26.0 1.0
CG C:ARG139 4.8 25.5 1.0
CG C:TYR125 5.0 27.3 1.0
CG D:TYR125 5.0 24.1 1.0

Chlorine binding site 3 out of 5 in 5ohf

Go back to Chlorine Binding Sites List in 5ohf
Chlorine binding site 3 out of 5 in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl202

b:47.1
occ:1.00
 O F:HOH411 2.9 32.2 1.0
NE D:ARG55 3.0 29.9 1.0
NH2 D:ARG55 3.0 33.3 1.0
O F:HOH430 3.2 38.6 1.0
O F:HOH347 3.2 24.1 1.0
CZ D:ARG55 3.4 29.3 1.0
NH1 F:ARG39 3.8 23.3 1.0
O F:HOH348 3.9 46.0 1.0
O D:GLU52 3.9 41.2 1.0
NH1 F:ARG122 4.1 36.1 1.0
CD D:ARG55 4.1 28.5 1.0
CG F:ARG122 4.1 26.8 1.0
NH2 F:ARG39 4.2 22.5 1.0
CZ F:ARG39 4.2 23.4 1.0
CG D:ARG55 4.3 27.6 1.0
CG D:GLU52 4.6 42.2 1.0
O F:HOH397 4.6 28.5 1.0
CZ F:ARG122 4.7 35.8 1.0
CG2 D:THR56 4.7 32.5 1.0
NH1 D:ARG55 4.8 32.6 1.0
C D:GLU52 4.8 35.4 1.0
O F:HOH336 4.8 43.8 1.0
CA D:GLU52 4.8 34.1 1.0
CB F:ARG122 4.9 23.3 1.0

Chlorine binding site 4 out of 5 in 5ohf

Go back to Chlorine Binding Sites List in 5ohf
Chlorine binding site 4 out of 5 in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl203

b:23.5
occ:1.00
 O F:HOH378 3.3 24.2 1.0
O E:HOH378 3.3 21.9 1.0
NH1 E:ARG139 3.3 22.1 1.0
NH1 F:ARG139 3.5 23.9 1.0
CD F:ARG139 3.6 23.0 1.0
CD E:ARG139 3.7 21.1 1.0
CD2 F:LEU135 4.1 24.1 1.0
CD1 F:TYR125 4.2 25.9 1.0
CZ E:ARG139 4.2 22.1 1.0
CD1 E:TYR125 4.3 26.8 1.0
CD2 E:LEU135 4.3 23.5 1.0
CZ F:ARG139 4.3 24.1 1.0
NE F:ARG139 4.3 23.6 1.0
NE E:ARG139 4.4 21.2 1.0
CB F:TYR125 4.4 23.4 1.0
CG F:LEU135 4.6 23.9 1.0
CD1 F:LEU135 4.6 23.8 1.0
CB E:TYR125 4.6 24.4 1.0
CG F:ARG139 4.7 23.8 1.0
CG E:LEU135 4.7 22.4 1.0
CD1 E:LEU135 4.8 22.9 1.0
CG F:TYR125 4.8 24.8 1.0
CG E:ARG139 4.8 20.7 1.0
CG E:TYR125 4.9 25.8 1.0
O F:HOH440 4.9 28.7 1.0

Chlorine binding site 5 out of 5 in 5ohf

Go back to Chlorine Binding Sites List in 5ohf
Chlorine binding site 5 out of 5 in the Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Globin Sensor Domain of Afgchk (Feiii Form) in Complex with Cyanide, Partially Reduced within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Cl202

b:33.5
occ:1.00
 NH1 G:ARG139 3.3 30.9 1.0
O H:HOH370 3.4 23.7 1.0
O G:HOH340 3.4 38.1 1.0
NH1 H:ARG139 3.4 33.1 1.0
CD G:ARG139 3.7 30.6 1.0
CD H:ARG139 3.8 32.2 1.0
CD2 G:LEU135 4.1 29.4 1.0
CD2 H:LEU135 4.2 32.5 1.0
CD1 G:TYR125 4.2 33.2 1.0
CD1 H:TYR125 4.2 28.7 1.0
CZ G:ARG139 4.2 30.9 1.0
NE G:ARG139 4.3 31.1 1.0
CZ H:ARG139 4.4 32.3 1.0
NE H:ARG139 4.5 32.5 1.0
CD1 H:LEU135 4.5 32.5 1.0
CD1 G:LEU135 4.5 31.6 1.0
CG H:LEU135 4.6 32.9 1.0
CG G:LEU135 4.6 29.5 1.0
CB H:TYR125 4.7 26.4 1.0
CB G:TYR125 4.8 35.4 1.0
CG G:ARG139 4.8 30.9 1.0
CG H:ARG139 4.8 31.3 1.0
CG H:TYR125 4.9 26.9 1.0
CG G:TYR125 4.9 33.3 1.0
CE1 G:TYR125 5.0 32.4 1.0

Reference:

M.Stranava, P.Man, T.Skalova, P.Kolenko, J.Blaha, V.Fojtikova, V.Martinek, J.Dohnalek, A.Lengalova, M.Rosulek, T.Shimizu, M.Martinkova. Coordination and Redox State-Dependent Structural Changes of the Heme-Based Oxygen Sensor Afgchk Associated with Intraprotein Signal Transduction. J. Biol. Chem. V. 292 20921 2017.
ISSN: ESSN 1083-351X
PubMed: 29092908
DOI: 10.1074/JBC.M117.817023
Page generated: Sat Dec 12 12:12:26 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