Atomistry » Chlorine » PDB 3k9t-3khf » 3ka3
Atomistry »
  Chlorine »
    PDB 3k9t-3khf »
      3ka3 »

Chlorine in PDB 3ka3: Frog M-Ferritin with Magnesium

Enzymatic activity of Frog M-Ferritin with Magnesium

All present enzymatic activity of Frog M-Ferritin with Magnesium:
1.16.3.1;

Protein crystallography data

The structure of Frog M-Ferritin with Magnesium, PDB code: 3ka3 was solved by T.Tosha, H.L.Ng, E.Theil, T.Alber, O.Bhattasali, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.40
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.886, 183.886, 183.886, 90.00, 90.00, 90.00
R / Rfree (%) 13.6 / 15.9

Other elements in 3ka3:

The structure of Frog M-Ferritin with Magnesium also contains other interesting chemical elements:

Magnesium (Mg) 10 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Frog M-Ferritin with Magnesium (pdb code 3ka3). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the Frog M-Ferritin with Magnesium, PDB code: 3ka3:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 1 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl181

b:29.4
occ:1.00
 N A:SER10 3.1 11.5 1.0
O A:HOH230 3.2 39.4 1.0
O A:HOH276 3.3 43.2 1.0
O A:HOH484 3.6 30.8 1.0
CB A:SER10 3.7 14.3 1.0
CA A:HIS9 3.8 11.4 1.0
CG A:HIS9 3.8 11.4 1.0
CD2 A:HIS9 3.9 15.1 1.0
C A:HIS9 3.9 11.0 1.0
ND1 A:HIS9 4.0 12.4 1.0
CA A:SER10 4.0 11.6 1.0
CE1 A:HIS9 4.0 14.7 1.0
NE2 A:HIS9 4.0 16.4 1.0
O A:TYR8 4.3 11.9 1.0
CB A:HIS9 4.4 12.6 1.0
N A:HIS9 4.8 11.3 1.0
O A:HOH452 4.9 34.9 1.0
NH1 A:ARG5 5.0 13.3 1.0
O A:HOH247 5.0 35.9 1.0

Chlorine binding site 2 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 2 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl182

b:18.9
occ:1.00
 O A:HOH241 2.6 37.6 1.0
O A:HOH484 3.2 30.8 1.0
N A:TYR8 3.3 10.9 1.0
N A:ASN7 3.5 11.2 1.0
O A:TYR8 3.5 11.9 1.0
CD A:ARG5 3.5 11.9 1.0
NE A:ARG5 3.6 12.7 1.0
CG A:ARG5 3.6 11.9 1.0
O A:HOH382 3.8 22.5 1.0
C A:GLN6 3.9 10.4 1.0
CA A:GLN6 4.0 10.4 1.0
C A:TYR8 4.0 10.5 1.0
CA A:TYR8 4.1 10.7 1.0
N A:GLN6 4.1 11.0 1.0
CA A:ASN7 4.1 10.9 1.0
C A:ASN7 4.2 10.3 1.0
O A:HOH205 4.3 40.2 1.0
C A:ARG5 4.4 11.2 1.0
CB A:TYR8 4.4 11.0 1.0
CB A:ARG5 4.5 10.8 1.0
O A:ARG5 4.6 11.9 1.0
O A:GLN6 4.8 11.1 1.0
CZ A:ARG5 4.8 12.9 1.0

Chlorine binding site 3 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 3 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl184

b:25.4
occ:1.00
 O A:HOH281 2.7 36.9 1.0
N A:ASP87 3.1 12.5 1.0
N A:GLU88 3.7 12.5 1.0
CA A:ARG86 3.8 13.5 1.0
CB A:ARG86 3.8 13.5 1.0
C A:ARG86 3.9 11.7 1.0
CA A:ASP87 3.9 13.6 1.0
CB A:ASP87 4.0 15.0 1.0
O A:GLU88 4.1 14.6 1.0
CG A:GLU88 4.1 12.7 0.5
CG A:ARG86 4.3 16.4 1.0
C A:ASP87 4.3 13.2 1.0
CB A:GLU88 4.4 15.3 0.5
CA A:GLU88 4.5 13.3 0.5
CA A:GLU88 4.6 12.1 0.5
CG A:ASP87 4.6 15.6 1.0
NE A:ARG86 4.7 20.1 1.0
OD2 A:ASP87 4.7 23.2 1.0
OE2 A:GLU88 4.7 20.8 0.5
O A:HOH295 4.7 40.1 1.0
O A:HOH306 4.7 42.0 1.0
C A:GLU88 4.8 12.8 1.0
CB A:GLU88 4.8 12.6 0.5

Chlorine binding site 4 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 4 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl187

b:24.1
occ:1.00
 O A:HOH458 3.0 32.2 1.0
O A:HOH426 3.2 24.2 1.0
N A:GLU136 3.2 16.4 1.0
N A:TYR133 3.4 13.5 1.0
N A:GLU135 3.4 14.7 1.0
C A:GLU132 3.4 14.4 1.0
O A:SER131 3.5 18.5 1.0
CB A:GLU135 3.6 17.8 1.0
C A:TYR133 3.7 13.1 1.0
C A:SER131 3.8 16.4 1.0
CA A:GLU135 3.8 16.1 1.0
O A:GLU132 3.8 16.7 1.0
CA A:TYR133 3.8 14.4 1.0
N A:GLU132 3.9 15.1 1.0
N A:LEU134 3.9 13.8 1.0
CA A:GLU132 3.9 14.1 1.0
C A:GLU135 3.9 16.0 1.0
O A:GLU130 3.9 19.8 1.0
CB A:GLU136 4.0 21.2 0.5
CB A:GLU136 4.0 18.6 0.5
CG A:GLU136 4.0 16.3 0.5
O A:TYR133 4.1 14.6 1.0
CA A:GLU136 4.1 16.9 0.5
CA A:GLU136 4.2 15.3 0.5
CG A:GLU136 4.2 24.9 0.5
C A:LEU134 4.4 13.6 1.0
CG A:GLU135 4.5 18.3 1.0
O A:HOH471 4.6 28.2 1.0
CA A:SER131 4.7 16.9 0.5
CA A:SER131 4.7 15.8 0.5
CA A:LEU134 4.7 13.5 1.0
C A:GLU130 4.8 16.6 1.0
O A:HOH238 4.8 42.3 1.0
O A:HOH415 4.9 24.6 1.0

Chlorine binding site 5 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 5 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl188

b:12.0
occ:0.25
 NE2 A:HIS169 3.2 12.7 1.0
CD2 A:LEU165 3.9 14.3 1.0
CE1 A:HIS169 3.9 15.0 1.0
CD2 A:HIS169 4.3 11.6 1.0
CL A:CL189 4.9 18.9 0.2

Chlorine binding site 6 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 6 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl189

b:18.9
occ:0.25
 CE1 A:HIS169 3.7 15.0 1.0
NE2 A:HIS169 4.5 12.7 1.0
ND1 A:HIS169 4.6 15.9 1.0
CL A:CL188 4.9 12.0 0.2

Chlorine binding site 7 out of 7 in 3ka3

Go back to Chlorine Binding Sites List in 3ka3
Chlorine binding site 7 out of 7 in the Frog M-Ferritin with Magnesium


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Frog M-Ferritin with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl191

b:38.9
occ:1.00
 O A:HOH266 2.6 34.5 1.0
NH2 A:ARG5 3.0 13.2 1.0
N A:SER2 3.0 14.2 1.0
CB A:VAL1 3.2 26.1 1.0
O A:GLY73 3.3 13.1 1.0
CA A:VAL1 3.5 24.0 1.0
CD A:ARG5 3.5 11.9 1.0
CB A:SER2 3.6 12.3 1.0
CG1 A:VAL1 3.7 31.8 1.0
C A:VAL1 3.8 18.8 1.0
CA A:SER2 3.9 12.4 1.0
CZ A:ARG5 4.0 12.9 1.0
NE A:ARG5 4.1 12.7 1.0
O A:HOH372 4.2 22.3 1.0
CG A:ARG5 4.2 11.9 1.0
CB A:ARG5 4.3 10.8 1.0
C A:GLY73 4.3 10.8 1.0
CG2 A:VAL1 4.4 23.6 1.0
O A:HOH452 4.8 34.9 1.0
O A:HOH371 4.8 31.6 1.0
N A:VAL1 4.8 26.9 1.0
O A:SER2 4.8 11.9 1.0
OG A:SER2 4.9 13.4 1.0
C A:SER2 4.9 12.4 1.0
O A:VAL1 5.0 21.2 1.0
O A:HOH222 5.0 36.0 1.0

Reference:

T.Tosha, H.L.Ng, O.Bhattasali, T.Alber, E.C.Theil. Moving Metal Ions Through Ferritin-Protein Nanocages From Three-Fold Pores to Catalytic Sites. J.Am.Chem.Soc. V. 132 14562 2010.
ISSN: ISSN 0002-7863
PubMed: 20866049
DOI: 10.1021/JA105583D
Page generated: Sat Jul 20 22:30:42 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