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Chlorine in PDB 4lyu: Fifteen Minutes Iron Loaded Frog M Ferritin

Enzymatic activity of Fifteen Minutes Iron Loaded Frog M Ferritin

All present enzymatic activity of Fifteen Minutes Iron Loaded Frog M Ferritin:
1.16.3.1;

Protein crystallography data

The structure of Fifteen Minutes Iron Loaded Frog M Ferritin, PDB code: 4lyu was solved by S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.08 / 1.75
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.843, 183.843, 183.843, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 20.4

Other elements in 4lyu:

The structure of Fifteen Minutes Iron Loaded Frog M Ferritin also contains other interesting chemical elements:

Magnesium (Mg) 7 atoms
Iron (Fe) 6 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Fifteen Minutes Iron Loaded Frog M Ferritin (pdb code 4lyu). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 9 binding sites of Chlorine where determined in the Fifteen Minutes Iron Loaded Frog M Ferritin, PDB code: 4lyu:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Chlorine binding site 1 out of 9 in 4lyu

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Chlorine binding site 1 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl214

b:20.4
occ:0.80
 O A:HOH312 2.7 10.2 1.0
O A:VAL4 2.8 11.4 1.0
O A:HOH313 2.8 9.7 1.0
O A:HOH306 2.9 10.8 1.0
C A:VAL4 3.9 11.3 1.0
N A:GLN6 4.1 10.7 1.0
CB A:GLN6 4.3 11.1 1.0
O A:LYS71 4.3 10.7 1.0
NE A:ARG72 4.5 9.8 1.0
O A:GLN6 4.6 10.4 1.0
C A:ARG5 4.6 11.1 1.0
CB A:VAL4 4.6 11.5 1.0
O A:ARG72 4.6 10.2 1.0
CA A:ARG5 4.7 11.2 1.0
CA A:ARG72 4.7 10.0 1.0
CA A:GLN6 4.7 10.8 1.0
N A:ARG5 4.7 11.4 1.0
CA A:VAL4 4.8 11.4 1.0
CD A:ARG72 4.8 9.7 1.0
CG2 A:VAL4 4.9 11.6 1.0
C A:ARG72 4.9 10.1 1.0
OE1 A:GLN6 5.0 11.9 1.0

Chlorine binding site 2 out of 9 in 4lyu

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Chlorine binding site 2 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl215

b:14.2
occ:0.25
 FE A:FE2206 2.2 10.7 0.2
NE2 A:HIS169 3.2 9.9 1.0
CE1 A:HIS169 3.3 10.1 1.0
CD2 A:LEU165 3.7 9.8 1.0
CD2 A:HIS169 4.4 10.5 1.0
ND1 A:HIS169 4.5 10.3 1.0
O A:HOH304 4.7 16.5 0.2

Chlorine binding site 3 out of 9 in 4lyu

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Chlorine binding site 3 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl216

b:13.3
occ:0.70
 O A:HOH443 3.2 32.4 1.0
N A:TYR8 3.3 10.3 1.0
N A:ASN7 3.5 10.5 1.0
O A:TYR8 3.5 11.3 1.0
CD A:ARG5 3.6 11.9 1.0
CG A:ARG5 3.6 11.6 1.0
NE A:ARG5 3.6 12.4 1.0
O A:HOH349 3.8 20.6 1.0
C A:GLN6 4.0 10.6 1.0
CA A:GLN6 4.1 10.8 1.0
C A:TYR8 4.1 11.1 1.0
CA A:ASN7 4.1 10.7 1.0
N A:GLN6 4.1 10.7 1.0
CA A:TYR8 4.1 10.7 1.0
C A:ASN7 4.2 10.6 1.0
C A:ARG5 4.3 11.1 1.0
CB A:TYR8 4.5 10.4 1.0
CB A:ARG5 4.5 11.2 1.0
O A:ARG5 4.6 11.4 1.0
O A:GLN6 4.8 10.4 1.0
CZ A:ARG5 4.9 12.7 1.0

Chlorine binding site 4 out of 9 in 4lyu

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Chlorine binding site 4 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl217

b:26.7
occ:0.50
 OE1 A:GLU63 2.4 25.7 1.0
CD A:GLU63 3.4 23.8 1.0
OE2 A:GLU63 3.6 28.0 1.0
CG A:GLU60 4.2 21.7 1.0
OE2 A:GLU60 4.7 29.2 1.0
CG A:GLU63 4.7 20.0 1.0

Chlorine binding site 5 out of 9 in 4lyu

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Chlorine binding site 5 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl218

b:16.6
occ:0.70
 O A:HOH345 3.0 17.9 1.0
O A:HOH419 3.0 25.4 1.0
ND2 A:ASN17 3.3 9.2 1.0
CB A:ASN17 3.8 8.9 1.0
CA A:ALA14 4.0 10.0 1.0
CB A:VAL77 4.0 10.9 1.0
CG A:ASN17 4.1 9.0 1.0
CB A:ALA14 4.2 10.1 1.0
O A:ALA14 4.3 9.9 1.0
CG2 A:VAL77 4.3 11.5 1.0
CG1 A:VAL77 4.4 11.2 1.0
C A:ALA14 4.7 9.8 1.0
O A:HOH329 4.7 17.2 1.0

Chlorine binding site 6 out of 9 in 4lyu

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Chlorine binding site 6 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl219

b:18.9
occ:0.70
 O A:HOH377 3.0 18.9 1.0
OD1 A:ASN7 3.5 11.7 1.0
CG A:ASN7 3.6 11.4 1.0
CB A:ASN7 4.0 11.0 1.0
ND2 A:ASN7 4.1 11.1 1.0

Chlorine binding site 7 out of 9 in 4lyu

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Chlorine binding site 7 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl220

b:20.7
occ:0.70
 O A:HOH347 2.8 16.8 1.0
O A:HOH414 3.1 10.4 1.0
CE A:LYS82 4.0 15.2 1.0
CB A:ASP80 4.1 9.0 1.0
O A:HOH423 4.1 26.9 1.0
NZ A:LYS82 4.2 16.7 1.0
OD2 A:ASP80 4.4 9.9 1.0
N A:ASP80 4.4 8.9 1.0
CG A:ASP80 4.5 9.5 1.0
CB A:GLN79 4.6 10.6 1.0
O A:ASP80 4.7 8.5 1.0
O A:HOH404 4.7 27.4 1.0
CA A:ASP80 4.8 8.8 1.0
CD A:LYS82 4.9 13.9 1.0
OE1 A:GLN79 5.0 13.6 1.0

Chlorine binding site 8 out of 9 in 4lyu

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Chlorine binding site 8 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl221

b:19.4
occ:0.70
 O A:HOH417 3.1 30.8 1.0
N A:GLU136 3.2 16.1 1.0
C A:GLU132 3.3 15.0 1.0
N A:TYR133 3.3 13.6 1.0
N A:GLU135 3.4 14.2 1.0
O A:SER131 3.6 17.4 1.0
O A:GLU132 3.6 14.8 1.0
C A:TYR133 3.7 12.8 1.0
CB A:GLU135 3.7 17.4 1.0
CA A:GLU135 3.8 15.9 1.0
CA A:GLU132 3.9 16.0 1.0
CA A:TYR133 3.9 13.0 1.0
C A:SER131 3.9 16.9 1.0
N A:LEU134 3.9 13.1 1.0
N A:GLU132 3.9 16.2 1.0
CB A:GLU136 3.9 19.6 1.0
C A:GLU135 4.0 15.6 1.0
O A:TYR133 4.0 12.5 1.0
CA A:GLU136 4.1 16.7 1.0
O A:GLU130 4.2 16.6 1.0
C A:LEU134 4.4 13.4 1.0
CG A:GLU135 4.5 19.8 1.0
CA A:LEU134 4.7 13.1 1.0
CA A:SER131 4.9 16.7 1.0
C A:GLU130 5.0 15.5 1.0

Chlorine binding site 9 out of 9 in 4lyu

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Chlorine binding site 9 out of 9 in the Fifteen Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Fifteen Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl222

b:19.6
occ:0.70
 N A:ASP87 3.2 16.1 1.0
N A:GLU88 3.6 15.0 1.0
CA A:ARG86 3.8 16.4 1.0
CB A:ARG86 3.9 17.4 1.0
C A:ARG86 4.0 15.9 1.0
CA A:ASP87 4.0 16.8 1.0
CB A:ASP87 4.0 18.6 1.0
O A:GLU88 4.1 14.0 1.0
CG A:GLU88 4.1 15.3 0.5
C A:ASP87 4.3 16.1 1.0
CG A:ARG86 4.4 18.7 1.0
NE A:ARG86 4.5 22.8 1.0
CA A:GLU88 4.6 14.9 0.5
CA A:GLU88 4.6 14.5 0.5
CB A:GLU88 4.6 16.4 0.5
OE2 A:GLU88 4.6 16.4 0.5
OD2 A:ASP87 4.6 22.7 1.0
CG A:ASP87 4.6 20.5 1.0
C A:GLU88 4.8 14.2 1.0
CB A:GLU88 4.8 15.0 0.5
CD A:GLU88 4.9 15.8 0.5

Reference:

S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli. Crystallographic Snapshots of Iron in Frog M Ferritin To Be Published.
Page generated: Sun Jul 21 19:24:38 2024

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