Atomistry » Iron » PDB 5j85-5js5 » 5jkk
Atomistry »
  Iron »
    PDB 5j85-5js5 »
      5jkk »

Iron in PDB 5jkk: Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin

Enzymatic activity of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin

All present enzymatic activity of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin, PDB code: 5jkk was solved by M.Kuenzle, T.Beck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.37 / 1.60
Space group P 2 3
Cell size a, b, c (Å), α, β, γ (°) 180.980, 180.980, 180.980, 90.00, 90.00, 90.00
R / Rfree (%) 12.4 / 14.3

Other elements in 5jkk:

The structure of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin also contains other interesting chemical elements:

Magnesium (Mg) 17 atoms
Chlorine (Cl) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin (pdb code 5jkk). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin, PDB code: 5jkk:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 1 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:18.5
occ:1.00
OE1 A:GLU27 2.0 10.6 1.0
O A:HOH311 2.0 21.3 1.0
OE1 A:GLU62 2.1 14.3 1.0
O A:HOH334 2.1 10.6 1.0
ND1 A:HIS65 2.1 16.7 1.0
O A:HOH343 2.2 30.2 1.0
CE1 A:HIS65 3.0 20.4 1.0
CD A:GLU27 3.0 10.8 1.0
CD A:GLU62 3.0 17.9 1.0
CG A:HIS65 3.2 14.3 1.0
OE2 A:GLU62 3.4 19.8 1.0
OE2 A:GLU27 3.4 9.8 1.0
CB A:HIS65 3.7 10.3 1.0
OE1 A:GLN141 4.0 18.7 1.0
NE2 A:HIS65 4.2 18.8 1.0
CG A:GLU62 4.3 10.8 1.0
CD2 A:HIS65 4.3 16.5 1.0
CG A:GLU27 4.3 8.6 1.0
CG1 A:VAL110 4.4 11.7 1.0
O A:HOH441 4.6 33.2 1.0
CA A:GLU62 4.6 7.6 1.0
CB A:GLU62 4.7 8.6 1.0
CB A:GLU27 4.7 6.8 1.0
CD A:GLN141 4.9 14.3 1.0
OE1 A:GLU107 5.0 23.3 1.0
CA A:GLU27 5.0 6.7 1.0

Iron binding site 2 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 2 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe202

b:27.4
occ:0.50
CE1 G:HIS173 2.5 12.1 1.0
CL A:CL205 2.5 9.7 1.0
CE1 C:HIS173 2.6 12.7 1.0
NE2 G:HIS173 2.6 12.5 1.0
NE2 A:HIS173 2.6 12.3 1.0
CE1 A:HIS173 2.6 12.0 1.0
NE2 F:HIS173 2.6 10.9 1.0
CE1 F:HIS173 2.6 13.0 1.0
NE2 C:HIS173 2.6 11.8 1.0
ND1 G:HIS173 3.7 13.1 1.0
ND1 C:HIS173 3.8 13.7 1.0
ND1 A:HIS173 3.8 13.2 1.0
ND1 F:HIS173 3.8 13.5 1.0
CD2 G:HIS173 3.8 11.8 1.0
CD2 A:HIS173 3.9 12.7 1.0
CD2 C:HIS173 3.9 12.2 1.0
CD2 F:HIS173 3.9 12.1 1.0
CG G:HIS173 4.4 9.3 1.0
CG C:HIS173 4.4 9.4 1.0
CG A:HIS173 4.4 9.8 1.0
CG F:HIS173 4.5 9.6 1.0

Iron binding site 3 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 3 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:19.1
occ:1.00
OE1 B:GLU27 2.0 10.4 1.0
OE1 B:GLU62 2.1 15.1 1.0
ND1 B:HIS65 2.1 17.8 1.0
O B:HOH309 2.1 23.8 1.0
O B:HOH334 2.1 10.4 1.0
CE1 B:HIS65 2.9 22.9 1.0
CD B:GLU27 3.0 11.0 1.0
CD B:GLU62 3.0 18.4 1.0
CG B:HIS65 3.2 16.2 1.0
OE2 B:GLU62 3.3 19.5 1.0
OE2 B:GLU27 3.4 10.1 1.0
CB B:HIS65 3.6 9.8 1.0
OE1 B:GLN141 4.0 19.5 1.0
NE2 B:HIS65 4.1 21.3 1.0
CD2 B:HIS65 4.3 18.6 1.0
CG B:GLU27 4.3 9.0 1.0
CG B:GLU62 4.3 10.7 1.0
CG1 B:VAL110 4.4 11.4 1.0
O B:HOH443 4.5 37.3 1.0
CA B:GLU62 4.6 7.7 1.0
CB B:GLU27 4.7 8.0 1.0
CB B:GLU62 4.7 8.6 1.0
CD B:GLN141 4.9 14.2 1.0
CA B:GLU27 4.9 6.3 1.0

Iron binding site 4 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 4 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:18.4
occ:1.00
OE1 C:GLU27 2.0 10.6 1.0
OE1 C:GLU62 2.0 13.8 1.0
O C:HOH331 2.0 29.2 1.0
ND1 C:HIS65 2.1 15.1 1.0
O C:HOH344 2.1 11.3 1.0
O C:HOH313 2.2 24.1 1.0
CE1 C:HIS65 3.0 19.3 1.0
CD C:GLU62 3.0 16.1 1.0
CD C:GLU27 3.0 9.9 1.0
CG C:HIS65 3.2 14.6 1.0
OE2 C:GLU62 3.3 19.9 1.0
OE2 C:GLU27 3.4 10.8 1.0
CB C:HIS65 3.7 9.4 1.0
O C:HOH343 3.9 25.7 1.0
OE1 C:GLN141 4.0 19.3 1.0
NE2 C:HIS65 4.2 20.4 1.0
CG C:GLU62 4.3 11.0 1.0
CD2 C:HIS65 4.3 18.8 1.0
CG C:GLU27 4.3 9.0 1.0
CG1 C:VAL110 4.4 12.3 1.0
CA C:GLU62 4.6 7.3 1.0
CB C:GLU62 4.6 8.7 1.0
CB C:GLU27 4.7 7.0 1.0
O C:HOH404 4.9 26.6 1.0
OE1 C:GLU107 4.9 23.2 1.0
CD C:GLN141 4.9 14.3 1.0
CA C:GLU27 4.9 6.7 1.0

Iron binding site 5 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 5 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:18.0
occ:1.00
OE1 D:GLU27 2.0 9.8 1.0
OE1 D:GLU62 2.1 14.1 1.0
O D:HOH312 2.1 23.8 1.0
ND1 D:HIS65 2.1 16.1 1.0
O D:HOH325 2.1 11.7 1.0
CE1 D:HIS65 3.0 19.6 1.0
CD D:GLU62 3.0 16.2 1.0
CD D:GLU27 3.0 9.8 1.0
CG D:HIS65 3.3 13.8 1.0
OE2 D:GLU62 3.3 22.2 1.0
OE2 D:GLU27 3.4 9.7 1.0
CB D:HIS65 3.7 10.2 1.0
OE1 D:GLN141 4.0 20.9 1.0
NE2 D:HIS65 4.2 19.5 1.0
CG D:GLU27 4.3 7.6 1.0
CG D:GLU62 4.3 10.2 1.0
CD2 D:HIS65 4.3 15.8 1.0
CG1 D:VAL110 4.4 12.9 1.0
CB D:GLU62 4.6 7.8 1.0
CA D:GLU62 4.6 7.9 1.0
CB D:GLU27 4.7 6.4 1.0
OE1 D:GLU107 4.9 23.3 1.0
CD D:GLN141 4.9 14.2 1.0
CA D:GLU27 5.0 5.8 1.0

Iron binding site 6 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 6 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe202

b:12.1
occ:0.25
NE2 E:HIS173 2.6 12.6 1.0
CL D:CL205 2.6 2.0 0.2
CE1 D:HIS173 2.6 13.6 1.0
NE2 D:HIS173 2.6 12.9 1.0
CE1 E:HIS173 2.6 12.7 1.0
ND1 D:HIS173 3.8 13.1 1.0
ND1 E:HIS173 3.8 12.6 1.0
CD2 E:HIS173 3.9 11.7 1.0
CD2 D:HIS173 3.9 11.2 1.0
CG E:HIS173 4.4 9.3 1.0
CG D:HIS173 4.4 10.0 1.0

Iron binding site 7 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 7 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:18.4
occ:1.00
OE1 E:GLU27 2.0 10.5 1.0
OE1 E:GLU62 2.0 14.5 1.0
ND1 E:HIS65 2.1 18.1 1.0
O E:HOH314 2.1 25.6 1.0
O E:HOH323 2.2 12.1 1.0
CE1 E:HIS65 2.9 22.5 1.0
CD E:GLU62 3.0 17.4 1.0
CD E:GLU27 3.1 10.3 1.0
CG E:HIS65 3.2 15.8 1.0
OE2 E:GLU62 3.3 21.6 1.0
OE2 E:GLU27 3.4 9.5 1.0
CB E:HIS65 3.7 10.0 1.0
OE1 E:GLN141 3.9 18.7 1.0
NE2 E:HIS65 4.1 20.3 1.0
CD2 E:HIS65 4.3 18.0 1.0
CG E:GLU62 4.3 10.7 1.0
CG E:GLU27 4.4 8.3 1.0
CG1 E:VAL110 4.5 12.4 1.0
CA E:GLU62 4.6 7.7 1.0
CB E:GLU62 4.6 8.6 1.0
CB E:GLU27 4.7 7.2 1.0
CD E:GLN141 5.0 14.1 1.0
OE1 E:GLU107 5.0 23.7 1.0
CA E:GLU27 5.0 6.7 1.0

Iron binding site 8 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 8 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe201

b:18.6
occ:1.00
OE1 F:GLU27 2.0 10.1 1.0
OE1 F:GLU62 2.1 14.7 1.0
O F:HOH308 2.1 23.8 1.0
ND1 F:HIS65 2.1 16.7 1.0
O F:HOH345 2.1 12.2 1.0
CE1 F:HIS65 3.0 21.5 1.0
CD F:GLU27 3.0 10.4 1.0
CD F:GLU62 3.0 16.1 1.0
CG F:HIS65 3.3 15.0 1.0
OE2 F:GLU62 3.3 20.5 1.0
OE2 F:GLU27 3.4 10.7 1.0
CB F:HIS65 3.7 10.4 1.0
OE1 F:GLN141 3.9 19.7 1.0
NE2 F:HIS65 4.2 17.8 1.0
CG F:GLU27 4.3 9.1 1.0
CD2 F:HIS65 4.3 16.6 1.0
CG F:GLU62 4.3 11.6 1.0
CG1 F:VAL110 4.4 10.8 1.0
CB F:GLU62 4.6 8.6 1.0
CA F:GLU62 4.7 7.3 1.0
CB F:GLU27 4.7 7.6 1.0
CD F:GLN141 4.9 14.2 1.0
OE1 F:GLU107 5.0 23.9 1.0
CA F:GLU27 5.0 6.9 1.0
O F:HOH355 5.0 29.5 1.0

Iron binding site 9 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 9 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe201

b:18.8
occ:1.00
OE1 G:GLU27 2.0 9.6 1.0
OE1 G:GLU62 2.1 14.0 1.0
O G:HOH315 2.1 24.4 1.0
ND1 G:HIS65 2.1 17.8 1.0
O G:HOH334 2.1 11.1 1.0
CE1 G:HIS65 3.0 21.6 1.0
CD G:GLU62 3.0 16.9 1.0
CD G:GLU27 3.1 10.5 1.0
CG G:HIS65 3.2 15.5 1.0
OE2 G:GLU62 3.3 20.9 1.0
OE2 G:GLU27 3.4 10.1 1.0
CB G:HIS65 3.7 10.9 1.0
OE1 G:GLN141 4.0 18.8 1.0
NE2 G:HIS65 4.1 20.7 1.0
CG G:GLU62 4.3 10.6 1.0
CD2 G:HIS65 4.3 17.5 1.0
CG G:GLU27 4.3 9.2 1.0
CG1 G:VAL110 4.4 10.7 1.0
CA G:GLU62 4.6 8.1 1.0
CB G:GLU62 4.7 9.2 1.0
CB G:GLU27 4.7 7.0 1.0
CD G:GLN141 4.9 14.6 1.0
OE1 G:GLU107 4.9 22.4 1.0
CA G:GLU27 5.0 6.3 1.0

Iron binding site 10 out of 10 in 5jkk

Go back to Iron Binding Sites List in 5jkk
Iron binding site 10 out of 10 in the Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Crystal Structure of the Negatively Supercharged Variant Ftn(Neg) of Human Heavy Chain Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe201

b:18.2
occ:1.00
O H:HOH329 2.0 24.6 1.0
OE1 H:GLU27 2.0 10.1 1.0
OE1 H:GLU62 2.0 13.9 1.0
O H:HOH333 2.1 11.3 1.0
ND1 H:HIS65 2.1 16.3 1.0
CE1 H:HIS65 3.0 20.9 1.0
CD H:GLU62 3.0 16.9 1.0
CD H:GLU27 3.0 10.8 1.0
CG H:HIS65 3.2 14.9 1.0
OE2 H:GLU62 3.3 21.2 1.0
OE2 H:GLU27 3.4 10.1 1.0
CB H:HIS65 3.6 10.6 1.0
O H:HOH320 3.9 27.9 1.0
OE1 H:GLN141 4.0 20.2 1.0
NE2 H:HIS65 4.1 19.5 1.0
CD2 H:HIS65 4.3 16.3 1.0
CG H:GLU62 4.3 10.6 1.0
CG H:GLU27 4.3 8.7 1.0
CG1 H:VAL110 4.4 11.9 1.0
O H:HOH416 4.5 31.5 1.0
CB H:GLU62 4.6 8.4 1.0
CA H:GLU62 4.7 7.6 1.0
CB H:GLU27 4.7 7.6 1.0
OE1 H:GLU107 4.9 23.7 1.0
CD H:GLN141 4.9 12.9 1.0
O H:HOH358 5.0 29.4 1.0
CA H:GLU27 5.0 6.4 1.0

Reference:

M.Kuenzle, T.Eckert, T.Beck. Self-Assembly of Charged Protein Containers Enables Positioning of Nanoparticles in A 3-D Lattice to Form Biohybrid Materials To Be Published.
Page generated: Tue Aug 6 02:31:32 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