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Iron in PDB 1z6o: Crystal Structure of Trichoplusia Ni Secreted Ferritin

Protein crystallography data

The structure of Crystal Structure of Trichoplusia Ni Secreted Ferritin, PDB code: 1z6o was solved by A.E.Hamburger, A.P.West Jr., Z.A.Hamburger, P.Hamburger, P.J.Bjorkman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.98 / 1.91
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 206.880, 145.697, 209.158, 90.00, 94.93, 90.00
R / Rfree (%) 18.9 / 19.4

Other elements in 1z6o:

The structure of Crystal Structure of Trichoplusia Ni Secreted Ferritin also contains other interesting chemical elements:

Calcium (Ca) 8 atoms

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Iron atom in the Crystal Structure of Trichoplusia Ni Secreted Ferritin (pdb code 1z6o). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 16 binding sites of Iron where determined in the Crystal Structure of Trichoplusia Ni Secreted Ferritin, PDB code: 1z6o:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 16 in 1z6o

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Iron binding site 1 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:34.1
occ:0.78
 OE2 A:GLU165 2.2 37.1 1.0
OE2 L:GLU165 2.2 37.1 1.0
OE2 E:GLU165 2.4 37.1 1.0
O A:HOH5443 2.7 40.4 1.0
O E:HOH370 2.8 40.4 1.0
O L:HOH217 2.8 40.4 1.0
CD L:GLU165 3.0 41.0 1.0
CD A:GLU165 3.0 41.0 1.0
OE1 L:GLU165 3.1 50.9 1.0
OE1 A:GLU165 3.2 50.9 1.0
CD E:GLU165 3.2 41.0 1.0
O L:HOH325 3.2 48.0 1.0
O A:HOH5393 3.2 48.0 1.0
OE1 E:GLU165 3.3 50.9 1.0
O E:HOH319 3.3 48.0 1.0
CG L:GLU165 4.3 35.0 1.0
CG A:GLU165 4.4 35.0 1.0
NE2 A:GLN161 4.4 32.5 1.0
NE2 L:GLN161 4.4 32.5 1.0
NE2 E:GLN161 4.5 32.5 1.0
CG E:GLU165 4.6 35.0 1.0

Iron binding site 2 out of 16 in 1z6o

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Iron binding site 2 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:34.1
occ:0.78
 OE2 D:GLU165 2.1 37.1 1.0
OE2 B:GLU165 2.2 37.1 1.0
OE2 K:GLU165 2.2 37.1 1.0
O D:HOH552 2.8 40.4 1.0
O K:HOH1296 2.9 40.4 1.0
CD D:GLU165 2.9 41.0 1.0
O B:HOH6457 3.0 40.4 1.0
CD B:GLU165 3.0 41.0 1.0
CD K:GLU165 3.1 41.0 1.0
OE1 D:GLU165 3.1 50.9 1.0
OE1 B:GLU165 3.2 50.9 1.0
O B:HOH6395 3.2 48.0 1.0
O D:HOH1378 3.3 48.0 1.0
OE1 K:GLU165 3.3 50.9 1.0
O K:HOH3974 3.4 48.0 1.0
NE2 K:GLN161 4.3 32.5 1.0
CG D:GLU165 4.3 35.0 1.0
NE2 D:GLN161 4.3 32.5 1.0
CG B:GLU165 4.4 35.0 1.0
NE2 B:GLN161 4.4 32.5 1.0
CG K:GLU165 4.4 35.0 1.0

Iron binding site 3 out of 16 in 1z6o

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Iron binding site 3 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe301

b:34.1
occ:0.78
 OE2 C:GLU165 2.2 37.1 1.0
OE2 H:GLU165 2.2 37.1 1.0
OE2 I:GLU165 2.3 37.1 1.0
O C:HOH2785 2.8 40.4 1.0
O H:HOH3154 2.8 40.4 1.0
O I:HOH924 2.8 40.4 1.0
CD C:GLU165 3.0 41.0 1.0
CD H:GLU165 3.0 41.0 1.0
CD I:GLU165 3.1 41.0 1.0
OE1 C:GLU165 3.2 50.9 1.0
OE1 H:GLU165 3.2 50.9 1.0
O C:HOH1006 3.2 48.0 1.0
O H:HOH2867 3.3 48.0 1.0
O I:HOH3236 3.3 48.0 1.0
OE1 I:GLU165 3.3 50.9 1.0
CG C:GLU165 4.4 35.0 1.0
NE2 C:GLN161 4.4 32.5 1.0
CG H:GLU165 4.4 35.0 1.0
NE2 H:GLN161 4.4 32.5 1.0
NE2 I:GLN161 4.5 32.5 1.0
CG I:GLU165 4.5 35.0 1.0

Iron binding site 4 out of 16 in 1z6o

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Iron binding site 4 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe301

b:34.1
occ:0.78
 OE2 F:GLU165 2.2 37.1 1.0
OE2 J:GLU165 2.2 37.1 1.0
OE2 G:GLU165 2.2 37.1 1.0
O J:HOH2039 2.8 40.4 1.0
O F:HOH2413 2.9 40.4 1.0
O G:HOH3523 2.9 40.4 1.0
CD F:GLU165 3.0 41.0 1.0
CD G:GLU165 3.0 41.0 1.0
CD J:GLU165 3.1 41.0 1.0
OE1 F:GLU165 3.2 50.9 1.0
OE1 G:GLU165 3.2 50.9 1.0
O F:HOH2121 3.2 48.0 1.0
OE1 J:GLU165 3.3 50.9 1.0
O G:HOH2495 3.3 48.0 1.0
O J:HOH3605 3.4 48.0 1.0
NE2 J:GLN161 4.3 32.5 1.0
CG F:GLU165 4.4 35.0 1.0
NE2 G:GLN161 4.4 32.5 1.0
CG J:GLU165 4.4 35.0 1.0
NE2 F:GLN161 4.4 32.5 1.0
CG G:GLU165 4.4 35.0 1.0

Iron binding site 5 out of 16 in 1z6o

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Iron binding site 5 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Fe300

b:18.9
occ:1.00
 OE2 M:GLU32 2.0 23.0 1.0
ND1 M:HIS70 2.0 21.3 1.0
O M:HOH330 2.0 24.3 1.0
O M:HOH333 2.1 25.0 1.0
OE1 M:GLU67 2.1 25.4 1.0
CE1 M:HIS70 3.0 28.1 1.0
CD M:GLU32 3.0 26.0 1.0
CD M:GLU67 3.0 28.2 1.0
CG M:HIS70 3.1 19.8 1.0
OE2 M:GLU67 3.3 38.1 1.0
OE1 M:GLU32 3.4 26.3 1.0
CB M:HIS70 3.5 16.8 1.0
OE1 M:GLN153 4.0 22.1 1.0
NE2 M:HIS70 4.1 23.3 1.0
O M:HOH347 4.1 28.4 1.0
CD2 M:HIS70 4.2 21.6 1.0
CG M:GLU32 4.3 19.9 1.0
CG1 M:VAL119 4.3 18.9 1.0
CG M:GLU67 4.4 19.6 1.0
CA M:GLU67 4.5 15.3 1.0
O M:HOH473 4.6 53.9 1.0
CB M:GLU67 4.7 16.5 1.0
CB M:GLU32 4.7 15.7 1.0

Iron binding site 6 out of 16 in 1z6o

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Iron binding site 6 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe300

b:18.9
occ:1.00
 OE2 N:GLU32 2.0 23.0 1.0
ND1 N:HIS70 2.0 21.3 1.0
O N:HOH332 2.0 24.3 1.0
O N:HOH334 2.1 25.0 1.0
OE1 N:GLU67 2.1 25.4 1.0
CE1 N:HIS70 3.0 28.1 1.0
CD N:GLU32 3.0 26.0 1.0
CD N:GLU67 3.0 28.2 1.0
CG N:HIS70 3.1 19.8 1.0
OE2 N:GLU67 3.3 38.1 1.0
OE1 N:GLU32 3.4 26.3 1.0
CB N:HIS70 3.5 16.8 1.0
OE1 N:GLN153 4.0 22.1 1.0
NE2 N:HIS70 4.1 23.3 1.0
O N:HOH348 4.1 28.4 1.0
CD2 N:HIS70 4.2 21.6 1.0
CG N:GLU32 4.3 19.9 1.0
CG1 N:VAL119 4.3 18.9 1.0
CG N:GLU67 4.4 19.6 1.0
CA N:GLU67 4.5 15.3 1.0
O N:HOH475 4.6 53.9 1.0
CB N:GLU67 4.7 16.5 1.0
CB N:GLU32 4.7 15.7 1.0

Iron binding site 7 out of 16 in 1z6o

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Iron binding site 7 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Fe300

b:18.9
occ:1.00
 OE2 O:GLU32 2.0 23.0 1.0
ND1 O:HIS70 2.0 21.3 1.0
O O:HOH351 2.1 24.3 1.0
O O:HOH354 2.1 25.0 1.0
OE1 O:GLU67 2.1 25.4 1.0
CE1 O:HIS70 3.0 28.1 1.0
CD O:GLU32 3.0 26.0 1.0
CD O:GLU67 3.0 28.2 1.0
CG O:HIS70 3.1 19.8 1.0
OE2 O:GLU67 3.3 38.1 1.0
OE1 O:GLU32 3.4 26.3 1.0
CB O:HIS70 3.5 16.8 1.0
OE1 O:GLN153 4.0 22.1 1.0
NE2 O:HIS70 4.1 23.3 1.0
O O:HOH368 4.1 28.4 1.0
CD2 O:HIS70 4.2 21.6 1.0
CG O:GLU32 4.3 19.9 1.0
CG1 O:VAL119 4.3 18.9 1.0
CG O:GLU67 4.4 19.6 1.0
CA O:GLU67 4.5 15.3 1.0
O O:HOH492 4.6 53.9 1.0
CB O:GLU67 4.7 16.5 1.0
CB O:GLU32 4.7 15.7 1.0

Iron binding site 8 out of 16 in 1z6o

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Iron binding site 8 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe300

b:18.9
occ:1.00
 OE2 P:GLU32 2.0 23.0 1.0
ND1 P:HIS70 2.0 21.3 1.0
O P:HOH335 2.0 24.3 1.0
O P:HOH338 2.1 25.0 1.0
OE1 P:GLU67 2.1 25.4 1.0
CE1 P:HIS70 3.0 28.1 1.0
CD P:GLU32 3.0 26.0 1.0
CD P:GLU67 3.0 28.2 1.0
CG P:HIS70 3.1 19.8 1.0
OE2 P:GLU67 3.3 38.1 1.0
OE1 P:GLU32 3.4 26.3 1.0
CB P:HIS70 3.5 16.8 1.0
OE1 P:GLN153 4.0 22.1 1.0
NE2 P:HIS70 4.1 23.3 1.0
O P:HOH352 4.1 28.4 1.0
CD2 P:HIS70 4.2 21.6 1.0
CG P:GLU32 4.3 19.9 1.0
CG1 P:VAL119 4.3 18.9 1.0
CG P:GLU67 4.4 19.6 1.0
CA P:GLU67 4.5 15.3 1.0
O P:HOH477 4.6 53.9 1.0
CB P:GLU67 4.7 16.5 1.0
CB P:GLU32 4.7 15.7 1.0

Iron binding site 9 out of 16 in 1z6o

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Iron binding site 9 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
Q:Fe300

b:18.9
occ:1.00
 OE2 Q:GLU32 2.0 23.0 1.0
ND1 Q:HIS70 2.0 21.3 1.0
O Q:HOH1541 2.1 24.3 1.0
O Q:HOH1547 2.1 25.0 1.0
OE1 Q:GLU67 2.1 25.4 1.0
CE1 Q:HIS70 3.0 28.1 1.0
CD Q:GLU32 3.0 26.0 1.0
CD Q:GLU67 3.0 28.2 1.0
CG Q:HIS70 3.1 19.8 1.0
OE2 Q:GLU67 3.3 38.1 1.0
OE1 Q:GLU32 3.4 26.3 1.0
CB Q:HIS70 3.5 16.8 1.0
OE1 Q:GLN153 4.0 22.1 1.0
NE2 Q:HIS70 4.1 23.3 1.0
O Q:HOH1570 4.1 28.4 1.0
CD2 Q:HIS70 4.2 21.6 1.0
CG Q:GLU32 4.3 19.9 1.0
CG1 Q:VAL119 4.3 18.9 1.0
CG Q:GLU67 4.4 19.6 1.0
CA Q:GLU67 4.5 15.3 1.0
O Q:HOH1813 4.6 53.9 1.0
CB Q:GLU67 4.7 16.5 1.0
CB Q:GLU32 4.7 15.7 1.0

Iron binding site 10 out of 16 in 1z6o

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Iron binding site 10 out of 16 in the Crystal Structure of Trichoplusia Ni Secreted 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 Trichoplusia Ni Secreted Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Fe300

b:18.9
occ:1.00
 OE2 R:GLU32 2.0 23.0 1.0
ND1 R:HIS70 2.0 21.3 1.0
O R:HOH1919 2.0 25.0 1.0
O R:HOH1913 2.1 24.3 1.0
OE1 R:GLU67 2.1 25.4 1.0
CE1 R:HIS70 3.0 28.1 1.0
CD R:GLU32 3.0 26.0 1.0
CD R:GLU67 3.0 28.2 1.0
CG R:HIS70 3.1 19.8 1.0
OE2 R:GLU67 3.3 38.1 1.0
OE1 R:GLU32 3.4 26.3 1.0
CB R:HIS70 3.5 16.8 1.0
OE1 R:GLN153 4.0 22.1 1.0
NE2 R:HIS70 4.1 23.3 1.0
O R:HOH1942 4.1 28.4 1.0
CD2 R:HIS70 4.2 21.6 1.0
CG R:GLU32 4.3 19.9 1.0
CG1 R:VAL119 4.3 18.9 1.0
CG R:GLU67 4.4 19.6 1.0
CA R:GLU67 4.5 15.3 1.0
O R:HOH2185 4.6 53.9 1.0
CB R:GLU67 4.7 16.5 1.0
CB R:GLU32 4.7 15.7 1.0

Reference:

A.E.Hamburger, A.P.West, Z.A.Hamburger, P.Hamburger, P.J.Bjorkman. Crystal Structure of A Secreted Insect Ferritin Reveals A Symmetrical Arrangement of Heavy and Light Chains. J.Mol.Biol. V. 349 558 2005.
ISSN: ISSN 0022-2836
PubMed: 15896348
DOI: 10.1016/J.JMB.2005.03.074
Page generated: Sat Aug 3 18:10:41 2024

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